columbia systems biology phd

Wu Lab @ Columbia

Decoding and targeting the central dogma.

We study the fundamental principles of how genetic information is coded and decoded in health and disease and how to target these processes in cancer, heart disease, aging, and neurodegeneration. To achieve these goals, we utilize cutting edge technologies, including CRISPR, genomics, and machine learning.

columbia systems biology phd

Decoding the central dogma

How do cells accurately synthesize a complex proteome from a genome with 98% noncoding DNA?

columbia systems biology phd

CRISPR technology & therapy

We use CRISPR to control RNAs and proteins for therapeutic applications.

columbia systems biology phd

Computational biology

We are currently developing interpretable deep learning models for alternative splicing and CRISPR targeting.

1 ) A web server called kpLogo for position-specific short motif analysis. See Wu & Bartel 2017 Nucleic Acids Research 2 ) Network-based global prediction of human disease genes. See Wu et al. 2008 Molecular Systems Biology 3 ) Network alignment-based identification of disease families and associated gene modules. See Wu et al. 2009 Bioinformatics

PUBLICATIONS

Jordan Kesner, Xuebing Wu Mechanisms suppressing noncoding translation. Trends in Cell Biology , 2024, in press

Peiguo Shi, Xuebing Wu Programmable RNA targeting with CRISPR-Cas13. RNA Biology , 2024, 21:1–9

Imdadul Haq, Jason C. Ngo, Nainika Roy, Richard L. Pan, Nawsheen Nadiya, Rebecca Chiu, Ya Zhang, Masashi Fujita, Rajesh K. Soni, Xuebing Wu, David A Bennett, Vilas Menon, Marta Olah, Falak Sher An integrated toolkit for human microglia functional genomics. Stem Cell Research & Therapy , 2024, 15:104

Jian Ge, Hongxu Ding, Hongxia Shao, Yuefeng Huang, Xuebing Wu, Jie Sun, Jianwen Que Single cell analysis of lung lymphatic endothelial cells and lymphatic responses during influenza infection. Journal of Respiratory Biology and Translational Medicine , 2024, 1:10003

Yingyu Zhang, Wanwei Zhang, Jingyao Zhao, Takamasa Ito, Jiacheng Jin, Alexis O. Aparicio, Junsong Zhou, Vincent Guichard, Yinshan Fang, Jianwen Que, Joseph F. Urban Jr, Jacob H. Hanna, Sankar Ghosh, Xuebing Wu, Lei Ding, Uttiya Basu & Yuefeng Huang m6A RNA modification regulates innate lymphoid cell responses in a lineage-specific manner. Nature Immunology , 2023, 24:1256–1264

Jordan S Kesner*, Ziheng Chen*, Peiguo Shi, Alexis O Aparicio, Michael R. Murphy, Yang Guo, Aditi Trehan, Jessica E. Lipponen, Yocelyn Recinos, Natura Myeku, Xuebing Wu Noncoding translation mitigation. Nature , 2023, 617:395–402 See related preprint

Peiguo Shi^, Michael R Murphy, Alexis O Aparicio, Jordan S Kesner, Zhou Fang, Ziheng Chen, Aditi Trehan, Yang Guo, Xuebing Wu^ Collateral activity of the CRISPR/RfxCas13d system in human cells. Communications Biology , 2023 6:334 See related preprint

Jordan S Kesner*, Ziheng Chen*, Alexis A Aparicio, Xuebing Wu A unified model for the surveillance of translation in diverse noncoding sequences. bioRxiv , 2022.07.20.500724; doi: https://doi.org/10.1101/2022.07.20.500724

Peiguo Shi^, Michael R Murphy, Alexis O Aparicio, Jordan S Kesner, Zhou Fang, Ziheng Chen, Aditi Trehan, Xuebing Wu^ RNA-guided cell targeting with CRISPR/RfxCas13d collateral activity in human cells. bioRxiv , 2021, 2021.11.30.470032; doi: https://doi.org/10.1101/2021.11.30.470032

