Student and Alumni Bibliography

David J. Auerbach


David J. Auerbach is a Consultant in the Life Sciences Strategy & Transformation practice at Capgemini Consulting in New York City. David’s background includes over 5 years of government and industry early stage research through clinical phase drug development (generic and innovative), as well as life science strategy consulting. From a business perspective, he has experience in commercial organizational design (including new product planning function design), product launch execution, strategic planning, in-licensing due diligence (target screening and prioritization), project management, and market research (including in-depth analyses using a variety of business and pharma-specific databases). From a scientific perspective, he has experience in clinical assay development, Laboratory Information Management Systems (LIMS) sample management, and bench biomedical research, where he studied HIV-related cytokines and cytokine receptors using various immunological techniques. After attending Cornell University (B.A. in Chemistry), he completed his M.B.A. and M.S. in Biotechnology dual degree from Johns Hopkins University. In 2012, he published his first scholarly scientific article. Read about it here:

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David J. Auerbach, Yin Lina, Huiyi Miaoa, Raffaello Cimbroa, Michelle J. DiFiorea, Monica E. Gianolinia, Lucinda Furcib, Priscilla Biswasb, Anthony S. Faucia, and Paolo Lussoa: “Identification of the platelet-derived chemokine CXCL4/PF-4 as a broad-spectrum HIV-1 inhibitor” PNAS.  View Online. 

Moray Campbell


Dr. Moray Campbell is an Associate Professor at Rowell Park Cancer Institute (RPCI), USA. His research interests are focused around cancer epigenomics from a translational perspective with the aim to combine insight from cell line, tumor models and patient material to understand disease risk and novel therapies. A central component of his research is based on leveraging publicly available data, and he has started the long journey of being able to conceive, design and interpret experiments both in Eppendorfs and at the command line.

He is also an Associate Dean at RPCI and has a strong interest in designing innovative and interdisciplinary graduate level training programs, both at the PhD and MS level. For example, he established a program entitled CanSys, through the European Union-United States Atlantis Program, which fuses RPCI with two EU universities (The University of Luxembourg and the Free University, Amsterdam). The CanSys program develops quantitative modeling skills in MS students through taught courses and research undertaken at each of the three member institutes. He is also leading the development of graduate curricula at RPCI.

Click here for Dr. Campbell’s Podcast.

Click here for Dr. Campbell’s Blog.

Click here for a list of Dr. Campbell’s publications.

Christina S. Chang


Christina S. Chang received her bachelor’s of science degree in Biology from Syracuse University in May of 2005 before attending Johns Hopkins University. During her enrollment in JHU, Christina worked for Weill Cornell Medical College in Department of Medicine, Division of Nephrology. Her main research focus was on clinical trials of transplantation which validated three-gene signature, interferon-inducible protein 10 [IP-10] messenger RNA [mRNA], 18S ribosomal RNA [rRNA], and CD3ε mRNA in urinary cells to diagnose acute T-cell mediated rejection in renal-allograft recipients.

Following her graduation from JHU with Master’s of Science in Biotechnology, concentration in Biodefense, she joined as a visiting scientist fellow at the Federal Bureau of Investigation Laboratory working on counter-terrorism forensic science research.

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Suthanthiran M, Schwartz JE, Ding R, Abecassis M, Dadhania D, Samstein B, Knechtle SJ, Friedewald J, Becker YT, Sharma VK, Williams NM, Chang CS, Hoang C, Muthukumar T, August P, Keslar KS, Fairchild RL, Hricik DE, Heeger PS, Han L, Liu J, Riggs M, Ikle DN, Bridges ND, Shaked A: “Urinary-cell mRNA profile and acute cellular rejection in kidney allografts.” The New England Journal of Medicine 369(1) published in 2013. View online.

Yang H, Cheng EY, Sharma VK, Lagman M, Chang C, Song P, Ding R, Muthukumar T, Suthanthiran M: “Dendritic cells with TGF-β1 and IL-2 differentiate naive CD4+ T cells into alloantigen-specific and allograft protective Foxp3+ regulatory T cells.” Transplantation 93(6) published in 2012. View online.

Cheng EY, Sharma VK, Chang C, Ding R, Allison AC, Leeser DB, Suthanthiran M, Yang H: “Diannexin decreases inflammatory cell infiltration into the islet graft, reduces β-cell apoptosis, and improves early graft function.” Transplantation 90(7) published in 2010. View online.

Dadhania D, Snopkowski C, Ding R, Muthukumar T, Chang C, Aull M, Lee J, Sharma VK, Kapur S, Suthanthiran M: “Epidemiology of BK virus in renal allograft recipients: independent risk factors for BK virus replication.” Transplantation 86(4) published in 2008. View online.

Lei-Ann Chang


Lei-Ann Chang is a research technician for the FlyEM Project. Specifically, her job is an EM proofreader. Before joining HHMI, Lei-Ann was a medical assistant. Lei-Ann’s daily routines included studying MRI, CT, and X-ray images. Lei-Ann has four AS degrees (Business Administration, Computer Science, Information Systems, and Mathematics), BS in IT Network Security from George Mason University, post-baccalaureate Pre-Med Certificate from Georgetown University and she am currently working on my MS in Biotechnology/Bioinformatics from The Johns Hopkins University. During her free time, Lei-Ann enjoys playing with her two kids and three very fuzzy dogs.

