Bin Chen, PhD

Principal Investigator, Assistant Professor (CV)

Bin was recruited to MSU through the Global Impact Initiative. Prior to this position, Bin was a faculty member (instructor, assistant professor) at UCSF for three years. Bin trained as a chemist in college, worked as a software engineer before graduate school, trained as a chem/bioinformatician in graduate school, worked as a computational scientist at Novartis, Pfizer and Merck. He received his PhD in informatics at Indiana University, Bloomington and pursued his postdoctoral training in Dr. Atul Butte's lab at Stanford University. Bin co-founded DahShu, a non-profit organization to promote research and education in data sciences. As a PI, he has received >$4.5 million research funding. He has also contributed to a number of big grants (e.g., P01 and U24) as a co-investigator. During weekends, Bin plays soccer or coaches kids to play soccer.

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Ke Liu, PhD

Postdoctoral Scholar

Ke received the BA in computer science at Shandong University in 2008 and the PhD in biology at Tsinghua University in 2014. He then pursued his postdoctoral training at UC Berkeley before joining Chen lab in 2018. He is interested in integrating multiple omics data (e.g., RNA-Seq, Chip-Seq) to discover new therapeutics for complex diseases (especially lung cancer). He is also interested in bioinformatics tool development.

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Rama Shankar, PhD

Postdoctoral Scholar

Rama completed M.Sc. Biotechnology from University of Hyderabad, India in 2010 and PhD in computational biology from Jawaharlal Nehru University, India in 2018. He joined Dr. Bin Chen group in 2018. He is interested to apply single cell transcriptomic data into therapeutic discovery and integrate omics data to study drug resistance in cancers including breast cancer.

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Jing Xing, PhD

Postdoctoral Scholar

Jing received her BS in Pharmaceutical Sciences from Sun Yat-sen University in 2013 and PhD in Drug Design from Shanghai Institute of Materia Medica, Chinese Academy of Sciences in 2018. She joined Dr. Bin Chen group in 2018. Her research interests include drug hit optimization using omics data, biomarker discovery and employing deep learning algorithms to solve pharmaceutical problems.

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Shreya Paithankar, MS

Technical Assistant

Shreya helps develop our RNA-Seq processing pipeline and build OCTAD RNA-Seq database

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Rae Felismino

Medical student at COM/MSU

Rae is interested to discover drugs for myc-overexpressed cancers using our computional pipeline

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Krista Young

Medical student at COM/MSU

Krista is interested to discover drugs for melanoma using our computional pipeline

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Cathy Lee

Medical student at COM/MSU

Cathy is interested to discover drugs for DIPG/oligodendroglioma using our computional pipeline

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Christopher Chang

Medical student at COM/MSU

Chris is interested in data analysis in cancer immunotherapy.

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Shan-Ju Yeh

Visiting Student

Shan-Ju is a third year PhD student from National Tsinghua University in Taiwan. She is interested in using systems biology and genomic data to understand gatric cancer progression.

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Yingying Wu, PhD

Postdoctoral Scholar (Leave of Absence, currently visiting scholar at Harvard until June 30, 2020)

Yingying received her PhD in mathematics at the University of Texas, Austin, and MS in mathematics at Harvard. She is interested in using geometric analysis and phylogenetic analysis to understand cancer evolution.

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Mengying Sun

Graduate student (co-supervised by Dr. Jiayu Zhou)

As a PhD student in computer science, Mengying is interested in machine learning method development. In Chen lab, she is developing machine learning methods (including deep learning) to predict drug-induced gene expression profiles.

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Evgenii (Evgeny) Chekalin, PhD

Postdoctoral Scholar

Evgeny joins us from the Vavilov Institute of General Genetics, Russian Academy of Sciences, where he received the PhD in both Genetics and Bioinformatics. He has extensive experience with immune systems, gene networks and ancient DNA analysis. In Chen lab, he will lead the effort in cancer immunotherapy and therapeutic discovery (DIPG and melanoma). His hobbies are hiking, rock-climbing and archery.

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Tom Hu

collaborator, Graduate student at UC Berkeley supervised by Dr. Haiyan Huang

Tom is interested in applying deep learning and statistical modeling into drug discovery. He is developing a method to address inconsistency of pharmacogenomics data.

