UIC Bioengineering Annual Report 2017

2016-2017 Annual Report

2016-2017 ANNUAL REPORT

CHICAGO’S

bridging engineering & medicine through

PUBLIC RESEARCH

academic & research affiliations in a world class city

UNIVERSITY

1 Message from the Head

20 Seminar Series

2 Core Faculty Profiles

22 Image of Research

4 Affiliate Faculty Profiles

23 Senior Design Expo

6 Research Funding

24 Guaranteed Paid Internship Program

10 Graduates 2016-2017

25 Clinical Immersion Internship

12 Student Enrollment

26 Student Organizations

13 New Degree: B.S. in Bioinformatics

28 Archival Journal Publications of Core Faculty

14 Department News

32 Patents

16 Alumni Highlights

33 Bioengineering Industry Day

18 Papautsky Lab

Credits Front cover image: Shresta Patangay, Image of Research competition; more on page 22 Back cover image: Brad Cavanaugh Editor: Thomas J. Royston Designers: Beiruo He, Alexandros Skouras

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Dear Friends of the UIC Richard and Loan Hill Department of Bioengineering, For the past six years we have published two newsletters, Fall and Spring, highlighting recent activities. These are archived on our website at “Newsletter” under the “About Us” link. This is our second annual report providing more detail on activities and accomplishments of our students and faculty over the past academic year, including this past summer (August 2016 – August 2017).

Many metrics related to education and research are up this year, including both undergraduate and graduate degrees conferred, as well as archival peer-reviewed journal publications and peer-reviewed external grants for both educational innovations and research projects.

While we continue to expand enrollment in our undergraduate program in bioengineering and our graduate programs in bioengineering and bioinformatics, we are proud to announce the launch of a new undergraduate degree in bioinformatics, tentatively set for Fall 2018. This is in partnership with the Department of Computer Science at UIC. More information about this and many other new developments can be found inside.

As always, thank you for helping support our continued pursuit of excellence. Gifts targeted to the department continue to help us achieve our strategic goals, and could include opportunities to endow a named professorship, scholarship, laboratory, or special facility or program. Recently, with your generous support to the department we have been able to increase the number of scholarships we can offer to deserving incoming undergraduates. For more information on giving see “Give to BioE” under “About Us” on our website. In addition to financial support, I know that the network of UIC BioE alumni and friends will continue to help our students find internship and employment opportunities. Perhaps you would like to participate in our next Bioengineering Industry Day? (Learn about it inside.) I am always happy to meet our alumni and friends and welcome your visit. And, please join our Facebook group; see the link on the cover.

Best wishes for a great new school year,

Thomas J. Royston

Message from the Head

Contents

2016-2017 Annual Report 1

Core Faculty Profiles

2

2016-2017 Annual Report 3

Megha Agrawal, Ph.D. Research Assistant Professor • Neuroscience • Neurodegeneration & Neuroprotection agrawalm@uic.edu | 312.355.0223

Miiri Kotche, Ph.D. Clinical Associate Professor • Interdisciplinary medical product development (IMPD) • Senior design • Global health

Cristian Luciano, Ph.D. Research Assistant Professor • Haptic virtual reality • Surgical simulation clucia1@uic.edu | 312.996.8050

Associate Director of Graduate Studies • Bioinformatics yangdai@uic.edu | 312.413.1487

David Eddington, Ph.D. Associate Professor Director of Graduate Studies • Microfluidics dte@uic.edu | 312.355.3278

Hananeh Esmailbeigi, Ph.D.

pattonj@uic.edu | 312.413.7664

Terry Layton, Ph.D.

Richard Magin, Ph.D.

Senior Lecturer • Senior design • Medical device design • FDA regulations

University Distinguished Professor • MRI • Targeted drug delivery • Bioelectromagnetics

tnl@uic.edu | 312.355.2148

rmagin@uic.edu | 312.413.5528

James Lee, Ph.D. Associate Professor • Alzheimer’s disease • Membrane physics • Cell signaling

Ao Ma, Ph.D.

leejam@uic.edu | 312.355.6102

Professor (UIC & Shirley Ryan AbilityLab ) • Robotics for therapeutic neuro-rehabilitation • Haptics • Human-machine interfaces • Neural control

mkotch2@uic.edu | 312.413.8641

Yang Dai, Ph.D. Associate Professor

James Patton, Ph.D.

Associate Professor • Bioinformatics • Microtubules dynamic modeling aoma@uic.edu | 312.996.7225

Thomas Royston, Ph.D. Professor & Department Head • Biomedical acoustics • MR elastography troyston@uic.edu | 312.996.2335

Jae-won Shin, Ph.D. Assistant Professor (Pharmacology & Bioengineering) • Tissue engineering • Stem cell biology shinjw@uic.edu | 312.355.4435

Clinical Assistant Professor Associate Director of Undergraduate Studies • Neural engineering • Neural & biological signal processing • Biostrumentation • Global health device development hesmai2@uic.edu | 312.996.3151

Anthony E. Felder, Ph.D. Clinical Assistant Professor • Retinal oxygenation • Ophthalmological device design & instrumentation • Engineering education

Alex Leow, M.D., Ph.D. Associate Professor (Psychiatry & Bioengineering) • Board-certified in psychiatry • Computational neuroimaging

G. Ali Mansoori, Ph.D. Professor Emeritus (Bioengineering & Chemical Engineering) • Nanotechnology • Thermodynamics

aleow@psych.uic.edu | 312.768.8842

mansoori@uic.edu | 312.996.5592

afelde2@uic.edu | 312.996.5225

Xue-Jun Li, Ph.D. John R. Hetling, Ph.D. Associate Professor Director of Undergraduate Studies • Electrophysiology of vision • Functional imaging

Associate Professor, U of I Rockford • Stem cells • Neural development & degeneration xjli23@uic.edu | 815.395.5882

Mathew T. Mathew, Ph.D. Associate Professor, U of I Rockford • Corrosion and tribocorrosion aspects of implant bio-materials in dentistry and orthopaedics mtmathew@uic.edu | 815.395.5883

Tolou Shokuhfar, Ph.D. Associate Professor • Nanotechnology & nanomedicine • Orthopedic implants tolou@uic.edu | 312.413.9872

Michael Stroscio, Ph.D. Richard and Loan Hill & University Distinguished Professor (Electrical & Computer Engineering & Bioengineering) • Nanobiotechnology • Nanoelectronics • Integrated bio-nano complexes stroscio@uic.edu | 312.413.5968

jhetli1@uic.edu | 312.413.8721

Salman Khetani, Ph.D. Associate Professor • Tissue engineering • Biomaterials • Micro-fabrication & Micro-fluidics • Liver physiology • Drug development

Jie Liang, Ph.D.

William O’Neill, Ph.D.

Richard and Loan Hill Professor • Bioinformatics • Computational systems biology

Professor • Neuroscience • Pupillography

jliang@uic.edu | 312.355.1789

woneill@uic.edu | 312.413.2294

Christos Takoudis, Ph.D. Professor (Bioengineering & Chemical Engineering) • Biomaterials & nanotechnology • Chemical/biochemical interfacial engineering takoudis@uic.edu | 312.355.0859

skhetani@uic.edu | 312.413.9424

Dieter Klatt, Ph.D. Assistant Professor • Elastography • MRI • Motion-sensitive imaging dklatt@uic.edu | 312.413.1747

Andreas Linninger, Ph.D. Professor • Drug delivery • Hemodynamics of the brain • Metabolic engineering • Bioprocess design • Biomechanics linninge@uic.edu | 312.413.7743

Ian Papautsky, Ph.D.

Xincheng Yao, Ph.D.

Richard & Loan Hill Professor • Microfluidics • POC sensors for medical/public health applications

(Bioengineering & Ophthalmology) • Biomedical optics instrumentation

papauts@uic.edu | 312.413.3800

Richard & Loan Hill Professor

• Optical imaging of retinal function xcy@uic.edu | 312.413.2016

Affiliate Faculty Profiles

4

2016-2017 Annual Report 5

Zhuming Ai, PhD

Richard Gemeinhart, PhD

Natalia Maltsev, MD, PhD

Charles Rhodes, PhD

Robert Anderson, PhD

Anne George, PhD

Hansen Mansy, PhD

Brenda Russell, PhD

Gunnar Andersson, MD, PhD

Ben Gerber, MD

Jeremy Mao, PhD

Aheda Saber, PhD

Anjum Ansari, PhD

Maryellen L. Giger, PhD

Phillip Marucha, PhD

Juan Salazer, PhD

Alexander Aruin, PhD

Mark Grabiner, PhD

Farzad Mashayek, PhD

Patrick Salmon, Pharm.D, PhD

Boaz Avitall MD, PhD

Oliver Graudejus, PhD

J. Jason McAnany, PhD

Hee-Jeong Sampen, PhD

Amelia Bartholomew, MD, MPH, FACS

Daniel Graupe, PhD

Irving Miller, PhD

Laxman Saggere, PhD

Anil Gulati, PhD

Rachel Miller, PhD

Dan Schonfeld, PhD

Ogan Gurel, PhD

David Mogul, PhD

Joel Schwartz, DMD, DMSc

Nadim Hallab, PhD

Pirooz Mohazzabi, PhD

Stanley Sclove, PhD

Luke Hanley, PhD

Raghu Natarajan, PhD

Michael Scott, PhD

Glenn Hedman, MS

Hammad Naveed, PhD

Kotaro Sena, DDS, PhD

Daniel Hier, MD

Craig Niederberger, MD

Ahmed Shabana, PhD

Seungpyo Hong, PhD

S. Jay Olshansky, PhD

Anton J. Hopfinger, PhD

Steven Olson, PhD

Constance Jeffery, PhD

Hayat Onyuksel, PhD

Michael Johnson, PhD

Alejandro Espinoza Orias

Brenda Sposato, MEBME

Marc Ovadia, MD

Glenn Stebbins, PhD

Clive Pai, PhD

D. Rick Sumner, PhD

Philip Patston, PhD

Janet Szlyk, PhD

Avinash G. Patwardhan, PhD

Peter Tek, MS, DO

Dept/Company: Biomedical Health Information Dept/Company: Rush University Medical Center OB/GYN Dept/Company: Rush University Medical Center Orthopedics Dept/Company: Physics

Dept/Company: Physical Therapy Dept/Company: Cardiac Electrophysiology Dept/Company: Surgery

William Beck, PhD

Dept/Company: Biopharmaceutical Sciences

Anakarina Bedran-Russo, PhD Dept/Company: Dentistry

Tanya Berger-Wolf, PhD

Dept/Company: Computer Science

Dulal Bhaumik, PhD

Dept/Company: Epidemiology & Biostatistics

Alan Boghosian, DDS

Dept/Company: Northwestern University Dental School

Scott T Brady, PhD

Dept/Company: Anatomy and Cell Biology

Kenneth Brezinsky, PhD

Dept/Company: Mechanical & Industrial Engineering

Dept/Company: Pharmaceutics/Pharmacodynamics Dept/Company: Oral Biology Dept/Company: Medicine Dept/Company: University of Chicago Radiology Dept/Company: Kinesiology Dept/Company: Princeton Physiology Dept/Company: Electrical & Computer Engineering Dept/Company: Midwestern University Pharmacy Dept/Company: Aesis Research Group Dept/Company: Rush University Medical Center Orthopedics Dept/Company: Chemistry Dept/Company: Disability and Human Development Dept/Company: Neurology Dept/Company: Biopharmaceutical Sciences

Elisa Budyn, PhD

Dept/Company: Medicinal Chemistry

Kejia Cai, PhD

Dept/Company: Biological Sciences

Dingcai Cao, PhD

Dept/Company: Pharmaceutical Biotechnology

David Carley, PhD

Dept/Company: Bioengineering

Sabri Cetin, PhD

Dept/Company: Biological Sciences

Dept/Company: Mechanical & Industrial Engineering Dept/Company: Radiology

Dept/Company: Ophthalmology Dept/Company: Medicine

Dept/Company: Mechanical & Industrial Engineering

Donald Chambers, PhD

Dept/Company: Biochemistry

Michael Cho, PhD

Dept/Company: UT Arlington Bioengineering

Daniel Corcos, PhD

Dept/Company: Northwestern Physical Therapy

Bhaskar Das Gupta, PhD

Dept/Company: Computer Science

Pieter de Tombe, PhD

Dept/Company: Loyola Physiology

John Daugirdas, PhD

Dept/Company: Medicine

Greg Jursich, PhD

Lon Kaufman, PhD

Robert Kenyon, PhD

Dept/Company: Computer Science

Robert Kleps, PhD

Dept/Company: Research Service Facility

Dept/Company: Vishwamitra Research Institute

Mary Jo Ladu, PhD

Dept/Company: Anatomy & Cell Biology

Andrew Larson, PhD

Dept/Company: Northwestern University Radiology

Irena Levitan, PhD

Dept/Company: Pulmonary, Critical Care, Sleep Medicine

Carla Evans, DDS

Qingbo Li, PhD

Christopher Fall, PhD

Chun Liu, PhD

Alan Feinerman, PhD

Dept/Company: Electrical & Computer Engineering

Douglas Feinstein, PhD

Dept/Company: Anesthesiology

Jesus Garcia-Martinez, MD, PhD

Dept/Company: Physiology & Biophysics

Dept/Company: Mechanical & Industrial Engineering Dept/Company: Ophthalmology and Visual Science Dept/Company: Chemical Engineering Dept/Company: Rush University Medical Center Dept/Company: Illinois Institute of Technology Biomedical Engineering Dept/Company: University of Wisconsin Parkside Dept/Company: Rush University Medical Center Dept/Company: Toyota Technological Institute at Chicago Dept/Company: Urology

Dept/Company: Epidemiology and Biostatistics Dept/Company: Oral Diseases Dept/Company: Pharmaceutics Dept/Company: Rush University Medical Center Orthopedic Surgery

Dept/Company: UC Pediatrics Dept/Company: Physical Therapy Dept/Company: Oral Medicine

Dept/Company: Radiology/ Nuclear Medicine

Jianxun Li, PhD

Dept/Company: Georgetown Computer Science

Dept/Company: Periodontics

Prakash Kotecha, PhD

Dept/Company: Kinesiology

Urmila Diwekar, PhD

Dept/Company: Orthodontics

Dept/Company: Columbia University Medical Center

Timothy Koh, PhD

Fei Li, PhD

Dept/Company: Bioengineering

Dept/Company: Rush University Medical Center Pediatrics

Dept/Company: Edward Hines Jr. VA Hospital,Loyola University Stritch School of Medicine