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Shin-ya Takemura, Arjun Bharioke, Zhiyuan Lu, Aljoscha Nern, Shiv Vitaladevuni, Patricia K. Rivlin, William T. Katz, Donald J. Olbris, Stephen M. Plaza, Philip Winston, Ting Zhao, Jane Anne Horne, Richard D. Fetter, Satoko Takemura, Katerina Blazek, Lei-Ann Chang, Omotara Ogundeyi, Mathew A. Saunders, Victor Shapiro, Christopher Sigmund, Gerald M. Rubin, Louis K. Scheffer, Ian A. Meinertzhagen & Dmitri B. Chklovskii: “A visual motion detection circuit suggested by Drosophila connectomics” Nature 500 published August 2013. View Online.

Kathryn Cole


Kathryn Cole, a native of Sullivan’s Island, SC, received her BS in Neuroscience at Davidson College in Davidson, NC, where her research focused on psychopharmacology and drugs of abuse. Following graduation, Kathryn entered the field of consulting on pioneering healthcare products in the DC metro area. She received her Masters in Biotechnology Enterprise and Entrepreneurship from Johns Hopkins University while continuing to work full-time, and is presently a Senior Consultant in the Translational and Regulatory Sciences practice at Precision for Medicine, which was established to provide value-added scientific and regulatory solutions for development, marketing authorization, regulatory compliance, and stewardship of innovative healthcare products.

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Kathryn Cole and Merry Lee Bain: “Post-market device surveillance in the US: the MedWatcher platform.” SCRIP Regulatory Affairs published in 2013. Click to download (PDF).

Mahesh Datla


As an undergraduate, Mahesh Datla attended Virginia Commonwealth University majoring in Biomedical Engineering. After graduating, Mahesh worked at the National Institutes of Standards and Technology. He then applied to the MS/MBA program in Biotechnology at Johns Hopkins. On top of all his business and biotechnology requirements, Mahesh took the one year long Masters thesis course. For his Masters thesis, Mahesh worked at the National Cancer Institute at the Cancer Inflammation Program under the guidance of Dr. Yinling Hu. Mahesh graduated from Johns Hopkins with an MS/MBA in Biotechnology in December 2012. Read about his recent publication here:

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Zuoxiang Xiao, Qun Jiang, Jami Willette-Brown, Sichuan Xi, Feng Zhu, Sandra Burkett, Timothy Back, Na-Young Song, Mahesh Datla, Zhonghe Sun, Romina Goldszmid, Fanching Lin, Travis Cohoon, Kristen Pike, Xiaolin Wu, David S. Schrump, Kwok-Kin Wong, Howard A. Young, Giorgio Trinchieri, Robert H. Wiltrout and Yinling Hu: “The Pivotal Role of IKKa in the Development of Spontaneous Lung Squamous Cell Carcinomas,” Cell Press, April 2013. View Online.

Johanna Dennis


Johanna Dennis joined the faculty at Southern Illinois University in 2013, where she teaches Torts and Lawyering Skills I. She was previously a member of the law faculties at Southern University in Baton Rouge, Vermont Law School, Touro College – Jacob D. Fuchsberg Law Center, and Florida A and M University College of Law, where she taught classes in Patent law, Intellectual Property law, Immigration law, Commercial Papers, Federal Courts, Law and Medicine: Bioethics, and Legal Research and Writing. Prior to joining the legal academy, Professor Dennis clerked for the Honorable William P. Gilroy (ret.) in the Superior Court of New Jersey, Appellate Division, and she worked on civil service employment appeals with the State of New Jersey, Department of Personnel, Division of Merit System Practices and Labor Relations.

Professor Dennis has practiced immigration law and researches in immigration law and patent law. She also serves as a Deputy Editor for the American Bar Association’s Section of International Law – International Law News, and as Editor-in-chief for the International Journal of Liability and Scientific Enquiry.

Professor Dennis holds a J.D. from Temple University, a B.A. from Rutgers University, a M.S. in Biotechnology from The Johns Hopkins University, and a M.A.Ed. in Higher Education from Trident University. She is admitted to the Pennsylvania bar, the U.S. Court of Appeals for the Second Circuit, and the U.S. Patent and Trademark Office.

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Dennis, Johanna K.P. “What’s mine is mine and what’s yours is mine too: Converging U.S. intellectual property exhaustion doctrines.” Computer Law & Security Review 30:1 published in 2014. View online.

Dennis, Johanna K.P. “Owning Methods of Conducting Business in Cyberspace” Cyberspace Law Ed. Hannibal Travis. Routledge, 2013. View online.

Sean Evans


Sean L. Evans received his undergraduate degree in Biology from the College of Charleston in Charleston, South Carolina. During his undergraduate years, Sean participated in multiple summer research programs, including the Duke University Summer Research Opportunities Program and the Ronald E. McNair Scholars Program. After graduation, Sean volunteered as a Biology and Mathematics Education Volunteer with the United States Peace Corps in Tanzania (East Africa) for two years. Upon returning to the United States, he was selected to participate in the Post-Baccalaureate Research Education Program (PREP) at Johns Hopkins University. While a PREP scholar, Sean researched the effects of mercury on the immune system as well as completed a graduate degree in Biotechnology (MS). Prior to entering his doctoral program, Sean also participated in a summer research program at the National Institutes of Health.