Cheng Zhang, Silvana Konermann, Nicholas J. Brideau, Peter Lotfy, Xuebing Wu , Scott J. Novick, Timothy Strutzenberg, Patrick R. Griffin, Patrick D. Hsu, Dmitry Lyumkis Structural basis for the RNA-guided ribonuclease activity of CRISPR-Cas13d. Cell , 2018, 175:212-223

Josh Tycko, Luis A Barrera, Nicholas Huston, Ari E Friedland, Xuebing Wu , Jonathan S Gootenberg, Omar O Abudayyeh, Vic E Myer, Christopher J Wilson, Patrick D Hsu Pairwise library screen systematically interrogates Staphylococcus aureus Cas9 specificity in human cells. Nature Communications , 2018, 9:2962

Wei Jiang*, Yuehua Wei*, Yong Long*, Arthur Owen, Bingying Wang, Xuebing Wu , Shuo Luo, Yongjun Dang, Dengke K. Ma A genetic program mediates cold-warming response and promotes stress-induced phenoptosis in C. elegans eLife , 2018, 7:e35037

X Shawn Liu, Hao Wu, Marine Krzisch, Xuebing Wu , John Graef, Julien Muffat, Denes Hnisz, Charles H. Li, Bingbing Yuan, Chuanyun Xu, Yun Li, Dan Vershkov, Angela Cacace, Richard A. Young, Rudolf Jaenisch Rescue of fragile X syndrome neurons by DNA methylation editing of the FMR1 gene Cell , 2018, 172:979–992

Anthony C. Chiu*, Hiroshi I. Suzuki*, Xuebing Wu , Dig B. Mahat, Andrea J. Kriz, Phillip A. Sharp Transcriptional Pause Sites Delineate Stable Nucleosome-Associated Premature Polyadenylation Suppressed by U1 snRNP Molecular Cell , 2018, 69:648–663

Xuebing Wu , David P. Bartel Widespread influence of 3′-end structures on mammalian mRNA processing and stability Cell , 2017, 169: 905–917

Xuebing Wu ^, David P. Bartel^ (^co-corresponding author) k pLogo: positional k -mer analysis reveals hidden specificity in biological sequences Nucleic Acids Research , gkx323 http://kplogo.wi.mit.edu

Xiaochang Zhang, Ming Hui Chen, Xuebing Wu , Andrew Kodani, Jean Fan, Ryan Doan, Manabu Ozawa, Jacqueline Ma, Nobuaki Yoshida, Jeremy F Reiter, Douglas L. Black, Peter V Kharchenko, Phillip A. Sharp, Christopher A. Walsh Cell type-specific alternative splicing governs cell fate in the developing cerebral cortex Cell , 2016, 166:1147-1162

F. Ann Ran*, Le Cong*, Winston X. Yan*, David A. Scott, Jonathan S. Gootenberg, Andrea J. Kriz, Bernd Zetsche, Ophir Shalem, Xuebing Wu , Kira S. Makarova, Eugene V. Koonin, Phillip A. Sharp, Feng Zhang In vivo genome editing using Staphylococcus aureus Cas9 Nature , 2015, 520:186-191

Xuebing Wu , Andrea J. Kriz, Phillip A. Sharp Target specificity of the CRISPR-Cas9 system Quantitative Biology , 2014, 2:59-70

Xuebing Wu , David A. Scott, Andrea J. Kriz, Anthony C. Chiu, Patrick D. Hsu, Daniel B. Dadon, Albert W. Cheng, Alexandro E. Trevino, Silvana Konermann, Sidi Chen, Rudolf Jaenisch, Feng Zhang, Phillip A. Sharp Genome-wide binding of the CRISPR endonuclease Cas9 in mammalian cells Nature Biotechnology , 2014, 32:670-676

Sidi Chen, Yuan Xue, Xuebing Wu , Le Cong, Arjun Bhutkar, Eric Bell, Feng Zhang, Robert Langer, Phillip A. Sharp Global microRNA depletion suppresses tumor angiogenesis Genes & Development , 2014, 28:1054-1067

Xuebing Wu , Phillip A. Sharp Divergent transcription: a driving force for new gene origination? Cell , 2013, 155:990-996