Carmen DiGiovine, PhD

Dept/Company: 6 Degrees of Freedom, LLC

Dept/Company: Human genetics Department, University of Chicago

Dept/Company: Pharmacology Dept/Company: Oral Biology Dept/Company: Pharmaceutical Biotechnology Dept/Company: Penn State University

Aiming Lu, PhD

Dept/Company: MR Research Center

Nadim Mahmud, PhD

Dept/Company: Medicine

Asrar Malik, PhD

Dept/Company: Pharmacology

Dan Pavel, PhD

David R. Pepperberg, PhD

Dept/Company: Ophthalmology

Pavel Petukhov, PhD

Dept/Company: Medicinal Chemistry & Pharmacognosy

William Pietrzak, PhD

Dept/Company: Biomet, Inc

Stephen W. Porges, PhD Dept/Company: Psychiatry

Robin Pourzal, PhD

Dept/Company: Rush University Medical Center

Jalees Rehman, MD

Dept/Company: Cardiology, Medicine & Pharmacology

Kim Reisinger, PhD

Dept/Company: Center for International Rehabilitation

Susan Renner

Dept/Company: Hines VA Hospital

Brian Roman, PhD

Dept/Company: University of Chicago Radiology

Mark Rosenblatt, MD, PhD, MBA Dept/Company: Ophthalmology

Patrick Rousche, PhD

Dept/Company: Ensis Scientific Consulting

Dept/Company: Physics

Dept/Company: Physiology & Biophysics Dept/Company: Governors State University Dept/Company: Kansas State University Chemical Engineering Dept/Company: Neurosciences, Geneva School of Medicine (CMU) Dept/Company: Rush University Medical Center Biochemistry Dept/Company: Mechanical & Industrial Engineering Dept/Company: Electrical & Computer Engineering Dept/Company: Oral Medicine

Dept/Company: Information & Decision Sciences Dept/Company: Mechanical & Industrial Engineering Dept/Company: Rush University Medical Center Anatomy & Cell Biology

Dept/Company: Mechanical & Industrial Engineering

Mahnaz Shahidi, PhD

Dept/Company: Ophthalmology

Sadhana Sharma, PhD

Dept/Company: Ohio State University

Scott Shippy, PhD

Dept/Company: Chemistry Dept/Company: Assistive Technology Dept/Company: Rush University Medical Center Neurological Sciences Dept/Company: Rush University Medical Center Anatomy & Cell Biology Dept/Company: Ophthalmology & Visual Sciences Dept/Company: Midwestern University Urology

Joseph Towles, PhD

Dept/Company: Rehabilitation Institute of Chicago

Matthew Tresch, PhD

Dept/Company: Northwestern University Physiology

Karen Troy, PhD

Dept/Company: Movement Sciences

David Ucker, PhD

Dept/Company: Microbiology & Immunology

Amarjit Virdi, PhD

Dept/Company: Rush University Medical Center Anatomy & Cell Biology

Kishore Wary, PhD

Dept/Company: Pharmacology

Jamie Williams, PhD

Dept/Company: Robson Forensic

Markus Wimmer, PhD

Dept/Company: Rush University Medical Center Orthopedics

Shaolin Yang, PhD

Dept/Company: Psychiatry, Radiology

Antonia Zaferiou, PhD

Dept/Company: Rush University Medical Center

X. Joe Zhou, PhD

Dept/Company: Radiology

Bert Zuber, PhD

Dept/Company: Professor Emeritus

Research Funding

6

2016-2017 Annual Report 7

National Science Foundation (NSF)

National Institutes of Health (NIH) PI (Co-I’s in the Department) TITLE OF PROJECT

PERIOD

AMOUNT

PI (Co-I’s in the Department) TITLE OF PROJECT

PERIOD

AMOUNT

David Eddington

Confined Genetic Transformation and Exchange of Antibiotic Resistance Genes in Femtoliter Microdroplets

6/08/2017-5/31/2020

$416,000

David Eddington

EAGER: Collaborative Proposal A Microfluidic Platform for the Discovery of New Life like Chemical Systems

8/1/2016-7/31/2018

$150,000

Salman Khetani

Exploring HCV Infection in Engineered Cultures of iPSC-Derived Human Liver

12/01/14-11/30/2016

$150,000

Salman Khetani

CAREER Towards a Stem Cell-Derived 3D Human Liver Array for High-Throughout

7/1/2014-3/31/2019

$405,886

Salman Khetani

Collaborative Research: High-throughput microliver platform for drug toxicity screening

8/24/2017-7/31/2019

$300,000

Jie Liang

Using Empirical and Mathematical Approaches to Model Yeast Gradient Sensing

8/1/2014-7/31/2018

$204,109

Inthrathecal Magnetic Drug Targeting To The Central Nervous SystemWith Superparamagnetic Nanoparticles

5/1/2014-4/30/2017

$310,848

A vascular tree topology inspired platform to compute intracranial blood flow (tree CFD)

8/04/2017-7/31/2020

$420,000

Conformational dynamics, reaction coordinates, and time scale separation in biomolecular systems from the perspective of energy flows

8/1/2017-7/31/2020

$405,000

HCC Medium Collaborative Research Force Feedback for Fingertips

6/1/2013-5/31/2017

$399,669

Ian Papautsky

Center for Advanced Design and Manufacturing of Integrated Microfluidics

12/2016-2/2019

$138,000

Ian Papautsky

Electrochemical Methods for Improving Metal Extraction

6/2017-5/2018

$50,000

Ian Papautsky

PFI: AIR-TT: Integrated Microfluidic System for Cell Separation and Enrichment

5/2016-10/2017

$200,000

Tolou Shokuhfar

CAREER: A New Perspective on Biomineralization in Healthy and Dysfunctional Ferritins

9/1/2014-6/30/2019

$400,000

Tolou Shokuhfar

Fundamental Understanding of Growth and Inhibition of Calcium Oxalate Kidney Stones

8/15/2017-7/31/2020

$390,000

David Stone (Jie Liang)

Workshops: Finding your inner modeler: how computational biology can advance your research and how to get started

6/2017-7/2019

$95,000

Miiri Kotche Miiri Kotche (John Hetling, Thomas Royston)

Bioengineering Summer Research Experience for High School Teachers

1/1/2016-12/31/2020

Translational Design of Medical Devices

4/15/2014-3/31/2019

$539,177

Andreas Linninger Andreas Linninger

$215,840 Ao Ma

James Lee

Cytosolic Phospholipase A2 in Amyloid-Beta Peptide-Stimulated Cerebral Endothelium

Jie Liang

Computational Assembly of Beta Barrel Membrane Protein

9/1/2013-8/31/2017

$1,458,279

Jie Liang

Database and Tools for Functional Inference and Mechanistic Insight into Somatic Cancer Mutations

4/01/2017-3/31/2020

$1,064,054

Jie Liang

OmpG Nanopore for Single Molecule Protein Sensing

4/01/2016-03/31/2018

$24,889

Andreas Linninger

Computational platform for predictive magnetohydrodynamic drug targeting

8/30/2017-8/30/2020

$297,000

Ao Ma

Determining the spindle dynamics regulatory network with an integrated approach

9/30/2010-8/31/2016

$1,551,920

Ian Papautsky

Development of a lab on a chip for point of care biomonitoring of blood metals

1/2017-5/2018

$676,010

Ian Papautsky

Validation and Demonstration Of Point Of Care Sensor For Multi Metal Exposure Assessment

1/2017-2/2018

$339,047

James Patton

Error Enhanced Learning and Recovery 2 and 3 Dimensions

7/1/2013-6/30/2018

$1,600,000

Thomas Royston (Dieter Klatt)

Acquisition of Hyperpolarized Gas System for Lung MR Imaging

4/1/2017-3/31/2018

$479,745

Thomas Royston (Dieter Klatt, Richard Magin)

Noninvasive tools for assessing muscle structure and function (Subcontract through NU)

8/01/2016-7/31/2021

$633,489

Xincheng Yao

Functional Imaging of Retinal Photoreceptors

4/1/2015-3/31/2019

$1,727,050

Xincheng Yao

Super Resolution Opthalmoscopy For In Vivo Retinal Imaging

5/1/2015-8/31/2017

$1,044,860

5/1/2014 - 4/30/2019

$1,538,304 Thomas Royston (Dieter Klatt)

8

2016-2017 Annual Report 9

Other Agencies and Industry PI (Co-I’s in the Department) TITLE OF PROJECT

PERIOD

GRANTING AMOUNT AGENCY

Megha Agrawal

New Approaches and Routes to Battle Neurodegenerative Disorders

2/16/2016-2/15/2017

USA Prime Business LLC

$168,957

Mitra Dutta (Michael A. Stroscio)

Improving the Understanding of Heat and Carrier Transport in Electronic Heterostructure Devices by Proper Treatment of Boundary Effects in Wide Bandgap Structures including AlGaN

8/2016-7/2019

AFOSR

$500,000

Hananeh Esmailbeig

Tongue Compute Interface

4/1/17-12/31/17

Venturewell

$5000

Gregory Jursich

All Printable Real Time Airframe Monitoring Systems ARAMS

2/24/2015-9/12/2017

ARAMS

$110,552

Salman Khetani

Network Models of Rat Liver and Kidney Metabolism for Toxicology Predictions

2/1/2016-1/31/2017

University of Virginia

$39,887

James Patton

Machines Assisting Recovery From Stroke And Spinal Cord Injury For Reintegration Into Society

10/01/2012-9/30/2018

NIDRR

$5,700,000

Thomas Royston

Promoting Healing of Tendinopathies Using Therapeutic Mechanobiologic Stimulation for Targeted Removal of Aggrecan-Rich Deposits

1/1/2016-12/31/2016

VATech

$35,539

Tolou Shokuhfar

Direct Observation of Fiber Fluid Hygrophobic Interactions with Liquid Cell TEM

9/1/15-8/31/17

The Nonwovens Institute

$79,513

Tolou Shokuhfar (Emre Firlar)

CBC Postdoctoral Research Grant Program funding

08/15/2016-08/15/2017

Chicago Biomedical Consortium

$15,000

Tolou Shokuhfar

Bacteria-Surface Adhesion Interactions: New Perspectives in Antifouling Surface Design

08/15/2016-08/15/2019

The Nonwovens Institute

$164,106

Michael A. Stroscio

MURI on Near and Far Field Interfaces to DNA, Guided Nanostructures from RF to Lightwave: Exploiting the Spectrum, Multi-functional UV-Visible-IR Nanosensors Devices and Structures, MURI

11/2010 -10/2017

ARO

$390,000

Michael A. Stroscio

Novellus (now LAM) Grant on Characterization of Nanoscale Voids on Metallic Surfaces

Started 2012 under MRC with no specific end date – based on current spending rate effort should end ca. 2017/2018

Novellus/LAM

$200,000

Michael A. Stroscio

Tailoring Vibrational Modes and Interactions in Resonators and Waveguides: Multiscale Model of Modes: Transition from MEMS to NEMS

8/2016-3/2017

ARO

$50,000

Michael A. Stroscio

Quantum Engineering of States in Heterostructure Detectors for Enhanced Performance

9/2015-3/2017

AFOSR

$100,000

Ventriculo Vascular Coupling in PAH Significance of Large Vessel Remodeling on Cardiac and Pulmonary Vascular

7/1/2016-6/30/2019

AHA

$228,323

Daniela Valdez-Jasso

PI (Co-I’s in the Department) TITLE OF PROJECT

PERIOD

GRANTING AMOUNT AGENCY

Tolou Shokuhfar

Observation of Biomineralization Dynamics in Magnetotactic Bacteria via in situ Transmission Electron Microscopy

08/15/2016-08/15/2017

Chicago Biomedical Consortium

$15,000

Tolou Shokuhfar

Extended Release Efficiency of Dental Nanotubes Loaded with Antibiotics

05/01/2016-05/31/2017

American Association of Implant Dentistry (AAID)

$25,000

NIH

NSF

$14,055,664

OTHER

$3,568,512 $7,826,877

$25,451,053 in active research grants during AY 2016-2017

Graduates 2016–2017

10

2016-2017 Annual Report 11

DOCTORAL Sang Joon Ahn

Role of Endothelial Potassium Channels in Vasodilation Under Normal and Dyslipidemic Condition

Leszek B Bogdanowicz

Diagnosis of Glaucoma by 3D Reconstruction of Optic Nerve Head with a Portable Ocular Imaging System

Martin Dean Brennan

Zhinan Wang

Study of Hypoxia on Embryogenesis, Pharmaceutical Testing and Stem Cell Regulation Using Drosophila Model

Allen Qingbo Ye

Multiple-Scale Analysis on the Fractal Structure of the Brain using Diffusion Magnetic Resonance Imaging

Jieling Zhao

Anthony E Felder

Multi-Modal Imaging of Retinal Oxygenation

Gamze Gursoy

Three-Dimensional Chromosome Organization in Eukaryotes: Novel Computational Approaches

Zahra Haddad Derafshi

Multi-Electrode Electroretinography: Measuring Spatial Differences in Corneal Potentials

Cierra Michelle Hall

A Luminance Noise Approach to Target Post-Receptor Visual Pathways; Application to Optic Nerve Disease

Chihyang Hsu

Medical Imaging Techniques for Characterizing Cerebral Angioarchitecture

Dinesh Jaishankar

Engineering a Higher Efficacy Anti-Heparan Sulfate Peptide for an EntryBased Antiviral Therapy

Elizabeth Lynn Le Master

Synergistic Effect of Hemodynamic Environment and Dyslipidemia on Endothelial Biomechanics

Meishan Lin

Computational and Experimental Investigations of Folding Principles and Design of Outer Membrane Proteins

Maleeha Mashiatulla

Structural and Compositional Assessment of Bone and Articular Cartilage with Micro-Computed Tomography

Joshua Elias Mendoza-Elias

Microfluidic-based Strategies to Improve Islet and Encapsulated Islet Transplant for Type I Diabetes

Ashley Nicole Selner

Three-Dimensional Finite Element Models of Corneal Electroretinogram Potentials in Rat

Amit K Shah

Reshaping Movements Through Avoidance of Negative Events: A General Adaptive Controller