Sean is currently in his fifth year of doctoral research in the area of HIV-host protein interactions. His doctoral thesis has focused on the assembly of a viral E3 ubiquitin ligase complex including HIV-1 accessory protein, viral infectivity factor (Vif) and host factors that are required for Vif function and HIV survival. His work has further characterized how all of these proteins come together using in vitro and in vivo cell based assays. Sean has co-authored eleven peer-reviewed publications and was a recipient of the Ruth L. Kirschtein National Research Service Award Pre-doctoral Fellowship.

In addition to his doctoral research, Sean was an analyst intern with the Johns Hopkins Office of Technology Transfer until November 2013. In this capacity, he reviewed new technologies from multiple fields, including the life and physical sciences as well as medical devices and software applications. Furthermore, he performed prior art, patentability, as well as market analyses in order to generate a technical report and marketing summary for each invention.

Sean will defend his dissertation February 10, 2014 and pursue a career in life sciences research and/or consulting at a biotechnology/pharmaceutical company, a government research agency, or a private firm.

Click here for a list of Sean’s publications.

Waleed Haso


Waleed Haso earned his bachelor of science in Bioinformatics from Ramapo College of New Jersey in 2010 magna cum laude. As an undergraduate, Waleed was involved in Bioinformatics research through interning at the Boyce Thompson Institute for plant research at Cornell University working on developing web tools and databases for the international tomato genome project. In 2010, Waleed was awarded the NCI/JHU fellowship in molecular targets and drug discovery. He worked in the pediatric oncology branch under directions of Dr. Crystal Mackall and Dr. Rimas Orentas on engineering T cells with chimeric antigen receptors for the immunotherapy of B cell malignancies targeting CD22. Waleed earned his M.S. In Biotechnology in 2012 and published his paper in Blood. Currently, he remains in the pediatric oncology branch to work under directions of Dr. Terry Fry performing preclinical experiments of the anti-CD22 Chimeric antigen receptor to plan for clinical trials. His future plan is to attend medical school and practice pediatrics. Read about his recent publication here:

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Waleed Haso, Damiel W. Lee, Nirali N. Shah, Maryalice Stetler-Stevenson, Constance M. Yuan, Ira H. Pastan, Dimiter S. Dimitrov, Richard A. Morgan, David J. FitzGerald, David M. Barrett, Alan S. Wayne, Crystal L. Mackall, and Rimas J. Orentas: “Anti-CD22-chimeric antigen receptors targeting B cell precursor acute lymphoblastic leukemia.” Blood Journal, published December 2012. View Online.

Ross Haynes


Ross Haynes started working at NIST in August 2005 after graduating from James Madison University Magna Cum Laude. He has since completed a master’s degree in Biotechnology at Johns Hopkins University. He is part of the Applied Genetics Group in the Biomolecular Measurement Division and is currently working on DNA-based reference materials of clinical relevance.

Click here for a list of Ross’ publications.

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Jim F. Huggett, Carole A. Foy, Vladimir Benes, Kerry Emslie, Jeremy A. Garson, Ross Haynes, Jan Hellemans, Mikael Kubista, Reinhold D. Mueller, Tania Nolan, Michael W. Pfaffl, Gregory L. Shipley, Jo Vandesompele, Carl T. Wittwer, and Stephen A. Bustin: “The Digital MIQE Guidelines: Minimum Information for Publication of Quantitative Digital PCR Experiments” Clinical Chemistry 59:6 published in 2013. Click to download (PDF).

Ginny Kwan


Ginny KwanGinny Kwan is a graduate student in the Regulatory Science program at Johns Hopkins University. She is currently in her last semester and is working on an independent research project on medical device software regulations, under the supervision of Professor Jonathan Helfgott, Acting Associate Director for Risk Science, FDA CDER (JHU alumna 2007, MSc. in Bioscience Regulatory Affairs). Ginny holds a BSc. in biochemistry. She has worked in the areas of regulatory operations in the generic drug industry and computer system validation for life sciences companies. She is also an active member of CAPRA – the Canadian Association of Professionals in Regulatory Affairs, serving on the Student Relations Committee. Ginny is passionate about regulatory affairs, driven by a personal goal to help deliver safe and effective medical products to those in need as quickly as possible. She is particularly interested in using technology to advance medical science. Ginny lives in Montreal, Canada and is a Regulatory Affairs Associate at Zimmer Computer Assisted Surgery (CAS).

 

Statement by Ms. Kwan: “While collecting information for my independent project in medical device software regulations (supervised by Jonathan Helfgott), I landed a new job! I connected with an RA director from Zimmer’s Computer Assisted Surgery division to discuss my project and to obtain his point of view on current regulations. Jonathan had prepared me well. We had previously discussed some of the challenges and trends in medical device software regulations and he had directed me to the relevant guidance documents. I was well prepared for the meeting and it didn’t go unnoticed. After the meeting, I was invited to submit my candidature for a position in his department. I am now in my second week at Zimmer, in my new job as a regulatory affairs associate.”