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We are always looking for highly-motivated trainees (postdoc, graduate, undergraduate, high-school) to join the team. If you are passionate about using big data to find cures, let's have a chat. If you would like to know more about our research, please check out our collection. We hire outstanding postdocs (at least two first-author papers). We recruit students through the BioMolecular Science Gateway and the Dual PhD program in Computational Mathematics, Science and Engineering. We have the tradition to mentor undergraduates and high school students. To prepare for a summer internship program, please refer to Bin's writing Ten Simple Rules for Internship in a Pharmaceutical Company.

We are currently hiring

research assistant professor

Part-time scientific curator

Dr. Bin Chen’s lab at Michigan State University is actively looking for part-time curators for a recent NIH-funded project. The long-term goal of the Chen lab is to leverage Big Data and AI to discover new therapeutics. The candidates are expected to manually curate drug-biomarkers from clinical trials (https://clinicaltrials.gov/) and literature. The high-quality biomarkers will become a valuable resource for precision medicine research. The candidates will have the opportunity to work with a world-class team consisting of postdoctoral scholars, students and full-time researchers. The candidates are expected to have a background in biology, chemistry or medicine. Knowing basic programming is not required, but helpful. The candidates should have a great personality and be willing to take challenges. Candidates are expected to work 19 hours per week with an hourly rate ranging from $15 to $25. The position is available immediately and funded for three months. The contract may be extended or transferred to a full-time depending on program needs and project budget.

Part-time programmer (Python + HTML5 + Javascript)

Dr. Bin Chen’s lab at Michigan State University is actively looking for a part-time programmer for a recent NIH-funded project. The long-term goal of the Chen lab is to leverage Big Data and AI to discover new therapeutics. The candidate is expected to maintain and develop our big data based drug discovery portal (http://octad.org). The candidate should have extensive experiences with Python, HTML5, Javascript and REST API development. Knowing R, mysql and/or machine learning would be a plus. The candidate will have the opportunity to work with a world-class team consisting of postdoctoral scholars, students and full-time researchers. The candidate is expected to have a background in biology, chemistry or medicine. The candidate should have a great personality and be willing to take challenges. The candidate is expected to work 19 hours per week with an hourly rate ranging from $40 to $60. The position is available immediately and funded for three months. The contract may be extended or transferred into a full-time depending on program needs and project budget.


Alumni

Suchir Gupta 2019 summer intern Grand Rapids Central High School
Billy Zeng UCSF medical student 2017-2019 UCSF medical student
Albert Jiao Medical student 2018 Medical student at MSU
Kasim Fassia Medical student 2018 Medical student at MSU
Patrick Newbury, MD Postdoc from 2018-2019 Radiation oncology resident at University of Oklahoma
Anthony Sciarini Intern from GVSU in 2018 summer and fall GVSU undergraduate
Keith Schmitt Intern from GVSU in 2018 summer and fall GVSU undergraduate
Anita Wen Summer intern from UC Davis in 2018 UC Davis
Before we moved to MSU in 2018
Jordan Spatz Medical student UCSF
Michael F. Sharpnack Medical student, volunteer Ohio State University
Reuben Sarwal Summary Intern Undergraduate, UC Berkeley
Tanisha Joshi Summary Intern High school
Jane Wei Summary Intern Undergraduate, Cornell University
Rachel (Menghua) Wu Summary Intern High school, accepted into MIT
Charles Pei Summary Intern High school, accepted into Harvard, co-mentored by Marina Sirota

Collaborators

  • Samuel So, MD (Asian Liver Center, Stanford): HCC drug validation
  • Haiyan Huang, PhD (Department of Statistics, UC Berkeley): statistical model development
  • Jiayu Zhou, PhD (Department of Computer Science, MSU): deep learning model development
  • Theodore Nicolaides, MD,PhD (New York University): DIPG validation
  • Richard Neubig, MD,PhD (MSU): Melanoma validation
  • Rajasekaran Surender, MD (Spectrum Health): MODS biomarker discovery
  • Xiaohong Li, PhD (VARI): cancer metastasis
  • Nick Duesbery, PhD (Spectrum Health): EMR mining
  • Andrei Goga, MD, PhD (Department of Medicine, UCSF)
  • ISPY team (Breast cancer, UCSF)
  • John Gordan, MD, PhD (Gastrointestinal Oncology, UCSF)
  • Katie Kelley, MD (Liver cancer, Department of Medicine, UCSF)
  • Ben Glicksberg, PhD (Institute for Computational Health Sciences, UCSF)
  • Marina, Sirota, PhD (Institute for Computational Health Sciences, UCSF)
  • Dexter Hadley, MD, PhD (Institute for Computational Health Sciences, UCSF)