Girish Srinivasan

Development of a Novel Data Acquisition Technique and Software Tool for Quantitative Diffusion Imaging

Vishal K Varma

QCL and FT-IR Spectroscopic Imaging to Identify Biomarkers for Transplant Outcome and Cancer

Indu Venugopal

Intrathecal Magnetic Drug Targeting for Treatment of Central Nervous System Diseases

High b-Value Diffusion MRI for Characterizing White Matter Damage

Cecilia Gatti

Application of Haptic Virtual Fixtures in Psychomotor Skill Development for Robotic Surgical Training

Martina Guidetti

Transverse Isotropic Multiscale Muscle Phantom for MR Elastography

Dynamic Cell Model with Cellular Signaling Network and Mechanical Forces for Tissue Pattern Formation

Devices for Biological Systems: On-Chip Horizontal Gene Transfer and 3D-Printed Microfluidic Applications

Jin Gao

MASTER’S (thesis) Lorenzo Aliboni

Davide Marzorati

Development of a Wearable and Cost Effective Brain-Computer Interface Assistive Device

Felix L Morales

An Acoustic Study of Airways: Healthy and Pathological Models

Design and Characterization of a Microfluidic Device for a Preliminary Study on the Origins of Life

Abhinaya Baskaran

Sebastian Pernal

Jacopo Benedetti

Lakshmipriya Rangaraju

Sai Shivraj Bhosle

Lorenzo Rapetti

KCNF1 is a Novel Regulator of NSCLC Cell Growth Independent of Its Potassium Ion Channel Function

TEM Analysis for the Investigation of Phototropic Changes of Photoreceptor Outer Segments

Surface Characterization and Cell-Material Interaction of Anodized TitaniumZirconium Implants

Cecilia Teresa Brambilla Pisoni

Oligomeric Amyloid-β Peptide Uptake by Microglia Cells Grown on Substrates of Different Elasticity

Effects of Hydroxyapatite-Iron Oxide Nanocomposite Against Human Glioblastoma Cells

Alterations in Retinal Layer Metrics and Their Association with Visual Acuity in Diabetic Retinopathy

Virtual Reality Navigation System for Prostate Biopsy

Eleonora Tagliabue

Visuo-Haptic Model of Prostate Cancer Based on Magnetic Resonance Elastography

Andrea Carmignotto

Wave Propagation in Pulmonary Circulation: Effect of Pulmonary Hypertension due to Sickle Cell Disease

Pakhi Chaturvedi

Performance Testing of a Novel Neonatal Warming Wrap in the Prevention of Hypothermia

Mehar K Cheema

Pancreatic Tumor Cell Capture via Dendrimer-Mediated Multivalent Binding and Antibody Cocktail

Alessia Colado Gimeno

Assessment of Human Vertebrae Stiffness Variability Under Anterior Wedge Compression

MASTER’S (non-thesis) Aishwarya D Ambhire Jose M Carrillo Samir S Chabra Yanjun Chen Jessica Cleary Angelina Estefania Diaz Patrick S Ford Aniket Anand Hegde Mark Edward Hillstrom Niketha Kailash

Jeffrey N Marshall Narasimhan Sriram Narasimhan Ai Nhu V. Nguyen Thomas Nowak Victoria Perizes Allan J. Ropski Peter K Rossman Kyle S Sierzega Daniela Maria Velez Rendon Feiran Wu

Arash D Darbandi

Graphene Oxide Based Biosensing Platform

Samuel John Dreyer

Design, Fabricate, and Test an in vitro System to Investigate Therapeutic Hypothermia in Porcine Eyes

Nikita Raymond Dsouza

Strategies for Identification of Small Molecule Inhibitors of Ad2 E3-19K/HLA-A2 Binding Interaction

Mohammed Salman Farooqui

An Electrochemical and Tribocorrosion Study on Austenitic High Nitrogen Steel in Orthopedic Applications

Andrea Faso

Haptic and Virtual Reality Surgical Simulator for Training in Percutaneous Renal Access

Snehal Balasaheb Gaikwad

The Physical Microenvironment Affects Fibroblast Migration and Wound Healing

BACHELOR’S Mohiuddin S Ahmed Josue Saul Alvarez Mohammad Hosain Amirisefat Kushal Basnet Karolina Blaszczuk Grace E Brown Mario G Castillo Elise A Debruyn Sarita Srisai Deshpande Mohit P Dhande Peter A Errichiello Omar Hani Ewaida Tooba Z Ghafoor Osama Haider

Pedro H Hurtado Kamil M Izak Areal Joplin Hassan K Khan Shilpa Kolachina Alpa Kotak Hersi Kotori Thomas J Kurth Mark Lancor Jonas Leonas Alyssa G Lopez Alexander V Lu Tejas R Madhavan Christine M Massie

Christopher V Mitria Sara A Mohamed Sangeetha Muralidharan Vincent X Nguyen Stephen C Orsay Suvidya Lakshmi L Pachigolla Milan C Patel Megh D Patel Vivian F Pedroza Beny Romo Annmarie Elizabeth Scully Joel Davis Severson Ragav Sharma

Wasuwat Siewsrichol Ryan M Smigiel Apoorva M Sooranahalli Lioudmila V Sorokina Alyssa M Straits Samuel A Tornabene Lindsay N Tryon Christine Vi Juana Villagomez Jose A Villanueva Brianna Noelle Zygadlo

2016-2017 Annual Report 13

We are proud to announce that, in partnership with UIC’s Department of Computer Science, we will launch a new Bachelor of Science (B.S.) Degree program in Bioinformatics as early as the Fall 2018 semester.

Degrees Awarded (2009 - 2017)

23

PHD

18

7

11

2009-10

21

18

16

11 7

6

Female Male

8

11

11

4

4

The Beginnings

11

In 2003, UIC Bioengineering was the first in Illinois and one of the first in the nation to establish Master of Science and Doctor of Philosophy degree programs in Bioinformatics. This was led by

10

2010-11

2011-12

2012-13

University Distinguished Professor Richard L. Magin, who was department head at that time, and Hill

5 13

12

11

7

7

6

2013-14

2014-15

2015-16

Professor Jie Liang, lead faculty member for the Bioinformatics group in our department.

2016-17

44

MS

Female Male

33 21

26

12 5

18

15 3 12

2010-11

16

13

9

4

7

2012-13

2013-14

10 8

7

2009-10

17

2011-12

Richard Magin, PhD Distinguished Professor

21 11

About Bioinformatics

23 15

2014-15

2015-16

science, statistics, mathematics and engineering to analyze and interpret biological data. Bioinformatics is routinely used in sequencing and annotating genomes and their observed mutations,

2016-17

analysis of gene and protein expression and regulation and prediction of biomolecular structure, and simulation and modeling of interactions of DNA, RNA and proteins. Bioinformatics also plays funda-

51

33

40

39

36

13

2009-10

26

22

and is extremely importantly in developing personalized medicine.

About B.S. program

The new B.S. program in Bioinformatics will provide high-quality, comprehensive bioinformatics undergraduate training. The program, housed in the Richard and Loan Hill Department of Bioengi-

33

2010-11

22

14

19

mental roles in analyzing and cataloging the biological pathways and networks in systems biology

Female Male

14 12

14

14

52 46

24

Bioinformatics is an interdisciplinary field that develops methods and computing tools for understanding biological data. As an interdisciplinary field of science, bioinformatics combines computer

12

57

BS

Jie Liang, PhD Richard & Loan Hill Professor

37

34

neering, will be supported by the research and educational expertise from both the Department of

30

Bioengineering and the Department of Computer Science. The synergistic integration and building

26

upon existing programs in the two departments allows the college to offer a unique Bioinformatics 2011-12

2012-13

2013-14

2014-15

2015-16

undergraduate education that is responsive to growing job opportunities linked to personalized

2016-17

medicine and healthcare. The program will provide students with a well-rounded, interdisciplinary curriculum. The goal of the curriculum is to train students to develop innovative methods and

Total Population Comparison (Fall 2009 & Fall 2017)

technologies in the field of bioinformatics in order to solve problems and to create new knowledge.

Students will be prepared with quantitative skills at the interface of biology, computer science, Fall 2009 Fall 2017

106

PHD

86

chemistry, and mathematics.

How to Apply

Until the new degree program is officially sanctioned, students can apply for enrollment in the current Bioengineering program and declare their concentration area specialization as Bioinformatics.

MS

This option has been a part of the Bioengineering undergraduate degree program since 2003. Once

49 60

the new B.S. in Bioinformatics degree program is formally launched these students will be given the option to immediately switch over to the new degree program, which will have the same course

BS

requirements as Bioengineering for the first year of the curriculum.

186 309

New Degree: B.S. in Bioinformatics

Student Enrollment

12

Department News

14

2016-2017 Annual Report 15

Fundamental Understanding of Growth and Inhibition of Calcium Oxalate Kidney Stones

Jodi Finlay

With support from NSF and its broader impact in research and education, Jodi Finlay, Bioengineering student working with Professor Tolou Shokuhfar, has received the BMES Undergraduate Design and Research Award to present her contributions entitled: “Biomineralization of Calcium Oxalate Mimicking Kidney Stones with Citrate-Induced Inhibition: Changes in Crystal Structure and Hydration State”, at the 2017 BMES Annual Meeting in Phoenix, Arizona.

Currently the sciences involved in the formation, composition, and growth of kidney stones are not well understood. Hence, there are no well developed treatments to prevent their formation and growth. Current treatments for the prevention of this disease using different inhibitors show inconsistent results among patients who often have similar symptoms. Calcium oxalate (CaOx) crystals are the main constituents of kidney stones. These crystals undergo nucleation and growth starting from atomic scale, and progresses to millimeter or centimeter scales.

Understanding the formation of calcium oxalate kidney stones at the atomic level and how the first line of defense medication, citrate, alters that formation is imperative to the development of next-level treatment and prevention plans. This project will lead to improving the lives of 20 million people suffering from kidney stones. The National Science Foundation has recognized the impact of this research and awarded Shokuhfar and colleagues at the In-Situ Nanomedicine Laboratory and the NanoEngineering Laboratory with $390,000 funding under the NSF award# 1710049. Shokuhfar and her team are honored to have received this award, and are looking forward to progressing and expanding this project in the future.

Visit In-Situ Nanomedicine Laboratory at isnl.lab.uic.edu

Collagen Improved for Use in Dental Implants dentistrytoday.com/news/industrynews/item/2271-collagen-improved-for-use-in-dental-implants

Biomaterials optimally suited as scaffolds for tissue regeneration and reconstructive surgery have remained an elusive goal for material scientists and bioengineers.

A collaboration between the College of Dentistry and College of Engineering at the University of Illinois at Chicago has led to a new technique for improving the properties of one of the oldest and most widely used structural biomaterials, collagen.

The most abundant protein in mammals, collagen has been employed as a biomaterial since sutures made from cat intestines were used to close the wounds of Roman gladiators. Strong, flexible, and unlikely to provoke an immune response, collagen membranes are utilized today in many medical applications, including tissue engineering and dental bone grafting.

Caption: Professor Cortino Sukotjo (left) of the University of Illinois College of Dentistry collaborated with doctoral student Arghya Bishal (center) of the Department of Bioengineering and Professor Christos Takoudis (right) of the College of Engineering to improve collagen’s biocompatible properties. Credit: Photo by Jenny Fontaine

Seven years ago, bioengineering and chemical engineering professor Christos Takoudis, PhD, was working on atomic layer deposition (ALD), which allows nanometer-thin layers of a metal or metal oxide to be uniformly and conformally applied to a substrate’s surface with 2-D or 3-D complex topography. That’s when he met associate professor of restorative dentistry Cortino Sukotjo, DDS, PhD, MS, who was interested in improving dental implant materials.

Together, they investigated how they could modify and enhance the surface properties of a biological substrate. They imagined that the biocompatibility and bioactivity of commercially available collagen membranes could be improved by coating them with an ultra-thin layer of titanium dioxide, which is used in cosmetics, sunscreens, and dental/orthopedic implants.

Also, the professors envisioned using the ALD process to apply a nanolayer of the metal oxide to these complex nanostructured membranes. But the challenge is that biological materials like collagen cannot withstand the heat of industrial ALD treatment, which often is higher than 200°C, or nearly 400°F. “Seventy degrees C is the lowest others had gotten, especially for the ALD process of titanium dioxide on biological fibrous substrate,” said Arghya Bishal, a doctoral student in the Richard and Loan Hill Department of Bioengineering. “We had to work at lower and lower temperatures until we finally got to room-temperature ALD of titanium dioxide.”

The researchers achieved room-temperature ALD by using a custom apparatus they devised along with tetrakis (dimethylamido) titanium as the titanium metal source and ozone as the oxidizing agent to generate titanium dioxide. The components were introduced one after the other, with an argon pulse in between, into a low-pressure chamber that held the collagen-membrane ALD substrate.

Next, the researchers repeated the ALD cycle 150, 300, and 600 times to grow titanium-oxide films of increasing thickness that each could be compared to uncoated collagen membranes. Now, they plan to begin pre-clinical in vivo experiments and try to create or modify new materials using other metals and/or ALD metal oxides to cater to the specific needs of different clinical applications.

Visit the Advanced Materials Research Laboratory at amrel.bioe.uic.edu (LR) Tolou Shokuhfar, Jodi Finlay, David Banner

Alumni Highlights

16

2016-2017 Annual Report 17

Recent Alumna Gives Keynote Address at Berkeley’s Engineering Graduate Commencement Ceremony Christine Rachel Joseph graduated with her B.S. degree cum laude in 2016 from UIC, majoring in Bioengineering with a concentration in cell & tissue engineering and minoring in Philosophy. In 2017 she graduated from the one-year Master of Translational Medicine program at the University of California, Berkeley. Her keynote address at the Berkeley graduation ceremony can be found on youtube (see photo and link below).

She wrote us right after her Berkeley graduation; message below. More recently she wrote: “I’m now working for an exoskeleton company, using all of the things I learned in school - which is incredibly fulfilling! I’m primarily working to translate their technology from academia to industry, evolving a market plan, assessing legal/regulatory risks, determining reimbursement strategy, conducting user needs assessments, feasibility analyses, and iterative product development.”

RNs, MPHs, people who’ve worked in nonprofits and as consultants or scientists or have started their own companies, and even a current professor in the UC system.