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Ginny Kwan “Online Regulatory Affairs Training from the US: An Alternative for Canadian Regulatory Affairs Professionals” News of Course 84 published in 2013. Click to download (PDF).

Seth Luty


Seth Luty graduated from Quinnipiac University in 2010 with a BS in biology with a concentration in Anatomy and Comparative Physiology. While attending Quinnipiac Seth worked full time as an Emergency Room Technician at Yale New Haven Hospital, which made it easy for Seth to transition to the Department of Emergency Medicine at Yale University when he graduated.

Seth worked in Emergency Medicine for three years as a Lead Research Associate on a grant funded by AHRQ to reduce the amount of ionizing radiation patients with renal colic receive from CT scans. During his time in Emergency Medicine Seth also became a Filemaker developer. Using these skills he created databases from scratch that house all patient-related study data for the department of Emergency Medicine’s federally funded research, which totals more than 8 million dollars in grants per year. The databases he created are accessible via iPad’s and allow for live electronic data capture in the Emergency Room.

Because of Seth’s success in Emergency Medicine, he has consulted for other departments in the Yale School of Medicine, including the departments of Otolaryngology Surgery and Endocrine Surgery; helping their study teams determine what type of data, services and databases will best suit their needs.

Outside Yale University, Seth is the database manager for a collaborative project between Kiaser Permanente Santa Clara Medical Center in California and Wellington Regional Hospital in New Zealand. He also is a Usability and Functionality Consultant and is currently helping a small tech start-up, SherlockMD, in Los Angeles, CA get their first website and iOS app launched. Lastly, he helps Health Bridges International, a non-profit organization dedicated to improving people’s health in developing countries through sustainable methods, with the analysis of data they have collected in Peru to examine the effectiveness of their programs.

Seth currently works for the Yale Center for Clinical Investigation as an OnCore Research Coordinator. Seth started the JHU Biotechnology program in the fall of 2013 and plans to concentrate his studies in bioinformatics. After graduating he hopes to use his degree to help bridge the gap between the clinical research world and the IT world. Seth is particularly interested in translational bioinformatics and using big data from the electronic medical record to perform disease phenotyping.

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Moore, C., Daniels, B., Singh, D., Luty, S., Molinaro, A., & Gross, C. (2013). “Prevalence and Clinical Importance of Alternative Causes of Symptoms Using a Renal Colic Computed Tomography Protocol in Patients With Flank or Back Pain and Absence of Pyuria.” Academic Emergency Medicine, 20(5), 470-478. Click to download (PDF).

Herbst, M.K., Rosenberg, G., Daniels, B., Gross, C.P., Singh, D., Molinaro, A., Luty, S., Moore, C.L. (2014) “Effect of Provider Experience on Clinician-Performed Ultrasonography for Hydronephrosis in Patients With Suspected Renal Colic.” Annals of Emergency Medicine View Online.

Christopher L Moore, Scott Bomann, Brock Daniels, Seth Luty, Annette Molinaro, Dinesh Singh, Cary P Gross: “Derivation and validation of a clinical prediction rule for uncomplicated ureteral stone—the STONE score: retrospective and prospective observational cohort studies” BMJ published in 2014. Click to download (PDF).

Nipun A. Mistry


After graduating from Johns Hopkins with a master’s in Bioinformatics, Nipun A. Mistry joined Texas Medical Center as a bioinformatics/statistical analyst. Nipun is currently working on multiple next-generation sequencing data analysis and software development projects. Nipun also participates in protocol development and is a consultant to investigators in the institution. Nipun is interested in medical genomics, personalized medicine, big-data analysis, computational biology, and programming. Nipun is originally from Mumbai, India. Nipun grew up in Singapore and completed an undergraduate degree in engineering back in India. Nipun’s hobbies include reading, programming, cooking and learning new languages. Read about recent publications here:

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Christopher J. Donnelly, Ping-Wu Zhang, Jacqueline T. Pham, Aaron R. Heusler, Nipun A. Mistry, Svetlana Vidensky, Elizabeth L. Daley, Erin M. Poth, Benjamin Hoover, Daniel M. Fines, Nicholas Maragakis, Pentti J. Tienari, Leonard Petrucelli, Bryan J. Traynor, Jiou Wang, Frank Rigo, C. Frank Bennett, Seth Blackshaw, Rita Sattler, and Jeffrey D. Rothstein, “RNA Toxicity from the ALS/FTD C9ORF72 Expansion Is Mitigated by Antisense Intervention,” Neuron 80, published October 2013. Click to download (PDF).

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Peter K. Todd and Henry L. Paulson, “C9orf72-Associated FTD/ALS: When Less Is More,” Neuron 80, published October 2013. Click to download (PDF).

Jarrett D. Morrow


In 2005, the threat of an avian influenza pandemic was the trigger for Jarrett Morrow to begin changing careers from engineering to the biological sciences. A solid educational foundation was achieved through on-ground coursework at local colleges, however having previously earned a Ph.D. in Electrical Engineering, it was apparent that graduate studies would be necessary to gain employment, and this proved to be difficult while continuing to work full time. The Master of Science in Biotechnology program in 2007 was a perfect option based on the reputation of The Johns Hopkins University and the online course structure. Fast forward to the end of 2008, when Jarrett and his wife brought their twin daughters home from China, the biotechnology program was nearing completion. After weighing several options in 2009, they concluded that being the caregiver for their daughters, while continuing graduate studies, was the correct plan for Jarrett; the Master of Science in Bioinformatics program was a natural extension of the biotechnology degree, as well as a complement to Jarrett’s engineering background. Although resigning from his engineering position in 2009 to enable this was extremely difficult, particularly considering the economic climate at the time, the ensuing process has proven to be extremely rewarding. Jarrett’s path has been fruitful, albeit non-traditional, and has been paved with challenging coursework and published research projects conducted with inspired and generous individuals. In particular, having taken two courses with Dr. Higgs, he graciously acted as Jarrett’s mentor on one of his research projects. He went above and beyond in these efforts and truly exemplified the spirit of Johns Hopkins University. In the summer of 2012 an internship opportunity at the Channing Division of Network Medicine at Brigham and Women’s Hospital provided full-time experience, as Jarrett’s graduation in December 2012 neared. Following the internship, Jarrett was fortunate enough to gain full-time employment as a Bioinformatics Programmer/Analyst, while at the same time earning the M.S. in Bioinformatics degree. His journey continues, and he will always be grateful for the opportunities that the Advanced Academic Programs provided. Read about his recent publication here:

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Jarrett D. Morrow and Brandon W. Higgs: CallSim: Evaluation of Base Calls Using Sequencing Simulation, ISRN Bioinformatics, published 2012. View Online.

Dr. Atara Noiade


Dr. Noiade practices Chinese Medicine including acupuncture on Bainbridge Island, WA and holds a M.BioSci from Johns Hopkins in Regulatory Affairs. She is an NCCAOM Diplomate in Herbal Medicine and has served as Chair of the Herbal Medicine Committee of the American Association of Acupuncture and Oriental Medicine. Read about Dr. Noiade’s recent publications here:

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Atara Noiade, “The Impact of FDA Enforcement of DSHEA on the Practice of Traditional Asian Herbal Medicine,” Update magazine, published December 2012. Click to download (PDF).

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Atara Noiade, “Drug Reimportation: Is It the Solution to the High Cost of Prescription Drugs in the US?” Regulatory Focus magazine, published April 2013. Click to download (PDF).

Houtan Noushmehr


Houtan Noushmehr’s academic training and research experience have provided him exposure to many different areas of science including, human physiology & diseases, molecular biology, genetics and bioinformatics & biostatistics. During Houtan’s doctoral training with Dr. Peter W. Laird at USC, he gained new insight and understanding of the epigenetic changes associated with Glioblastoma multiforme, a primary brain tumor. Not only did this work lay the foundation for Houtan’s scientific curiosity in the field of epigenetics (specifically DNA methylation), but also fulfilled an exciting collaborative experience. As a member of The Cancer Genome Atlas (TCGA), Houtan traveled and worked closely with a number of different scientists around the nation allowing him a unique opportunity to share and discuss research ideas with other TCGA members.

During his post-doctoral work, Houtan was supervised under Dr. Coetzee who is well known for his expertise in molecular biology, specifically works with ChIP-Chip and epigenetics in the area of prostate cancer. Recently his involvement with Genome-wide association studies (GWAS) to characterize risk loci in prostate cancer has received a lot of attention around the world. In the ‘post-GWAS’ era, the aim is to understand the functional consequences underlying cancer risk loci. In doing so, novel biological insights may be revealed leading to clinical benefits, including the development of reliable biomarkers, effective screening and disease prevention strategies. GWAS have identified more than 50 genetic risk loci for prostate cancer, however exactly how they affect risk is unknown. In this project, Houtan determined such mechanisms, revealing novel genes and preventive risk strategies. This work was the first comprehensive look at the 50+ risk loci for prostate cancer and provided a vital link to further study the biology of the proposed regions with emphasis on androgen receptor signaling. Houtan’s experience in Dr. Laird and Dr. Coetzee’s lab has enriched his skills and allowed him the opportunity to learn new areas of science.

Currently, Houtan is an assistant professor at the University of Sao Paulo at the Ribeirao Preto Medical School in the department of genetics. Houtan’s goal as an assistant professor is to develop the bioinformatics courses and program and study the area of genomics and epigenomics in human cancer.

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Michela Biancolella, Barbara K Fortini, Stephanie Tring, Sarah J. Plummer, Gustavo A. Mendoza-Fandino, Jaana Hartiala, Michael J. Hitchler, Chunli Yan, Fredrick R. Schumacher, David V. Conti, Christopher K. Edlund, Houtan Noushmehr, Simon G. Coetzee, Robert S. Bresalier, Dennis J. Ahnen, Elizabeth L. Barry, Benjamin P.
Burman, Judd C. Rice, Gerhard A. Coetzee, Graham Casey: “Identification and Characterization of Functional Risk Variants for Colorectal Cancer Mapping to Chromosome 11q23.1″ Oxford University Press published in 2013. View Online.