But even right out of undergrad, I’ve never felt out-of-place. UIC Bioengineering prepared me well.

My capstone project is in translating a clinical tool to a website to address the needs of Multiple Sclerosis patients. We’ve developing a free tool for patients to track their specific symptoms and progressions, that uses machine learning algorithms to compare their progressions with other patients, and plot the ones most similar to theirs. Within this project, we have had to confront issues of ethics, technology, information, privacy, and most importantly, patient needs. We’ve also had to guide the balance between the grand ideas of the clinicians who proAfter graduating from UIC, I knew I wanted to continue on posed the project, the limitations of the algorithm, the restricthe path of interdisciplinary innovation that Clinical Immertions from the FDA, the challenges of web development, and sion and IPD paved for me. I’ve spent the last year in the joint the insights from patient-users of the tool. Throughout the year, Master of Translational Medicine program at the University we’ve also taken on shorter projects in the realms of drug deof California, Berkeley, and the University of California, San livery, neurostimulation, sensory implants, and more; each time, Francisco. serving as the translator between clinicians and engineers, paThe MTM curriculum is based around translating between tients and regulatory bodies, to move these projects out of speunmet clinical needs, the technical side of innovation, and cific ruts they had become trapped within. It’s a necessary and bringing these ideas to market; bleeding over the realms often-overlooked conceptual framework that our curriculum is of business, medicine, law, bioethics, public health, and of based around - translating between different perspectives, adcourse, engineering. The cohort I’m in is really quite incred- dressing a problem from a slightly different view, and noticing ible, too - chock full of practicing clinicians, MBAs, PhDs, connections that would otherwise go unidentified.

Image from youtube.com/watch?v=j5QKV2gI7Ds&t=18m

Rare Gene Mutations Inspire New Heart Drugs

By GINA KOLATA May 24, 2017 nytimes.com/2017/05/24/health/heart-drugs-gene-mutations.html?emc=eta1 What if you carried a genetic mutation that left you nearly impervious to heart disease? What if scientists could bottle that miracle and use it to treat everyone else?

In a series of studies, the most recent published on Wednesday, scientists have described two rare genetic mutations that reduce levels of triglycerides, a type of blood fat, far below normal. People carrying these genes seem invulnerable to heart disease, even if they have other risk factors.

Drugs that mimic the effects of these mutations are already on the way, and many experts believe that one day they will become the next blockbuster heart treatments. Tens of millions of Americans have elevated triglyceride levels. Large genetic studies have consistently suggested a direct link to heart disease.

Added to the existing arsenal of cholesterol-reducers and blood pressuremedications, the new medications “will drive the final nail in the coffin of heart disease,” predicted Dr. John Kastelein, a professor of vascular medicine at the University of Amsterdam who was not involved in the new research.

Nathan O. Stitziel, MD, PhD Assistant Professor of Medicine, Cardiovascular Division, Assistant Professor of Genetics, Washington University School of Medicine at St. Louis Nathan O. Stitziel graduated from the MD/PhD program in Bioinformatics working with Professor Jie Liang in May 2006 at UIC. Read more at cardiovascularresearch.wustl.edu/labs/nathan-o-stitziel-md-phd

One sibling had been a heavy smoker, had high blood pressure and even had Type 2 diabetes, a powerful risk factor for heart disease. Yet there was no plaque in his arteries.

Dr. Stitziel went on to lead an international group of researchers who looked for mutations that destroyed the gene in 180,180 people. It was a rare event, occurring in People like Anna Feurer may be walking proof. just one in 309 people.

In 1994, Mrs. Feurer, then 40, attended a health fair held by her employer, But Dr. Stitziel and his colleagues discovered the mutation reduced heart attack risk Ralston Purina, in St. Louis. She rolled up her sleeve and let a technician take by a third. blood to measure her cholesterol.

The second line of evidence for these drugs originated with a study of Old Order Later, the company doctor called her in and told her that her triglyceride levels Amish in Lancaster, Pa. About 5 percent appeared to have arteries that were clear of were almost inconceivably low. And so were her levels of LDL, which raises plaque and low levels of triglycerides. the risk of heart disease, and HDL, which is linked to a lower risk. The results As it turned out, these lucky people had inherited a single mutated copy of another gene related to triglyceride production, called ApoC3. Researchers wanted desperwere so unusual that he encouraged her to see a specialist. ately to find people who had inherited two mutated copies to see whether short-cir“It was all an accident,” Mrs. Feurer recalled in an interview. That her single cuiting the gene might be safe. blood sample could lead to new treatments is “definitely amazing.”

They began by searching genetic data collected from more than 200,000 people She went to Dr. Gustav Schonfeld at Washington University in Saint Louis. around the world — but to no avail. Then the scientists tried a different tack, focusing He asked Mrs. Feurer if she and others in her family might participate in a on participants in a heart disease study in Pakistan, where first cousins often marry research study. She agreed, recruiting her immediate family and even a few and mutations like these are more easily handed down. cousins and aunts.

The strategy worked. After combing the world and turning up nothing, the investigaSome had strikingly low triglyceride levels, some had normal levels, and some tors discovered more than 100 in Pakistan who had mutations in both ApoC3 genes. were in between, Dr. Schonfeld found. He tried for years to locate the gene And these people were healthy, with low levels of triglycerides, researchers reported last month in the journal Nature. responsible but failed. (Dr. Schonfeld died in 2011.)

In 2009, he sent Mrs. Feurer’s DNA to Dr. Sekar Kathiresan, a cardiologist at Now, with surprising speed, companies are starting to test experimental drugs that Massachusetts General Hospital. He discovered that she carried mutations in mimic a loss of ApoC3 by blocking the ApoC3 protein. both copies of a gene, ANGPTL3, involved in triglyceride metabolism. (Each In addition, two companies, Regeneron and Ionis Pharmaceuticals, are now testing drugs based on the mutations in the same gene that was found in the Feurer family, individual carries two copies of a given gene, one from each parent.)

As it turned out, three of her nine siblings also had no working copy of the company scientists and academic researchers reported on Wednesday in The New gene and extremely low triglyceride levels. Three others had one mutated England Journal of Medicine. gene and one normal gene; these siblings had low triglyceride levels, but no- Both companies reported that in preliminary studies, drugs based on these mutations reduced triglycerides in people with elevated levels. Both also reported studies where near as low as those with no functioning gene.

The other three siblings had inherited two normal ANGPTL3 genes and had of the drugs in mice showing the drugs protected the animals from heart disease.

“The basic bottom line is that the reductions in triglycerides with these things is pretnormal triglyceride levels.

“The big question was, ‘Does this loss-of-function mutation reduce coronary ty unprecedented,” George Yancopoulos, president and chief scientific officer at Rerisk?’” Dr. Daniel Rader of the University of Pennsylvania, who is an author of generon, said. Still, it’s not yet clear to what extent this will prevent heart attacks.

Even more significant may be the way in which these drugs were identified. Finding three of the recently published studies, said.

Dr. Nathan O. Stitziel, a cardiologist at Washington University in Saint Louis, people who are impervious to a disease like heart disease can open a door to letting said the evidence so far was that people with Mrs. Feurer’s mutation, at least, the rest of the population share their genetic luck.

“It’s a huge advance,” said Dr. Christie Mitchell Ballantyne, chief of cardiology and carseemed to be protected.

Dr. Stitziel and his colleagues scanned Mrs. Feurer’s coronary arteries and diovascular research at Baylor College of Medicine and a consultant for Regeneron those of two siblings who also had two mutated ANGPTL3 genes. Each one (although not for the triglyceride studies). “That doesn’t mean it’s easy.” was free of plaque, the researchers recently reported in the Journal of the Still, he added, “what we are seeing is a new approach toward drug development.”

American College of Cardiology.

These experimental triglyceride-reducers are in early stages of development, however, and human trials have only just begun. At the moment, the optimism of researchers is rooted less in clinical trial data than in the fact that nature has produced strong evidence they should work.

Papautsky Lab

18

2016-2017 Annual Report 19

Papautsky Lab

CADMIM

The Papautsky Lab aims to develop microfluidic systems and point-

The Center for Advanced Design and Manufacturing of Integrated Microfluidics (CADMIM) is a National Science

of-care sensors for public health applications. Armed with extensive

Foundation (NSF) Industry/University Cooperative Research Center (I/UCRC). CADMIM’s vision is to advance cut-

experience and practical knowledge in design and development of

ting-edge research and education of integrated microfluidics, the science manipulating fluids at the submillimeter

these systems, as well as the state-of-the art facilities (from high-speed microscopy to 3D printing), the Papautsky lab is focused on translational problems ranging from the fundamental science to applied work. Professor Papautsky is co-director of the NSF I/UCRC Center for Advanced Design and Manufacturing of Integrated Microfluidics (CADMIM), a joint center with UC-Irvine. The center brings together academic and indus-

Jian Zhou, Ph.D. Post-Doctoral Researcher Postdoc in Dr. Ian Papautsky’s Lab and his research focus is on cell migration dynamics in microfluidic channel flow and its applications in cell manipulation, including cell focusing and separation.

scale. The Center acts as a bridge between academia and industry, by working closely with industrial members and developing applied research projects that can address bottlenecks in their business spaces and workflows.

The CADMIM mission is to create tools, methods, and technologies for integrated microfluidics enabling cost-effective, quick, and easy diagnosis of the environment, agriculture, and human health. The strategy for this grand challenge centers on mass-produced diagnostic devices containing miniature microfluidic components with high sensitivities (nM-pM) and short reaction times (<1min), capable of bioanalysis in miniaturized volumes (μL-pL).

try partners in pioneering state-of-the-art research in microfluidics and

Center research efforts focus on three main thrust areas: manufacturable processes and materials, fluid sample

point-of-care sensing.

processing and detection, and integration and control systems. These research thrusts lay the foundation for broad-

Recent work from the Papautsky lab on point-of-care sensors has

er commercialization of microfluidics in application areas ranging from medical diagnostics and pharmaceutics to

focused on using electrochemical methods for determination of trace

water and food quality assessments to household products.

metals in blood and water. The newest miniature sensor has a form-factor

CADMIM is new to UIC. It began in 2014 with a lead site at University of California at Irvine (UCI) under the leader-

of a USB stick and features a low-cost electrode materials—copper and graphite—that offer simple fabrication and competitive performance in electrochemical detection. The sensors can rapidly measure heavy met-

Hua Gao, PhD Student I searched and I learned. Now I am researching!

ship of Dr. Abe Lee. In June 2017, the sister site was officially moved to UIC, led by Dr. Ian Papautsky. On September 12 - 13, 2017, the center held its semi-annual Industrial Advisory Board (IAB) meeting on UIC campus. The meeting was attended by industry center members, academics from both sites, as well as students and postdocs. Dr. Thomas

als manganese and lead with parts per billion (ppb) detection limits. This

J. Royston, Head of the Department of Bioengineering at UIC, joined Abe Lee and Ian Papautsky in giving welcoming

work was highlighted on the front cover of the journal Electroanalysis in

remarks. The packed 2-day agenda focused on project updates, introductory presentations by new IAB members

March 2017.

and UIC faculty, and an evening poster reception.

The Papautsky lab has also pioneered the highly multi-disciplinary area termed “inertial microfluidics.” The approach uses hydrodynamics to manipulate cells within microfluidic channels smaller than the diameter of human hair. Ultimately, inertial microfluidics permits positioning of cells within flow without use of external forces and can be used for a wide range of applications, from blood fractionation to label-free physical phenotyping of cells to isolation of rare cells, such as circulating tumor cells from blood. This year, this work was featured on the front cover in the July

Prithviraj Mukherjee, PhD Student I am Prithviraj Mukherjee. I am a PhD student under Dr. Ian Papautsky. My research interests are in development of microfluidic platforms for inertial separation of cells and drug delivery systems. In my spare time I like to work out and play music.

issue of the journal Analyst.

Visit Papautsky Laboratory at papautsky.lab.uic.edu

Papautsky Laboratory | Microfluidic BioMicroSystems (L-R: Elena Boselli; Prithviraj Mukherjee; Jian Zhou, PhD; Hill Professor Ian Papautsky; Thushani Siriwardena, PhD; Hua Gao; Federico Nebuloni)

CADMIM participants collaborate

(LR)CADMIM Ian Papautsky (co-directors), Gisela Lin (Deputy Director), Abraham Lee (co-directors) at the poster session at University of Illinois at Chicago in 2017.

RSC FELLOW Ian Papautsky, Richard and Loan Hill Professor of Bioengineering, was named Fellow of the Royal Society of Chemistry (RSC) in the United Kingdom. With over 54,000 members and a heritage that spans 175 years, RSC is the world leading chemistry community, advancing excellence in the chemical sciences. RSC confers the status of Fellow for “an outstanding contribution to the advancement of the chemical sciences.” Fellows are nominated by their peers. Professor Papautsky was nominated for his work with electrochemical point-of-care biosensors.