Cameron W. Brennan, Roel G.W. Verhaak, Aaron McKenna, Benito Campos, Houtan Noushmehr, et al.: “The Somatic Genomic Landscape of Glioblastoma” Cell 155 published October 2013. View online.

The Cancer Genome Atlas Research Network, John N Weinstein, Eric A Collisson, Gordon B Mills, Kenna R Mills Shaw, Brad A Ozenberger, Kyle Ellrott, Ilya Shmulevich, Chris Sander & Joshua M Stuart: “The Cancer Genome Atlas Pan-Cancer analysis project” Nature Genetics 45:10 published October 2013. View online.

Suhn Kyong Rhie, Simon G. Coetzee, Houtan Noushmehr, Chunli Yan, Jae Mun Kim, Christopher A. Haiman, Gerhard A. Coetzee: “Comprehensive Functional Annotation of Seventy-One Breast Cancer Risk Loci” PLoS ONE 8:5 published May 2013. View online.

Paul D P Pharoah, et al: “GWAS meta-analysis and replication identifies three new susceptibility loci for ovarian cancer” Nature Genetics 45:4 published April 2013. View online.

Jennifer Permuth-Wey, Kate Lawrenson, Howard C. Shen, et al: “Identification and molecular characterization of a new ovarian cancer susceptibility locus at 17q21.31″ Nature Communications 4:1627 published March 2013. View online.

Elliot Rosen


Elliot Rosen is a candidate for Master in Biotechnology at JHU. He currently studies chemotherapy and radiation-induced cardiotoxicity with the U.S. Food and Drug Administration. Mr. Rosen received his B.S. in Environmental Science and Policy from the University of Maryland in 2008.

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Jennifer S. Dickey, Yanira Gonzalez, Baikuntha Aryal, Steven Mog, Asako J. Nakamura, Christophe E. Redon, Ulrich Baxa, Elliot Rosen, Gang Cheng, Jacek Zielonka, Palak Parekh, Karen P. Mason, Joy Joseph, Balaraman Kalyanaraman, William Bonner, Eugene Herman, Emily Shacter, V. Ashutosh Rao: “Mito-Tempol and Dexrazoxane Exhibit Cardioprotective and Chemotherapeutic Effects through Specific Protein Oxidation and Autophagy in a Syngeneic Breast Tumor Preclinical Model.” PLoS ONE 8(8) published in 2013. View online.

Priyanka Shah


Priyanka Shah received her Bachelor’s degree in Biotechnology from Dr. D.Y. Patil Institute, Mumbai-India (2009). Soon afterwards, additional strengthening of her fundamental Biology principals made Priyanka pursue a Master’s degree in Biotechnology with a concentration of Cancer Biology and Drug Discovery from Johns Hopkins University (2011). Priyanka’s job search led her to her current position at National Institutes of Neurological Disorders and Stroke (NINDS) at NIH.

Priyanka works in a Crystallography lab and is part of a team that is actively involved in seeking active state Neurotensin structure as close as it can get to native human protein form. Priyanka is also involved in a Career Development committee of NIH, as a part of which she organized bi-monthly panels on current Science based career fields which are developing today. Avid reader and rock climber, Priyanka hopes to continue her pursuit of Science more from a Management point of view in the future.

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Jim F. White, Nicholas Noinaj, Yoko Shibata, James Love, Brian Kloss, Feng Xu, Jelena Gvozdenovic-Jeremic, Priyanka Shah, Joseph Shiloach, Christopher G. Tate & Reinhard Grisshammer: “Structure of the agonist-bound neurotensin receptor” Nature 490 published in 2012. Click to download (PDF).

Maria Ximena Sosa


Maria Ximena Sosa graduated from Tufts University with a double major in Biology and Biotechnology. Soon after graduation she joined the McKusick-Nathans Institute of Genetic Medicine (IGM) at The Johns Hopkins University School of Medicine to work with Dr Aravinda Chakravarti to study the etiology of complex diseases, specifically Hirschsprung (HSCR), Autism, Hypertension and Sudden Cardiac Death. Her current project involves the manipulation of Zebrafish to model human disease by using reverse genetics to validate candidate genes for Hirschsprung and Autism. She has extensive hands-on experience in Next-Generation sequencing and microarrays. Maria graduate from the MS in Biotechnology Program in 2010. Maria’s goal is to work in the field of translational research and personalized medicine.

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Maria Ximena Sosa,I. K. Ashok Sivakumar,Samantha Maragh, Vamsi Veeramachaneni, Ramesh Hariharan, Minothi Parulekar, Karin M. Fredrikson, Timothy T. Harkins, Jeffrey Lin, Andrew B. Feldman, Pramila Tata, Georg B. Ehret, Aravinda Chakravarti: “Next-Generation Sequencing of Human Mitochondrial Reference Genomes Uncovers High Heteroplasmy Frequency” PLoS Comput Biol 8(10) published October 2012. View Online.

Srirangan Sampath, Shambu Bhat, Simone Gupta, Ashley O’Connor, Maria Ximena Sosa, Andrew B. West, Dan E. Arking, Aravinda Chakravarti: “Defining the Contribution of CNTNAP2 to Autism Susceptibility”  PLoS ONE 8(10) published October 2013. View Online.

Andrew W. Tanner


Andrew Tanner received his bachelor’s degree in Biology from Montclair State University in May of 2007 before coming to Johns Hopkins. While attending JHU Andrew worked for Novartis Pharmaceuticals in the Microbiology division of QA.  Following his graduation in May of 2010 he decided to leave this job to pursue a Ph.D. in Microbiology and Molecular Genetics at the University of Medicine and Dentistry of New Jersey (Soon to be a part of Rutgers University on July 1st).  At present, in the lab of David Dubnau, Ph.D., he studies the modulation of a major transcription factor in Bacillus subtilis (Spo0A) which is responsible for determining whether a given cell chooses to swim, attach to a surface, form a spore or take up extracellular DNA. Read about his recent publication here:

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Carabetta, V. J., A. W. Tanner, T.M. Greco, M. Defrancesco, I.M. Cristea, and D. Dubnau (2013). “A complex of YlbF, YmcA and YaaT regulates sporulation, competence and biofilm formation by accelerating the phosphorylation of Spo0A.” Molecular microbiology 88(2): 283-300. View Online.

Iosif Vardinogiannis


Iosif Vardinogiannis is a recent graduate from Boston University (May 2013) with a degree in Biology. As a senior at BU, Iosif performed and assisted in the research of Dr. Thomas Gilmore in BU. Dr. Gilmore’s research involved experiments on Diffused Large B-cell Lymphoma cell lines in response to Histone Deacetylase inhibitors as well as studying the Rel/Nf-κB family of transcription factors. Iosif is currently enrolled in the MS in Biotechnology, with a concentration in Biotechnology Enterprise.

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Ryan C. Thompson, Iosif Vardinogiannis and Thomas D. Gilmore: “Identification of an NF-κB p50/p65-responsive site in the human MIR155HG promoter” BMC Molecular Biology 14:24 published in 2013. Click to download (PDF).

Ryan C. Thompson, Iosif Vardinogiannis and Thomas D. Gilmore: “The Sensitivity of Diffuse Large B-Cell Lymphoma Cell Lines to Histone Deacetylase Inhibitor-Induced Apoptosis Is Modulated by BCL-2 Family Protein Activity” PLOS ONE 8:5 published May 2013. Click to download (PDF).

Alex Zhavoronkov, Ph.D.


Alex Zhavoronkov, Ph.D., is the director and a trustee of the Biogerontology Research Foundation, a UK-based think tank supporting aging research worldwide and is the founder of the International Aging Research Portfolio, a curated knowledge management system for aging research. He heads the laboratory of regenerative medicine at the Clinical Research Center for Pediatric Hematology, Oncology and Immunology and is the head of research at NeuroG and the co-founder of the First Oncology Research and Advisory Center and the First Open Institute for Regenerative Medicine for Young Scientists. Dr. Zhavoronkov is the author of “The Ageless Generation: How Advances in Biomedicine Will Transform the Global Economy”(Palgrave Macmillan, NY, 2013). He holds two bachelor degrees from Queen’s University, a masters in biotechnology from Johns Hopkins Universtity and a PhD in physics and mathematics from the Moscow State University. Read about his recent publications here:

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Alex Zhavoronkov, Nawazish Mirza, Irog Artuhov, Edouard Debonneuil. “Evaluating the impact of recent advances in biomedical sciences and the possible mortality decreases on the future of health care and Social Security in the United States” Pensions 2012 Dec 14. 17, 241 – 251. doi: 10.1057/pm.2012.28. View Online.

Anastasia A. Zabolotneva, Alex Zhavoronkov, Andrew V. Garazha, Sergey A. Roumiantsev and Anton A. Buzdin. “Characteristic patterns of microRNA expression in human bladder cancer”
Gene. doi: 10.3389/fgene.2012.00310. View Online.

Moskalev A, Plyusnina E, Shaposhnikov M, Shilova L, Kazachenok A, Zhavoronkov A. ”The role of D-GADD45 in oxidative, thermal and genotoxic stress resistance” Cell Cycle. 2012 Oct 24;11(22). View Online.

Zhavoronkov A, Smit-McBride Z, Guinan KJ, Litovchenko M, Moskalev A. “Potential therapeutic approaches for modulating expression and accumulation of defective lamin A in laminopathies and age-related diseases.” J Mol Med (Berl). 2012 Oct 23. View Online.

Nepomnyashchaya YN, Artemov AV, Roumiantsev SA, Roumyantsev AG, Zhavoronkov A. “Non-invasive prenatal diagnostics of aneuploidy using next-generation DNA sequencing technologies, and clinical considerations.” Clin Chem Lab Med. 2012 Sep 29;0(0):1-14. doi: 10.1515/cclm-2012-0281.

Moskalev AA, Smit-McBride Z, Shaposhnikov MV, Plyusnina EN, Zhavoronkov A, Budovsky A, Tacutu R, Fraifeld VE. “Gadd45 proteins: relevance to aging, longevity and age-related pathologies” Ageing Res Rev. 2012 Jan;11(1):51-66. doi: 10.1016/j.arr.2011.09.003

Zhavoronkov A, Cantor CR. “Methods for structuring scientific knowledge from many areas related to aging research” PLoS One. 2011;6(7):e22597. doi: 10.1371/journal.pone.0022597. View Online.