Seminar Series 2016-2017

20

2016-2017 Annual Report 21

Fall 2016

Professor, Department of Chemical Engineering Norwegian University of Science and Technology Trondheim, Norway

• Inertial microfluidics for label-free separation and isolation of cells Ian Papautsky, PhD

• Quantitative Magnetic Resonance Imaging and MR Elastography: application to the liver and prostate Patrick Asbach, MD

Professor, Department of Bioengineering University of Illinois at Chicago

• Energetic Variational Approaches for Complex Fluids Chun Liu, PhD

Section Chief of Magnetic Resonance Imaging Department of Radiology Charité Campus Benjamin Franklin, Berlin, Germany

Professor, Penn State University

• Biological and Biomechanical Studies of Skeletal Muscle Contractures Richard L. Lieber, PhD Professor and Chief Scientific Officer Rehabilitation Institute of Chicago, Department of Physical Medicine and Rehabilitation, Northwestern University

• Healthcare Infrastructure in the Era of Health Monitors on Mobile Devices Bruce R. Schatz Dept. of Medical Information Science & Dept. of Computer Science College of Medicine and College of Engineering University of Illinois at Urbana-Champaign

• MRI and Oxygen Imaging in the Assessment of Biomaterials Mrignayani Kotecha, MSc, PhD UIC Bioengineering, University of Illinois at Chicago

• An MRI View of the Brain as a Complex Network of Connected Structures Thomas H. Mareci, PhD Professor, Department of Biochemistry & Molecular Biology University of Florida in Gainesville

• Oxidative Stress and its Functional Consequences Measured in Vivo by MRI Bruce A. Berkowitz Professor, Director of Small Animal MRI Facility Wayne State University School of Medicine

• Robot-Aided Neuromuscular Rehabilitation with Outcome Evaluation Li-Qun (Larry) Zhang, PhD

Professor, Physical Medicine and Rehabilitation and Orthopaedic Surgery Northwestern University Feinberg School of Medicine

• A systems approach for the design of integrated biorefineries Antonis Kokossis, PhD School of Chemical Engineering National Technical University of Athens, Greece

• Nanopore devices: From sequence-specific nucleic acid detection to subcellular structures entrapment Leyla Esfandiari, PhD Assistant Professor, CEAS - Electrical Engineering & Biomedical Engineering University of Cincinnati

• Hierarchical Interfaces for Therapeutic Delivery Tejal Desai

Professor & Vice Chair, Department of Bioengineering & Therapeutic Sciences University of California, San Francisco

• A Systematic Approach to Constructing Process Models Heinz A Preisig

Spring 2017 • Lung Glycocalyx, Mechanotransduction and Vascular Permeability Randal O. Dull, MD, PhD Professor & Associate Head for Research, Department of Anesthesiology University of Illinois at Chicago

• Fractional diffusion as a probe of muscular dystrophy pathology in preclinical mouse models Matt G Hall

Senior Research Associate University College London, Great Ormond Street Hospital, Institute of Child Health

• Diffusion MRI in the Developing Brain: Early Childhood to Early Adulthood Chris Clark, PhD Professor University College London , Great Ormond Street Institute of Child Health

• Image-based computations of post-surgical flow in brain aneurysms Vitaliy Rayz, PhD Adjunct Assistant Professor, Department of Neurosurgery Weldon School of Biomedical Engineering at Purdue University

• Imaging and Characterization of Biological Nanomaterials via Transmission Electron Microscopy Emre Firlar, PhD Postdoctoral Researcher, Department of Bioengineering University of Illinois at Chicago

• Uncovering the Connectome’s organizational features in neurological and neuropsychiatric disorders Luis M. Colon-Perez, PhD Postdoctoral Researcher, Department of Psychiatry University of Florida

• Understanding Locomotor Adaptation and Motor Learning for Improving Gait Rehabilitation in Patients with Neurological Injury Ming Wu, PhD Professor, Department of Physical Medicine and Rehabilitation Northwestern University

• Instructive Systems for Engineering Complex Tissues Eben Alsberg, PhD

Professor, Departments of Biomedical Engineering and Orthopaedic Surgery Case Western Reserve University

• Vascular Bioengineering and Regeneration: Towards the next generation vascular grafts Bin Jiang, PhD

American Heart Association Postdoctoral Fellow Biomedical Engineering Department and Department of Surgery Northwestern University

• Novel Multi-dimensional MR Spectroscopic Imaging: Implementation and Clinical Validation M. Albert Thomas, PhD Professor, Department of Radiology, Psychiatry University of California, Los Angeles

• An Integrative Approach Toward Predictive Modeling for Big Data Genomics Xinghua Mindy Shi, PhD Assistant Professor, Department of Bioinformatics and Genomics, College of Computing and Informatics University of North Carolina at Charlotte

• Cell Engineering and Biomaterial Strategies for Tissue Engineering Josephine Allen, PhD

Hospital Associate Director, BioMEMS Resource Center, Boston

• Engineering Additive Manufacturing Processes Across Length Scales for Future Medical and Wearable Devices Sebastian W. Pattinson, PhD NSF SEES Postdoctoral Fellow, Department of Mechanical Engineering Massachusetts Institute of Technology

• The Role of Constitutive Modeling in the Risk Assessment of Abdominal Aortic Aneurysms T. Christian Gasser, PhD Professor, Department of Solid Mechanics KTH Royal Institute of Technology, Stockholm, Sweden

• Maximize Your Chances for Funding Nora Savage, PhD

Assistant Professor, Department of Materials Science and Engineering University of Florida

Program Director Biological and Environmental Interactions of Nanoscale Materials Chemical, Bioengineering, Environmental and Transport Systems (CBET) Engineering Directorate National Science Foundation

• Microparticle Engineering to Control and Track Cells James Ankrum, PhD

• Strategies for Bone and Tendon Regeneration Hala Zreiqat, PhD

Assistant Professor, Biomedical Engineering FOE Diabetes Research Center Pappajohn Biomedical Institute, University of Iowa

• Predictive Gene Regulatory Models for Precision Medicine Hatice Osmanbeyoglu, PhD

Postdoctoral Research Associate , Department of Computational Biology Memorial Sloan Kettering Cancer Center, New York

• Machine-Learning and Deep-Learning Based Genomics Data Integration on Cancer Biomarker Discoveries Lana Garmire, PhD Assistant Professor, Cancer Epidemiology Program University of Hawaii Cancer Center

• Diffusion MRI: Fundamentals and Applications in Neuroimaging Yu-Chien Wu, MD, PhD

Assistant Professor , Department of Radiology and Imaging Sciences Indiana University School of Medicine

• Macromolecular Mapping in Cartilage and Brain: Identifying Sub-Voxel Tissue Compartments as a Marker for Disease Richard G. Spencer, MD, PhD

Director, MRI Core Facility for Translational Research National Institute on Aging Chief, Magnetic Resonance Imaging and Spectroscopy Section National Institute on Aging Intramural Research Program National Institutes of Health

• Yeast Cell Factories: Construction of Platform Strains and Development of Synthetic Biology Tools Jiazhang Lian, PhD Postdoctoral Research Fellow, Department of Chemical & Biomolecular Engineering, Carl R. Woese Institute for Genomic Biology University of Illinois at Urbana-Champaign

• The Amazing Neutrophils - Unexpected Insights into Sepsis from Microfluidic Assays Daniel Irimia, MD, PhD

Associate Professor, Division of Surgery, Science & Bioengineering, Massachusetts General Hospital, Harvard Medical School, and Shriners Burns

Professor, Biomedical Engineering Radcliffe Fellow, 2016-2017 NH&MRC Senior Research Fellow Head, Tissue Engineering & Biomaterials Research Unit School of AMME/Faculty of Engineering and IT and Bosch Institute University of Sydney

• Continuous measurement and control of intraocular pressure in normal and glaucomatous eyes Christopher L. Passaglia, PhD

Associate Professor, Department of Chemical and Biomedical Engineering, College of Engineering University of South Florida

• Engineered Microsystems as Advanced in Vitro Models of Pathology David K. Wood, PhD Assistant Professor, Department of Biomedical Engineering University of Minnesota

• Visualizing the brain at 7 Tesla: Technical Developments & Clinical Applications Priti Balchandani, PhD

Assistant Professor, Radiology and Neuroscience Director of the High Field MRI Program Translational and Molecular Imaging Institute Icahn School of Medicine at Mount Sinai

• Cancer Imaging at Very-High and Ultra-High Magnetic Fields Xiaohong Joe Zhou, PhD, DABR Professor of Radiology, Director of Center for MR Research 3T Program University of Illinois College of Medicine at Chicago

2016-2017 Annual Report 23

The Image of Research is an annual interdisciplinary exhibit competition organized by the Graduate College and University Library to showcase the breadth and diversity of research at UIC. Each year, students enrolled in a graduate or professional degree program at UIC are invited to submit an image they created along with a brief précis of how the image relates to the student’s overall research. A multi-disciplinary jury reviews the submissions and awards prizes to 1st, 2nd and 3rd place winners and three honorable mentions for still-image submissions, and 1st and 2nd place winners for moving-image submissions.

Criteria for judging include: the originality of the image and the research it represents; the relationship between the image and the research; and overall aesthetic appeal of the image.

Honorable Mention Peripheral visual function: Accessing the unexplored

28th Annual Engineering EXPO All undergraduate Bioengineering students must take the two-semester Senior Design sequence (BIOE 396/397) toward the end of their curriculum. This course is intended to give students experience managing a project from start to finish, and applying their course knowledge to real-life design challenges. Specific course objectives include: system or component design, applying standard engineering practices, project management skills, teamwork, and both written and oral communication skills.

Every April, students present their project at EXPO, the annual College of Engineering Senior Design Competition. His-

Submitted by: Shresta Patangay Advisor: John Hetling

torically, Bioengineering design teams are among the strongest in the College of Engineering and are well represented

A look into Hetling Lab

among the EXPO winners.

Senior Design Expo

Image of Research

22

Honorable Mention Awards: Health System and Assisted Living Device for the Administration of Beam Walking Test Team members: Christine Vi Meraj Siddiqui Clarissa Flores Elise Debruyn

Globe Awards: Health System and Assisted Living Fabrication of a Lung-on-a-Chip for Pharmaceutical Applications

This image was taken in the Neural Engineering Vision Laboratory (NEVL). It shows a subject undergoing the PeriStim™ test.

The subject sits at a fixed distance, with a recording electrode placed in the eye. A checkered pattern stimulus is presented, which reverses several times a second. The electrode measures the response of the eye to this stimulus. The recorded response is called the peripheral pattern electroretinogram (ppERG).

Team members: Alyssa Straits Sarita Deshpande Christine Massie Grace Brown Shilpa Kolachina

Visit Hetling Laboratory at hetlinglab.bioe.uic.edu

Honorable Mention Awards : Smart Living Innovation/Devices

Our peripheral and central vision work synchronously to capture the world we see. While the central vision tells us “what” we are looking at, our peripheral vision helps us orient ourselves. Unfortunately, unavailability of tests that target the periphery make it impossible to detect and monitor neurodegenerative diseases that first manifest in these regions.

Talking Bike Shorts

My research focuses on the design and development of a diagnostic testing system that targets the peripheral visual field.

PeriStim™ is a novel three-dimensional pattern stimulus source capable of detecting functional changes in the peripheral retina before any significant cell loss is seen. This can help in early disease detection, assessment, prognosis, and management. Different areas of our peripheral vision map to different areas of our brain, via the optic nerve. We designed the PeriStim™ to be able to probe specific sectors of the visual field, which will ultimately increase the sensitivity of this new test to diseases like glaucoma.

Team members: Junaid Junaid Jose Villanueva Ali Mehmood Suvidya Lal Pachigolla

Read more at grad.uic.edu/ior/results-lightframe/297653

For more information please visit the Image of Research Exhibit competition website (grad.uic.edu/image-research-exhibit ).

The Image of Research is coordinated under the direction of Kevin Monahan of the UIC Graduate College.

Read more at engineering.uic.edu/student-activities-expo

2016-2017 Annual Report 25

Guaranteed Paid Internship Program(GPIP) To be considered for this program, you must adhere to the following standards:

• Direct acceptance into the College of Enginering and registration

clinicalimmersion.uic.edu

as a full-time beginning freshman for fall, 2017 • Maintain a GPA of 3.2 or greater for your first and second semesters.

preparing our students for successful and meaningful careers

• Complete at least 26 UIC semester hours during your freshman

and pride ourselves on providing talented students who are

year.

energized, focused, and will make great candidates to fill a

• Complete Math 180 (Calculus I) and Math 181 (Calculus II) with a

company’s short and long-term project needs.

B or higher by the end of freshman year. Students with AP Calculus

UIC offers a unique opportunity to freshman engineering

credit for Math 180 must complete at least one higher-level math

students. Conceived of and supported by the faculty and the

course with a B or higher. Note: Pre-calculus does not fulfill this

dean of the College of Engineering, the Guaranteed Paid In-

requirement.

ternship Program gives incoming fall 2017 freshman students

• Complete at least two additional program-specified 100 level

the opportunity to serve as paid interns for the summer of

Engineering courses with a B or higher. Required courses by major

2018, providing they meet certain criteria by the end of their

• Successfully complete our Freshman Engineering Success

first year of study.

Program (FESP) during the academic fall 2016 semester. Enroll in

The GPIP will place students who fulfill the above require-

ENGR 101.

ments with an internship in a company or a UIC research

• Commit to return to the UIC College of Engineering for the aca-

laboratory. The students placed in UIC research laboratory

demic year 2018-20189 (your sophomore year).

internships will be paid $11/hr for up to thirty-two hours/

• Be a U.S. citizen, permanent resident, or obtain permission to

week for eight weeks. For students hired in companies or

work legally in the United States by May 1, 2018.

other outside organizations, we anticipate the pay range will

• Read your UIC email at least every other day and respond when

be approximately $10-15/hr.

requested.

Freshmen starting in Fall 2017 will represent our fifth cohort of GPIP. The current and former GPIP students were assigned to real world engineering projects and gained hands-on experience in their respective fields.

For more information, please contact Rose Coppola-Conroy at 312-355-5174 or rcconroy@uic.edu

The Richard and Loan Hill Department of Bioengineering offers a once in a lifetime internship opportunity to our undergraduate students. The Clinical Immersion Program is a six-week internship designed to provide intensive exposure to the clinical environment in order to conduct human-centered research focusing on observation and needs assessments. Small groups of students rotate every three weeks through two hospital clinics. Each team is provided a clinical mentor in each rotation.

This program, in preparation for the Interdisciplinary Medical Product Develop-

Where our GPIP students have interned

“From this program, I was able to better appreciate the interdisciplinary nature of bioengineering and medicine; engineering feats are all over the clinic! From systems processes, such as keeping up with the flow of patient care, to device and imaging modalities, the opportunities for innovation in interventional radiology are endless.”

“The most rewarding part of my summer was having the opportunity to develop a tool to collect performance data from programs that ran on the fifth fastest supercomputer in the world. I felt accomplished when it came time to present my work at the end of the summer.”

David Pisanski (Class of 2017) Interned at Argonne National Laboratory in 2014

Clinical Immersion Program

2016 Participant

At the UIC College of Engineering, we strongly emphasize

One of Many Success Stories

- Sarita Deshpande

ment class, allows students to identify real needs as they shadow medical personnel in a UIC clinical environment. Through collaborations with doctors at the UIC hospital, students will witness medical procedures, investigate the philosophy of approach by the practitioners, participate in problem-solving sessions, and identify problems or difficulties that can potentially serve as a future opportunity for improvement through bioengineering design. The success of the program lies in exposing students to the entire medical product development cycle, beginning in the earliest stages of needs assessment. This new program is another commitment by the Department of Bioengineering to help students gain experience outside the typical classroom.