Bobrov P, Frolov A, Cantor C, Fedulova I, Bakhnyan M, Zhavoronkov A. ”Brain-computer interface based on generation of visual images” PLoS One. 2011;6(6):e20674. doi: 10.1371/journal.pone.0020674. View Online.

V. A. Tverdislov,, L. V. Yakovenko,, A. A. Zhavoronkov. “Chirality as a problem of biochemical physics” Russian Journal of General Chemistry, November 2007, Volume 77, Issue 11, pp 1994-2005. View here (PDF).

Books

Dating AI: A Guide to Falling In Love with Artificial Intelligence
Alex Zhavoronkoff, Ph.D.
Re/Search Publications, San Francisco, 2012, ISBN: 978-1889307350
View Online.

The Ageless Generation: How Advances in Biomedicine Will Transform the Global Economy
Alex Zhavoronkov, Ph.D.
Palgrave Macmillan, New York, 2013, ISBN: 978-0230342200
View Online. 

Eric Langer (Faculty Member)


Eric Langer has over 20 years experience in biotechnology and life sciences international marketing, management, market assessment, and publishing. He has held senior management and marketing positions at biopharmaceutical supply companies. He is an experienced biotechnology strategist, marketing practitioner, publisher, and researcher. He has published, edited and authored numerous books, reports, and major studies on topics including: Advances in Biopharmaceutical Technology in China, Advances in Large-scale Biopharmaceutical Manufacturing, Biopharmaceuticals in the US Market, cell culture reports, media, sera, tissue engineering, stem cells, diagnostic products, blood products, genetics, DNA/PCR purification, blood components, and many others.

He lectures extensively on pricing and channel management topics, and teaches at Johns Hopkins University and American University: Biotechnology Marketing, Marketing Management, Services Marketing, Advertising Strategy, and Bioscience Communication. He has developed numerous courses, classes and seminar programs, including Marketing in a Regulated Environment, Marketing Technical Products, and TechniManagement.™ In 1989 he co-founded BioPlan Associates, Inc. a biotechnology and life sciences marketing company that provides information, market research, pricing, and market analysis to biotechnology and healthcare organizations. He has launched and managed marketing programs for product lines ranging from $500k to $500 million. His company works with both large and small clients at commercial biotechs, non-profit organizations, and governments in assessing and evaluating markets, and marketing strategies and tactics.

Click here for a list of Eric’s publications.

Joshua Orvis (Faculty Member)


In addition to teaching courses at JHU, Joshua is a “Senior Bioinformatics Software Engineer” at the Institute for Genome Sciences in Baltimore as well as a consultant for the Broad Institute. Joshua’s undergraduate degree was in Microbiology and his graduate work was focused on Bioinformatics. He very much enjoys teaching and has taught graduate-level classes for most of the last 10 years. Joshua’s research projects tend to focus on single-genome annotation (eukaryotic and prokaryotic), metagenomics and transcriptomics. These have required a focus on distributed grid computing to manage the computational needs of large datasets, though he tries to stay as close to the biology as he can and not get distracted by technical fun.

Click here for a list of Joshua’s publications.
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Click here to read Joshua’s Reddit AMA Session.

Mathumathi Rajavel (Faculty Member)


Mathumathi Rajavel received her Master’s in Microbiology and Ph.D in Molecular Biology from Madurai Kamaraj University, India. Her Ph.D thesis was on understanding genetic instability in Streptomyces upon antibiotic exposure. Her postdoctoral training at Temple University was in Protein chemistry and then at Johns Hopkins University Bloomberg School of Public Health, she used molecular and biochemical approaches to understand the Cell Integrity Signaling.

She is teaching for AAP Program since 2001 (core and elective courses) both online and onsite. She is currently an Assistant Professor at Morgan State University and her research involves manipulating bacteriophages to combat infections caused by multi-drug resistant bacterial pathogens.

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Fouts DE, Klumpp J, Bishop-Lilly KA, Rajavel M, Willner KM, Butani A, Henry M, Biswas B, Li M, Albert MJ, Loessner MJ, Calendar R,
Sozhamannan S. (2013). Whole genome sequencing and comparative genomic analyses of two Vibrio cholerae O139 Bengal-specific Podoviruses to other N4-like phages reveal extensive genetic diversity. Virol J. 28; 10: 165. View online.

JHU Master’s Candidates in Biotechnology


“From the Bench to the Boardroom: Planning for Personalized Medicine,” Managing Innovations Class Book, published in 2012. This book is the product of the Fall 2012 Managing Innovation in the Life Sciences class taught at the Zanvyl-Krieger School of Arts and Sciences of the Johns Hopkins University. Each chapter author is a candidate for a Master’s Degree in the Advanced Biotechnology Program. Like others before it, this book is a class project, intended to address a lay audience about a topic of central importance in the life sciences: innovation and how the innovation process and innovators may be managed to best achieve value. Click to download (PDF).