Read more on the official Clinical Immersion website: clinicalimmersion.uic.edu

Questions? Email: Miiri Kotche, Ph.D. mkotch2@uic.edu

Clinical Immersion Internship Program

Guaranteed Paid Internship Program(GPIP)

24

Student Organizations

26

2016-2017 Annual Report 27

Networker Medha Sesham President Shana Terai Snarrenberg

Vice President Yandi Farinango

president.uic.bmes@gmail.com

This will be my third year of involvement in BMES. I’ve seen the organization grow in membership and scope since I first joined and I am excited to bring to you the biggest and best year of UIC BMES yet. We are the only dedicated bioengineering professional organization and we aim to help students establish themselves in the field by providing a strong network as well as skills development.

BMES will help you learn more about careers in bioengineering from speakers, get you hands-on experience through project involvement, and provide professional development opportunities such as field-trips to conferences and companies. Come join your friends by getting involved today!

I am a senior in bioengineering on the neural engineering track. My main research interest is in EEG and specifically in epilepsy, neural feedback, and learning and behavior. My time outside of class is split between BMES board responsibilities, research, part-time employment as a server, rock climbing, swimming, cooking, and eating. Get in touch if you have questions about any of the above or anything else! vicepresident.uic.bmes@gmail.com

I’m a senior at UIC majoring in Bioengineering with a concentration in Biomedical Imaging.

I have been a member of BMES since my first semester at UIC and, this is my second year on the executive board. As Vice President, I am excited to bring about new methods to sustain and grow our organization.

BMES has helped me make great friends in my field and, presented unique opportunities to develop skills for my career as a bioengineer.

Feel free to email me if you have any questions on becoming a member!

Project Manager Leigha Covnot

Treasurer Yassmin Saqri

Secretary Agata Bogdanowicz

projectmanager.uic.bmes@gmail.com

This will be my third year in BMES. I got involved through working on projects and this is my first year on the board. This year we plan on creating more projects and work alongside with other engineering majors and clubs.

In BMES there are many exciting projects to work on that can be seen under the ‘projects’ tab. In these groups you will get the chance to learn new skills, practice creative problem solving and get hands on experience If there is a project that you have in mind feel free to share it with us and you can be the leader of your own group!

I am a senior, majoring bioengineering and a minoring in art. I’m interesting in creating and developing projects that allow people improve their quality of life. Outside of school I enjoy drawing, sculpting, mixed martial arts, and tinkering with electronics. treasurer.uic.bmes@gmail.com

Hello everyone! I am a third year student majoring in bioengineering with a concentration in the neuroscience field and this is my third year of involvement in BMES. I was proud to be secretary last year, and I am devoted to being a great treasurer this year! I aim to help make this year be the best year the UIC BMES chapter has ever had.

As treasurer, I will maintain the financial records, disbursements of funds, and maintenance of the roster of members. In addition, I am a proud co-founder of the running mentorship program, “You and Me in BME.” As a co-founder, I hope to continue this program so that incoming students and transfers can have a helping hand and someone to turn to. I aim for the mentorship program to help facilitate help to any BME peers in need. Hopefully with my efforts and the conjoined efforts of my fellow board members and BMES members we will make this the best year for BMES!

networker.uic.bmes@gmail.com

This is my first year as an active member of BMES. I was inactive for two years; however, in an effort to become more involved in this great organization, I ran for Networker so I can use this as an opportunity to get more members involved. In this organization, we aim to help students in skill development, as well as give them exposure to BMES projects. We have some great opportunities coming up this year to get involved and get hands-on experience in the bioengineering field.

I am a junior majoring in Bioengineering on the Neural Engineering track and minoring in Mathematics. Most of my time is split up between two research labs, school, and organizations such as: BMES, WISE, AKPsi, and SASE. Some of my interests outside school include drawing, traveling, and trying new food places. If you have any questions, please don’t hesitate to contact me! secretary.uic.bmes@gmail.com

Hi all! This will be my second year as a BMES member and first year as an Executive Board member.

I am entering my Sophomore year in Bioengineering and interested in pursuing a concentration in Cell and Tissue engineering with the hopes focusing my research and studies in Biomechanics.

BMES is a great organization that brings together the knowledge, creativity and talents of students, faculty, and working professionals from all areas of Bioengineering. We have plenty of opportunities coming up this year and hope you can be a part of them, not to mention meet some great people along the way. Through my secretary position, I promise to do a thorough job crossing all the t’s and dotting all the i’s, both in my work and at meetings. skhetani@uic.edu

Faculty Advisor Dr. Salman Khetani

Dr. Salman Khetani is the new faculty advisor for the UIC student chapter of the Biomedical Engineering Society (BMES). Dr. Khetani brings 14 years of experience as an active member of BMES, having served as both a reviewer for student abstracts submitted to the annual BMES meeting held each Fall and as a presenter of his own research. Dr. Khetani graduated from Marquette University with his BS degrees in Biomedical Engineering (bioelectronics option) and Electrical Engineering (computer option). He then received his MS and PhD degrees in Bioengineering from the University of California at San Diego. After finishing his postdoctoral training at MIT, Dr. Khetani co-founded and directed research and development at a startup company, Hepregen Corporation, in Medford, Massachusetts. In 2011, Dr. Khetani returned back to academia as assistant professor of Mechanical Engineering and Biomedical Engineering at Colorado State University. Since having transitioned to UIC in Fall 2015, Dr. Khetani directs the Microfabricated Tissue Models laboratory, which focuses on creating bioengineered human liver culture platforms for pharmaceutical drug screening and regenerative medicine. As an active researcher and teacher, Dr. Khetani advises the student members of UIC’s BMES chapter towards finding the most optimal and personalized career path in Bioengineering via the hands-on activities organized by the BMES chapter student board.

Read more at bmes.uic.edu

2016-2017 Academic year active Bioengineering organizations

Archival Journal Publications of Core Faculty

28

2016-2017 Annual Report 29

1) Alam, M., Thapa, D., Lim, J. I., Cao, D., & Yao, X. (2017). Quantitative characteristics of sickle cell retinopathy in optical coherence tomography angiography. Biomed Opt Express, 8(3), 1741-1753. doi:10.1117/1.JBO.21.6.065006 2) Alaraj, A., Hussein, A., Linninger, A., Charbel, F., Hsu, C., Aletich, V. (2016). O-030 Changes in contrast transit times on digital subtraction angiography post pipeline embolization device deployment. Journal of NeuroInterventional Surgery, 8(1), p. A20.

3) Alves SA, AL Rossi, AR Ribeiro, F Toptan, AM Pinto, JP Celis, T. Shokuhfar, LA Rocha, Tribo-electrochemical behavior of bio-functionalized TiO2 nanotubes in artificial saliva: Understanding of degradation mechanisms, Wear, 384, (2017), 28-42.

4) Alves SA, AL Rossi, AR Ribeiro, J Werckmann, JP Celis, LA Rocha, T. Shokuhfar*, A first insight on the bio-functionalization mechanisms of TiO2 nanotubes with calcium, phosphorous and zinc by reverse polarization anodization, Surface and Coatings Technology, (2017), 153–166.

5) Alves SA, SB Patel, C Sukotjo, MT Mathew, N Paulo Filho, JP Celis, T. Shokuhfar*, Synthesis of calcium-phosphorous doped TiO2 nanotubes by anodization and reverse polarization: A promising strategy for an efficient biofunctional implant surface, Applied Surface Science, 399, (2017), 682-701. Impact Factor: 3.4 6) Bhosle S, S Patel, MM Taheri, C Sukotjo, T Shokuhfar*, Electrochemical anodization of Ti–15Zr implant: effect of different voltages and times, Surface Innovations, 5 (2), (2017), 82-89 7) Bishal AK, Arman Butt, Sathees K. Selvaraj, Bela Joshi, Sweetu B. Patel, Su Huang, Bin Yang, Tolou Shukohfar, Cortino Sukotjo, Christos G. Takoudis, “Atomic Layer Deposition in Bio-Nanotechnology: A brief overview,” Critical Reviews in Biomedical Engineering 43, 255-277 (2016) 8) Bishal AK, Cortino Sukotjo, Christos G. Takoudis. “Room temperature TiO2 atomic layer deposition on collagen membrane from a titanium alkylamide precursor,” J. Vac. Sci. Technol. A 35, 01B134-1/-8 (2017) 9) Bittmann MF, Patton JL, (2016) “Forces that Supplement Visuomotor Learning: A ‘Sensory Crossover’ Experiment,” IEEE Transactions on Neural Systems and Rehabilitation Engineering, Volume PP, Issue 99, 2016, Article number 7575641, DOI 10.1109/TNSRE.2016.26 10) Brinker S, Klatt D, Demonstration of concurrent tensile testing and magnetic resonance elastography. Journal of the Mechanical Behavior of Biomedical Materials 2016; 63: 232-243.

11) Brunozzi, D., Hussein A.E., Shakur, S.F., Linninger A., Hsu, C.Y., Charbel, F.T., & Alaraj, A. (2017). Contrast time-density time on digital subtraction angiography correlates with cerebral arteriovenous malformation flow measured by quantitative magnetic resonance angiography, angioarchitecture and hemorrhage. Neurosurgery 1(1).

12) Burdette EC, J. Seals, R.L. Magin, A.D. Ambhire, and S.P. Auda, “Review of the Dielectric Properties of Animal and Human Tumors Determined from In-Vivo Measurements,” Critical Reviews in Biomedical Engineering, (in press).

13) Chang S, Sathees Kannan Selvaraj, Yoon-Young Choi, Seungbum Hong, Serge M. Nakhmanson, Christos G. Takoudis, “Atomic layer deposition of environmentally benign SnTiOx as a potential ferroelectric material,” Journal of Vacuum Science & Technology, A 34, 01A119/1-5 (2016).

14) Chen J, Sysol J, Singla S, Zhao S, Abbasi T, Shioura K, Valdez-Jasso, D, Yamamura A, Shani S, Reddy V, Sridhar A, Gao H, Torres J, Camp S, Tang H, Ye S, Comhair S, Dweik R, Hassoun P, Yuan J, Garcia J, and Machado R. Nicotinamide Phosphoribosyltransferase Promotes Pulmonary Vascular Remodeling and is a Therapeutic Target in Pulmonary Arterial Hypertension. Circulation, 135 (8), February 2017.

tion in zinc oxide nanowires Appl. Phys. Lett. 108, 021106 (2016).

27) Ferreira CF, J Babu, A Hamlekhan, S Patel, T Shokuhfar*, Efficiency of Nanotube Surface-Treated Dental Implants Loaded with Doxycycline on Growth Reduction of Porphyromonas gingivalis, International Journal of Oral & Maxillofacial Implants, 32 (2), (2017), 322-328.

28) Fu SP, Jorge Rossero, Chen Chen, Daniel Li, Christos G. Takoudis, Jeremiah T. Abiade, “On the wetting behavior of ceria thin films grown by pulsed laser deposition” Appl. Phys. Lett., in press (2017) 29) Gould, I., Tsai, P., Kleinfeld, D., & Linninger, A. (2017). The capillary bed offers the largest hemodynamic resistance to the cortical blood supply. Journal of Verebral Blood Flow & Metabolism, 37(1), p. 52-68.

30) Gould, I., Tsai, P., Kleinfeld, D., Linninger, A. (2016). Complex cerebral angioarchitecture and neuronal metabolism lead to wide variations of hematocrit, RBC saturation in the capillary bed. Journal of cerebral blood flow and metabolism, 36, p.706-707.

31) Grotberg J, A Hamlekhan, A Butt, S Patel, D Royhman, T Shokuhfar, Cortino Sukotjo, Christos Takoudis, Mathew T Mathew, Thermally oxidized titania nanotubes enhance the corrosion resistance of Ti6Al4V, Materials Science and Engineering: C 59, (2016), 677-689. Impact Factor 3.5 32) Gursoy G and Jie Liang. Three-dimensional chromosome structures from energy landscape. Proc Natl Acad Sci USA 2016; 113(43):11991-11993. doi: 10.1073/pnas.1614535113 33) Gursoy G, Yun Xu, Jie Liang Spatial organization of the budding yeast genome in the cell nucleus and identification of specific chromatin interactions from multi-chromosome constrained chromatin model PLOS Computational Biology, 2017. 13(7): e1005658. https://doi. org/10.1371/journal.pcbi.1005658 34) Hanif, A.M., Kim, M.K., Thomas, J.G., Ciavatta, V.T., Chrenek, M., Hetling, J.R., Pardue, M.T. (2016). Whole-eye electrical stimulation therapy preserves visual function and structure in P23H-1 rats. Experimental Eye Research. 149:75-83.

35) He, Q., Chen, Z., Dong, Q., Zhang, L., Chen, D., Patel, A., Koya, A., Luan, X., Cabay, R.J., Dai, Y., Wang, A., and Zhou, X (2016). MicroRNA-21 regulates prostaglandin E2 signaling pathway by targeting 15-hydroxyprostaglandin dehydrogenase in tongue squamous cell carcinoma. BMC Cancer, 16 (1): 685.

36) Hsu, C., Ghaffari, M., Alaraj, A., Flannery, M., Zhou, X.J., & Linninger, A. (2017). Gap-free segmentation of vascular networks with automatic image processing pipeline. Computers in Biology and Medicine, 82(0), P. 29-39.

37) Hsu, C.Y., Ghaffari, M., Alaraj, A., Linninger, A. (2016). Computational fluid dynamics for flow assessment in digital subtraction angiography. Journal of Cerebral Blood Flow and Metabolism, 36, p.788-789.

38) Hsu, C.Y., Schneller, B., Alaraj, A., Flannery, M., Zhou, X.J., Linninger, A. (2017). Automatic recognition of subject-specific cerebrovascular trees. Magentic resonance in medicine, 77(1), p. 398-410.

39) Hussein, A., Linninger, A., Charbel, F.,, Hsu, C., Aletich, V., Alaraj, A., (2016). O-041 The aneurysm size and Windkessel effect: a contrast transit times study on digital subtraction angiography. Journal of NeuroInterventional Surgery 8(1), p. A25-A26.

40) Hussein, A., Linninger, A., Shakur, S.F., Charbel II, F.T., Hsu, C.Y., Charbell, F., Alaraj, A. (2016). Changes in contrast transit times on digital subtraction angiography post pipeline embolization device deployment. Journal of NeuroInterventional Surgery, 8(1).

41) Hussein, A.E., Brunozzi, D., Shakur, S., Lininnger, A., Hsu, C.Y., Charbel, F., Alaraj, A., (2017). Angiographic flow index on DSA correlates with cerebral flow measured by quantitative MRA. Journal of Neurosurgery, 126(4), p. A1435-A1435.

15) Chen, Z., Yu, T., Cabay, R.J., Jin, Y., Mahjabeen, I., Luan, X., Huang, L., Dai, Y., and Zhou, X. (2017). miR-486-3p, miR-139-5p, and miR-21 as Biomarkers for the Detection of Oral Tongue Squamous Cell Carcinoma’, Biomarkers in Cancer, 9, pp. 1-8.

42) Hussein, A.E., Esfahani, D.R., Linninger, A., Charbel, F.T., Hsu, C.H., Charbel, F., Alaraj, A., (2017). Aneurysm size and the Windkessel effect: an analysis of contrast intensity in digital subtraction angiography. Interventional Neuroradiology.

16) Christofiridis T, C.Ng, and D.T. Eddington (2017) “Bubble Removal with the use of Vacuum Pressure Generated by a Converging-Diverging Nozzle.” Biomedical Microdevices, 19:58. doi.org/10.1007/s10544-017-0193-0

43) Ivanov, A., Linninger, A., Hsu, C.Y., Amin-Hanjani, S., Aletich, V.A., Charbel, F.T., Alaraj, A. (2016). Correlation between angiographic transit times and neurobiological status on admission in patients with aneurysmal subarachnoid hemorrhage. Journal of neurosurgery, 124(4), p. 10931099.

17) Christoforidis T, E.M. Werner, E.E. Hui, and D.T. Eddington, (2016). “Vacuum pressure generation via microfabricated converging-diverging nozzles for operation of automated pneumatic logic”, Biomedical Microdevices, 18: 74. doi:10.1007/s10544-016-0096-5 18) Datta D, Xenia Meshik, Souvik Mukherjee, Ketaki Sarkar, Min S Choi, Mojgan Mazouchi, Sidra Farid, Yung Yu Wang, Peter Burke, Mitra Dutta, Michael A. Stroscio, Sub-millimolar detection of Adenosine Monophosphate using graphene-based electrochemical aptasensor, IEEE Transactions in Nanotechnology, 16(2), 196-202 (2017)

44) Kang, W., Pei, X., Rusinek, C. A., Bange, A., Haynes, E. N., Heineman, W. R., & Papautsky, I. (2017). Determination of lead with a copper-based electrochemical sensor. Anal. Chem., 89 (6), 3345–3352, doi:10.1021/acs.analchem.6b03894.

45) Kang, W., Rusinek, C. A., Bange, A., Haynes, E. N., Heineman, W. R., & Papautsky, I. (2017). Determination of manganese using cathodic stripping voltammetry on a platinum thin-film electrode. Electroanalysis, 29, 686–695. doi:10.1002/elan.201600679. ***[front cover]

19) Davidson, M.D., Kukla, D., and Khetani, S.R. (2017). Microengineered cultures containing human hepatic stellate cells and hepatocytes for drug development. Integrative Biology DOI: 10.1039/c7ib00027h.

46) Khansari MM, LV Sorokina, P Mukherjee, F Mukhtar, MR Shirdar, T Shokuhfar*, Classification of Hydrogels Based on Their Source: A Review and Application in Stem Cell Regulation, JOM, (2017), 1-8. DOI:10.1007/s11837-017-2412-9

20) Derafshi, Z., Kunzer, B.E., Mugler, E.M., Rokhmanova, N., Park, D.W., Tajalli, H., Shetty, K., Ma, Z., Williams, J.C., Hetling, J.R. (2017).

Corneal Potential Maps Measured with Multi-Electrode Electroretinography in Rat Eyes With Experimental Lesions. Investigative Ophthalmology & Visual Science. 58(7):2863-2873.

47) Kotecha M, S. Ravindran, T.M. Schmid, A. George, and R.L. Magin, “Understanding the pathway to chondrogenic differentiation via proton NMR spectroscopy,” NMR in Biomedicine, (in press).

21) Desai, B., Hobbs, J., Hartung, G., Xu, G., Gokaslan, Z.L., Linninger, A., & Mehta, A. (2016). Image-guidance technology and the surgical resection of spinal column tumors. Journal of Neuro-Oncology, 0(0), P. 1-27.

22) Desai, B., Hsu, Y., Schneller, B., Hobbs, J., Mehta, A., & Linninger, A. (2016). Hydrocephalus: the role of cerebral aquaporin-4 channels and computational modeling considerations of cerebrospinal fluid. Neurosurgical Focus, 41 (3).

23) Dobiesz, V., Yost, G., Robinson, N., Kutz-McClain, P., Esmailbeigi, H., Collofello, B., Harrington, A., Koch, A., Geller, S. (2017). “ In Pursuit of Solving a Global Health Problem: Prototype Medical Device for Autotransfusing Life-Threatening Postpartum Hemorrhage in Resource-Limited Settings ”, Current Obstetrics and Gynecology Reports, vol. 6, pp. 182-188, 2017, ISSN. 2161-3303.

24) Duan B, Z. Yin, L.H. Kang, R.L Magin, and J.T. Butcher, “Active tissue stiffness modulation controls valve interstitial cell phenotype and osteogenic potential in 3D culture,” Acta Biomaterialia, vol. 36, pp. 42-54, 2016.

25) Farid S, M. Choi, D. Datta, M. A. Stroscio and M. Dutta, Spontaneous polarization induced electric field in zinc oxide nanowires and nanostars, Journal of Applied Physics, 119, 163108 (2016).

26)

Farid S, S. Mukherjee, K. Sarkar, M. Mazouchi, M. A. Stroscio and M. Dutta, Enhanced optical properties due to indium incorpora-

48) Leushen, E., Tangen, K., Mehta, A.L., & Linninger, A. (2017). Backflow-free catheters for efficient and safe convection-enhanced delivery of therapeutics. Medical Engineering & Physics, 45, P.15-24.

49)

Li W and A. Ma, A benchmark for reaction coordinates in the transition path ensemble, J. Chem. Phys., 144, 134104 (2016).

50)

Li W and A. Ma, Reaction mechanism and reaction coordinates from the viewpoint of energy flow, J. Chem. Phys., 144, 114103 (2016).

51) Liang Y, A.Q. Ye, W. Chen, R. Gatto, L. Colon-Perez, T.H. Mareci, and R.L. Magin, “A fractal derivative model for the characterization of anomalous diffusion in magnetic resonance imaging,” Communications in Nonlinear Science and Numerical Simulation, vol. 39, pp. 529-537, 2016.

52) Liang Y, W. Chen, and R.L. Magin, “Connecting complexity with spectral entropy using the Laplace transformed solution to the fractional diffusion equation,” Physica A, vol. 453, pp. 327-335, 2016.

53) Liang Y, W. Chen, B.S. Akpa, T. Neuberger, A.G. Webb, and R.L. Magin, “Using spectral entropy and cumulative spectral entropy to classify anomalous diffusion in Sephadex gels: A link between fractional order and fractal structure,” Computers and Mathematics with Applications, vol. 73, pp. 765-774, 2017.

Archival Journal Publications of Core Faculty

30

2016-2017 Annual Report 31

54) Lin M, Ge Zhang, Monifa Fahie, Leslie K Morgan, Min Chen, Timothy A Keiderling, Linda J Kenney and Jie Liang. Engineering a Novel Porin OmpGF Via Strand Replacement From Computational Analysis of Sequence Motif BBA - Biomembranes , 2017. 1859(7):1180-1189. doi: 10.1016/j.bbamem.2017.03.012.

Biomechanical Engineering, 138(11), November 2016.

55) Lin, C. and Khetani, S.R. (2016). Advances in engineered liver models for investigating drug-induced liver injury. BioMed Research International 2016:1829148.

81) Reiter DA, R.L. Magin, W. Li., J.J. Trujillo, M. Pilar Velasco, and R.G. Spencer, “Anomalous T2 relaxation in normal and degraded cartilage,” Magnetic Resonance in Medicine, vol. 76, pp. 953-962, 2016.

56) Lin, C., and Khetani, S.R. (2017). Micropatterned Co-Cultures of Human Hepatocytes and Stromal Cells for the Assessment of Drug Clearance and Drug-Drug Interactions. Current Protocols in Toxicology 72, p14.17.1-14.17.23.

57) Linninger, A.A., Gould, I.G., Marrinan, T., Hsu, C.Y., Chojecki, M., Alaraj, A. (2016). Cerebral microcirculation and oxygen tension in the human secondary cortex. Annals of Biomedical Engineering, 44(11), p.3433.

80) Qi M, G Xiao, T Shokuhfar, Y Lu, Flexible hydroxyapatite fiber precipitated by urea through a hydrothermal route, Surface Innovations, (2017), 1-7.

82) Ribeiro A, A Mukherjee, X Hu, S Shafien, R Ghodsi, K He, SG Piper, C Wang, R F Klie, T Shokuhfar, R S Yassar, R Borojevic, L A Rocha, J M Granjeiro, Bio-camouflage of Anatase Nanoparticles Explored by In Situ High-Resolution Electron Microscopy, Nanoscale, (2017), DOI:10.1039/ C7NR02239E. Impact Factor 7.8

58) Linninger, A.A., Tangen, K., Hsu, C.Y., Frim, D. (2016). Cerebrospinal fluid mechanics and its coupling to cerebrovascular dynamics.

Annual Review of Fluid Mechanics, 48, p. 219-257.

83) Ribeiro, A. R., Gemini-Piperni, S., Travassos, R., Lemgruber, L., C. Silva, R., Rossi, A. L., Shokuhfar. T, Granjeiro, J. M. (2016). Trojan-Like Internalization of Anatase Titanium Dioxide Nanoparticles by Human Osteoblast Cells. Scientific Reports, 6 (2016), 23615, http://doi. org/10.1038/srep23615

59) Liu, C., Thapa, D., & Yao, X. (2017). Digital adaptive optics confocal microscopy based on iterative retrieval of optical aberration from a guidestar hologram. Opt Express, 25(7), 8223-8236. doi:10.1364/OE.25.008223

84) Runa M, C Takoudis, C Sukotjo, T Shokuhfar, L Rocha, M Mathew, In vitro Evaluation of Tribocorrosion Induced Failure Mechanisms at the Cell-Metal Interface for the Hip Implant Application, Advanced Engineering Materials ,19 (5), 2017, DOI: 10.1002/adem.201600797

60) Liu, C., Zhi, Y., Wang, B., Thapa, D., Chen, Y., Alam, M., Yao, X. (2016). In vivo super-resolution retinal imaging through virtually structured detection. J Biomed Opt, 21(12), 120502. doi:10.1117/1.JBO.21.12.120502

85) Rusinek, C. A., Kang, W., Nahan, K., Hawkins, M., Quartermaine, C., Stastny, A., Bange, A., Papautsky, I., & Heineman, W. R. (in press) Determination of manganese in whole blood by cathodic stripping voltammetry with indium tin oxide. Electroanalysis, doi: 10.1002/ elan.201700137

61) Lyman JT, M. Rubessa, D.K. Oh, G.L. Torres, R.L. Magin, and M.B. Wheeler, “Investigation into the use of nuclear magnetic resonance spectroscopy for viability predictions in real time, on mouse preimplantation embryos, “International Journal of New Technology and Research, vol. 2, pp. 14-20, 2016.

86) Schwartz BL, Y. Liu, T.J. Royston, and R.L. Magin, “Axisymmetric diffraction of a cylindrical transverse wave by a viscoelastic spherical inclusion: an axisymmetric problem,” Journal of Sound and Vibration, vol. 364, pp. 222-233, 2016.

62) Ma C, T. Luciani, A. Terebus, J. Liang, and G. E. Marai. PRODIGEN: Visualizing the Probability Landscape of Stochastic Gene Regulatory Networks in State and Time Space. BMC Bioinformatics. , 2016. 18(Suppl 2):24. DOI 10.1186/s12859-016-1447-1

87) Schwartz BL, Z. Yin, and R.L. Magin, “Mechanical analysis of an axially symmetric cylindrical phantom with a spherical heterogeneity for MR elastography,” Physics in Medicine and Biology, vol. 61, pp. 6821-6832, 2016.

63) Marques IdSV, Maria Fernanda Alfaro, Miki Taketomi Saito, Nilson Cristino da Cruz, Christos Takoudis, Richard Landers, Marcelo Ferraz Mesquita, Francisco Humberto Nociti Junior, Mathew T. Mathew, Cortino Sukotjo, Valentim Adelino Ricardo Barão, “Biomimetic coatings enhance tribocorrosion behavior and cell responses of commercially pure titanium surfaces,” Biointerfaces 11, 031008 (2016)

88) Schwartz BL, Z. Yin, T.K. Yasar, Y. Liu, A.A. Khan, A.Q. Ye, and R.L. Magin, “Scattering and diffraction of elastodynamic waves in a concentric cylindrical phantom for MR elastography,” IEEE Transactions on Biomedical Engineering, vol. 63, pp. 2308-2316, 2016.

64) Marques IdSV, Maria Fernanda Alfaro, Nilson Cristino da Cruz, Marcelo Ferraz Mesquita, Christos Takoudis, Cortino Sukotjo, Mathew T. Mathew, Valentim Adelino Ricardo Barão, “Tribocorrosion behavior of biofunctional titanium oxide films produced by micro-arc oxidation: Synergism and mechanisms,” Journal of the Mechanical Behavior of Biomedical Materials 60, 8-21(2016)

89) Shakur, S.F., Brunozzi, D., Hussein, A.E., Linninger, A., Hsu, C.Y., Charbel, F.T., & Alaraj, A. (2017). Validation of cerebral arteriovenous malformation hemodynamics assessed by DSA using quantitative magnetic resonance angiography: preliminary study. Journal of NeuroInterventional Surgery, 1(1).

65) Meerschaert MM, R.L. Magin, and A.Q. Ye, “Anisotropic fractional diffusion tensor imaging,” Journal of Vibration and Control, vol. 22, pp. 2211-2221, 2016.

90) Shirdar MR, Mohammad Mahdi Taheri, Hossein Moradifard, Ali Keyvanfar, Arezou Shafaghat, Tolou Shokuhfar, Sudin Izman, Hydroxyapatite–Titania nanotube composite as a coating layer on Co–Cr-based implants: Mechanical and electrochemical optimization, Ceramics International, 42 6, (2016), 6942–6954.

66) Melendez-Calderon A, Tan M, Bittmann MF, Burdet E, Patton JL, (2017) “Transfer of dynamic motor skills acquired during isometric training to free motion”, 1:12 doi:10.1186/s40638-014-0012-5.

91) Skeoch, G.D., Tobin M.K., Khan, S., Linninger, A.A., Mehta, A.I. (2017). Corticosteroid treatment for metastatic spinal cord compression: a review. Global Spine Journal.

67) Meshik X, Min Choi, Adam Baker, R. Paul Malchow, Leigha Covnot, Samuel Doan, Souvik Mukherjee, Sidra Farid, Mitra Dutta, and Michael A. Stroscio, Modulation of Voltage-Gated Conductances of Retinal Horizontal Cells by UV-Excited TiO2 Nanoparticles, Nanomedicine: Nanotechnology, Biology, and Medicine, 13, 1031-1040 (2017).

92) Son, T., Wang, B., Thapa, D., Lu, Y., Chen, Y., Cao, D., & Yao, X. (2016). Optical coherence tomography angiography of stimulus evoked hemodynamic responses in individual retinal layers. Biomed Opt Express, 7(8), 3151-3162. doi:10.1364/BOE.7.003151

68) Meshik X, Sidra Farid, Min Choi, Yi Lan, Souvik Mukherjee, Debopam Datta, Mitra Dutta, and Michael A. Stroscio, Biomedical Applications of Quantum Dots, Nucleic-acid-based Aptamers, and Nanostructures for Biosensors, Critical Reviews in Biomedical Engineering, 43(4): 1-20 (2015) [Published July 2016 with 2015 publication date] 69) Metwally, A.A., Dai, Y., Finn, P.W., and Perkins, D.L. (2016), WEVOTE: Weighted Voting Taxonomic Identification Method of Microbial Sequences. PLOS ONE, 11 (9), pp. e0163527.

70) Murdock, R. C., Gallegos, K. M., Hagen, J. A., Kelley-Loughnane, N., Weiss, A., & Papautsky, I. (2017). Development of a pointof-care diagnostic for influenza detection with antiviral treatment effectiveness indication. Lab Chip, 17, 332-332, doi:10.1039/ C6LC01074A. 71) Neufeld, M.J., Ware, B.R., Lutzke, A., Khetani, S.R., and Reynolds, M.M. (2016). Water-stable metal-organic framework polymer composites compatible with human hepatocytes. ACS Applied Materials and Interfaces 8(30), p.19343.

72) Nguyen ND, R. Evrard, and Michael A. Stroscio, Polar Interface Phonons in Ionic Toroidal Systems, Journal of Physics: Condensed Matter, 28, 345301 (2016); doi:10.1088/0953-8984/28/34/345301 – Designated as IOP select paper by Editor with over 300 downloads in the first few weeks; see also IoP LabTalk article athttp://journals.iop.org/cws/article/jpcm/65433 73) Ni Y, Teng T, Li R, Simonyi A, Sun GY, Lee JC. TNFα alters occludin and cerebral endothelial permeability: Role of p38MAPK. PLOS ONE 2017; 12(2): e0170346.

93) Sun GY, Simonyi A, Fritsche KL, Chuang DY, Hannink M, Gu Z, Greenlief CM, Yao JK, Lee JC, Beversdorf DQ, Docosahexaenoic acid (DHA): An essential nutrient and a nutraceutical for brain health and diseases. Prostaglandins, Leukotrienes and Essential Fatty Acids (PLEFA), In Press, Available online 10 March 2017, ISSN 0952-3278.

94) Tang C, Yi Lan, Mitra Dutta, Michael A. Stroscio, and Junxia Shi, AlGaAs/GaAs Triple Quantum Well Photodetector at 5-micron Wavelength, IEEE Journal of Quantum Electronics, 52 (11), 4400108 (2016).

95) Tang K, Jinfeng Zhang, and Jie Liang. Distance-Guided Forward and Backward Chain-Growth Monte Carlo Method for Conformational Sampling and Structural Prediction of Antibody CDR-H3 Loops. J Chemical Theory and Computation , 2016. 13 (1):380-388 DOI: 10.1021/acs. jctc.6b00845 96) Tangen, K., Leval, R., Mehta, A.I., Linninger, A. (2017). Computational and in-vitro experimental investigation of intrathecal drug distribution - parametric study of the effect of injection volume, cerebrospinal fluid pulsatility, and drug uptake. Anesthesia & Analgesia, 124(5), p.16861696.

97) Tangen, K., Narasimhan, N. S., Sierzega, K., Preden, T., Alaraj, A., & Linninger, A. (2016). Clearance of subarachnoid hemorrhage from the cerebrospinal fluid in computational and in vitro models. Annals of Biomedical Engineering, 1 (1) p1-17.

98) Thapa, D., Wang, B., Lu, Y., Son, T., & Yao, X. (In press). Enhancement of intrinsic optical signal recording with split spectrum optical coherence tomography. Journal of Modern Optics, 1-8. doi:10.1080/09500340.2017.1318966

74) Nivedita, N., Garg, N., Lee, A. P., & Papautsky, I. (in press) A high throughput microfluidic platform for size-selective enrichment of cell populations in tissue and blood samples. Analyst, doi: 10.1039/c7an00290d ***[front cover]

99) Thomas-Seale LEJ, Kennedy P, Hollis L, Hammer S, Anderson T, Mirsadraee S, Klatt D, Sack I, Pankaj P, Roberts N, Hoskins PR. Magnetic Resonance Elastography through Atherosclerosis: A Feasibility Study. Journal of Clinical and Experimental Cardiology 2016; 7: 481. doi:10.4172/2155-9880.1000481.

75) Nivedita, N., Ligrani, P., & Papautsky, I. (2017). Dean flow dynamics in low-aspect ratio spiral microchannels. Scientific Reports, 7, 44072, doi:10.1038/srep44072

100) Tian W, Meishan Lin, Hammad Naveed, and Jie Liang. Efficient computation of transfer free energies of amino acids in beta-barrel membrane proteins Bioinformatics, 2017. 33 (11): 1664-1671. https://doi.org/10.1093/bioinformatics/btx053

76) Noohi E, Zefran M, Patton JL, (2016) “An Interaction Model for Human-Human Collaborative Object Manipulation,” IEEE Transactions on Robotics (T-RO), IEEE Transactions on Robotics 32(4) 880-896. DOI: 10.1109/TRO.2016.2572698

101) Tian W, Xue Lei, Louis H. Kauffman, and Jie Liang. A Knot Polynomial Invariant for Analysis of Topology of RNA Stems and Protein Disulfide Bonds Molecular Based Mathematical Biology , 2017. 5(1):21-30. DOI: https://doi.org/10.1515/mlbmb-2017-0002

77) Nourmohammadzadeh M, Y. Xing, J.W. Lee, M.A. Bochenek, J.E. Mendoza-Elias, J.J. McGarrigle, E. Marchese, Y. Chun-Chieh, D.T. Eddington, J. Oberholzer, Y. Wang (2016). “A Microfluidic array for real-time live-cell imaging of human and rodent pancreatic islets”, Lab on a Chip 18(6): 1466-1472

102) Toslak, D., Thapa, D., Chen, Y., Erol, M. K., Paul Chan, R. V., & Yao, X. (2016). Trans-palpebral illumination: an approach for wide-angle fundus photography without the need for pupil dilation. Opt Lett, 41(12), 2688-2691. doi:10.1364/OL.41.002688

78) Patel SB, N Baker, I Marques, A Hamlekhan, MT Mathew, C Takoudis, T Shokuhfar*, Transparent TiO2 nanotubes on zirconia for biomedical applications, RSC Advances, 7 (48), (2017), 30397-30410. Impact Factor 3 79) Pursell ER, Vélez-Rendón D, Valdez-Jasso D. Biomechanical Properties of the Right and Left Pulmonary Arteries during the Progression of Pulmonary Arterial Hypertension. Invited paper on Spotlight on the Future of Cardiovascular Biomechanics 2016, Journal of

103) Toslak, D., Thapa, D., Erol, M. K., Chen, Y., & Yao, X. (2017). Smartphone-based imaging of the corneal endothelium at sub-cellular resolution. Journal of Modern Optics, 64(12), 1229-1232. doi:10.1080/09500340.2016.1267815 104) Vélez-Rendón D, Gerringer JW, Valdez-Jasso D . Quantifying the Contractile Properties of the Right Ventricle in a PAH Rat Animal Model.

Pulmonary Circulation, Accepted Pulmonary Circulation 2017.

32

2016-2017 Annual Report 33

106) Venugopal, I., Pernal, S., Duproz, A., Bentley, J., Engelhard, H., Linninger, A. (2016). Magnetic field-enhanced cellular uptake of doxorubicin loaded magnetic nanoparticles for tumor treatment. Materials Research Express, 3(9).

107) Venugopal, I., Pernal, S., Fusinatto, T., Ashkenaz, D., Linninger, A. (2016). Quantum dot conjugated magnetic nanoparticles for targeted drug delivery and imaging. Nano Biomedicine & Engineering, 8(1).

Bioengineering Industry Day

108) Venugopal, I., Sirhan, R., Basati, S., Linninger, A.A. (2016). Prototype biosensor for detection of myelin basic protein biomarker in hydrocephalus diagnosis. Sensor Letters, 14(1), p. 84-92.

109) Wang C, T Shokuhfar, RF Klie, Precise In Situ Modulation of Local Liquid Chemistry via Electron Irradiation in Nanoreactors Based on Graphene Liquid Cells, Advanced Materials, (2016) 28 (35), 7716-7722. Impact Factor 19.791.

110) Wang, B., Lu, Y., & Yao, X. (2016). In vivo optical coherence tomography of stimulus-evoked intrinsic optical signals in mouse retinas. J Biomed Opt, 21(9), 96010. doi:10.1117/1.JBO.21.9.096010 111) Wang, X., Gao, H., Dindic, N., Kaval, N., & Papautsky, I. (2017). A low-cost, plug-and-play inertial microfluidic helical capillary device for high-throughput flow cytometry. Biomicrofluidics, 11, 014107, doi:10.1063/1.4974903 112) Ware, B.R., and Khetani, S.R. (2016). Engineered liver platforms for different phases of drug development. Trends in Biotechnology 35(2), p.172.

113) Ware, B.R., Sunada, W., McVay, M., and Khetani, S.R. (2017). Exploring Chronic Drug Effects on Microengineered Human Liver Cultures Using Global Gene Expression Profiling. Toxicological Sciences 157(2), p.387.

DATE & TIME Friday, November 17th Please arrive by 1:45pm 2:00pm-3:30pm 3:30pm Hors d’oeuvres and Networking

114) Wright Z, Lazzaro E, Thielbar K, Patton J, Huang F (in press, 2017) “Robot training with vector fields based on stroke survivors’ individual movement statistics” the IEEE Transactions on Neural Systems & Rehabilitation Engineering (tNSRE).

115) Xu, J., Hu, H., and Dai, Y (2016) LMethyR-SVM: Predict Human Enhancers Using Low Methylated Regions based on Weighted Support Vector Machines. PLoS ONE, 11(9), pp. e0163491.

116) Yenkie, K.M., Diwekar, U.M., Linninger, A.A. (2016). Simulation-free estimation of reaction propensities in cellular reactions and gene signalling networks. Computers & Chemical Engineering, 87, p. 154-163.

117) Yin Z, S.P. Kearney, R.L. Magin and D. Klatt “Concurrent 3-D acquisition of diffusion tensor imaging and magnetic resonance elastography displacement data (DTI-MRE): Theory and in vivo application,” Magnetic Resonance in Medicine, vol. 77, pp. 273-284, 2017.

LOCATION UIC Innovation Center: 1240 W Harrison St. Chicago, IL

Inventions and Patents

118) Yost, G., Joseph, C. R., Royston, T. J., Tatooles, A., Bhat, G. (2016). Heat generation in axial and centrifugal flow Left Ventricular Assist Devices. ASAIO Journal. pp. 684-9. doi: 10.1097/MAT.0000000000000438.

119) Zhao J, Youfang Cao, Luisa DiPietro, and Jie Liang. Dynamic cellular finite element method for modeling large scale cell migration and proliferation under the control of mechanical and biochemical cues: A study of re-epithelialization. Journal of the Royal Society Interface, 2017. 14:20160959, DOI: dx.doi.org/10.1098/rsif.2016.0959

REGISTRATION go.uic.edu/BioeFall2017

Join us on Friday, November 17th for the 4th annual UIC Bioengineering Industry Day! Connect with UIC Bioengineering alumni, faculty, and partners working in industry. This is a great opportunity to connect with fellow UIC alumni and former professors, while providing advice and guidance to aspiring bioengineering students.

The primary goal of the Bioengineering Industry Day is to engage with current UIC Bioengineering students in brief discussions about how you transitioned from college to a career in bioengineering. This is an informal and informational event. You do not have to prepare any materials or presentations. Mostly, be ready to mingle and talk about how you got to where you are today!

If you have any questions about the UIC Bioengineering Industry Day, please contact Michelle Johnson, Associate Director, UIC Engineering Career Center, at michjohn@uic.edu.

Companies that participated in Fall 2016/Spring 2017 Industry Day:

Patents (formally awarded during the period July 2016 – June 2017)

Title of the awarded patent

Award date

Patent holders

Compositions, Methods and Devices for Generating Nanotubes on a Surface

06/28/2016

Craig Richard Freidrich, Tolou Shokuhfar

Method, system, and device for analyzing a colorimetric assay [U.Cincinnati] – 9,506,855

12/20/2016

I.Papautsky, L. Shen, J. Hagen, M. Stone

Cable driven joint actuator and method

01/21/2017

James Patton, Michael Peshkin, James Sulzer

Corporate Law Partners

Bioengineering Industry Day

105) Venugopal, I., Habib, N., & Linninger, A. (2017). Intrathecal magnetic drug targeting for localized delivery of therapeutics in the central nervous system. Nanomedicine, 12(8), P. 865-877.

Richard and Loan Hill Department of Bioengineering University of Illinois at Chicago College of Engineering College of Medicine

bioe.uic.edu

851 S. Morgan Street (MC 063) Chicago, IL 60607