Albert E. Almada*, Xuebing Wu *, Andrea J. Kriz, Christopher B. Burge, Phillip A. Sharp (*equal contribution) Promoter directionality is controlled by U1 snRNP and polyadenylation signals Nature , 2013, 499:360–363

Le Cong, F Ann Ran, David Cox, Shuailiang Lin, Robert Barretto, Naomi Habib, Patrick D Hsu, Xuebing Wu , Wenyan Jiang, Luciano A Marraffini, Feng Zhang Multiplex genome engineering using CRISPR/Cas systems Science , 2013, 339 (6121):819-823.

Patrick D. Hsu, David A. Scott, Joshua A. Weinstein, F. Ann Ran, Silvana Konermann, Vineeta Agarwala, Yinqing Li, Eli J. Fine, Xuebing Wu , Ophir Shalem, Thomas J. Cradick, Luciano A. Marraffini, Gang Bao, and Feng Zhang DNA Targeting Specificity of the RNA-guided Cas9 Nuclease Nature Biotechnology , 2013, 31:827-832

Anna Lyubimova, Shalev Itzkovitz, Jan Philipp Junker, Zi Peng Fan, Xuebing Wu , Alexander van Oudenaarden Single-molecule mRNA detection and counting in mammalian tissue Nature Protocols , 2013, 8:1743–1758 (download software)

Yong Chen, Xuebing Wu , Rui Jiang Integrating human omics data to prioritize candidate genes BMC Medical Genomics , 2013, 6:57

Xuebing Wu , Qifang Liu, Rui Jiang Align human interactome with phenome to identify causative genes and networks underlying disease families Bioinformatics , 2009, 25 (1): 98-104 [ Data ]

Wanwan Tang, Xuebing Wu , Rui Jiang, Yanda Li Epistatic module detection for case-control studies: A Bayesian model with a Gibbs sampling strategy PLoS Genetics , 2009, (5):e1000464

Rui Jiang, Wanwan Tang, Xuebing Wu , Wenhui Fu A random forest approach to the detection of epistatic interactions in case-control studies BMC Bioinformatics , 2009, 10 (Suppl 1):S65

Xuebing Wu , Rui Jiang, Michael Q. Zhang, Shao Li Network-based global inference of human disease genes Molecular Systems Biology , 2008, 4:189.

Xuebing's undergraduate publications

Xuebing Wu , Zhirong Sun, Rui Jiang Logic motif of combinatorial control in transcriptional networks Nature Precedings , 2008, https://doi.org/10.1038/npre.2008.2227.1

Zhirong Sun, Xuebing Wu Systems biology: new interdisciplinary science Communication of China Computer Society , 2006, 2 (3):56-65 (Cover story, review, in Chinese)

Xuebing Wu , Yuanjie Li, Huaiyu Wang An intelligent transportation system based on virtual force Physics and Engineering , 2005, 2 (in Chinese)

Lab members

Jordan Kesner 8/1/2020-10/1/2023, PhD student -> Postdoc

Katherine Da 9/1/2023-11/30/2023, Visiting undergraduate student, Dartmouth College

Yue Yin 11/01/2021-07/01/2022, Barnard Summer Research Institute, undergraduate student

Alexis Aparicio 02/19/19-08/19/2022, Technician B

Jonathan Algoo 9/20/21-12/14/2021, Rotation student, integrated program

Zhou "Zanis" Fang 11/01/19-12/06/2021, DSI Scholar -> Postdoc

Ziheng "Calvin" Chen 1/15/19-8/10/2020, Master's student, Columbia BME

Qijin Yin 11/25/19-5/10/2020, Visiting PhD student from Tsinghua University

Ellen Alt 5/28/19-8/1/19, Barnard Summer Research Institute, undergraduate student

columbia systems biology phd

4sU-2P-Seq and DIM-2P-seq protocol (Mar 2017) (PDF)

8/27/24 Henry Le started rotaion in the lab

8/15/24 Xuebing gave an invited seminar at Tsinghua University, Beijing

7/26/24 Xuebing speaks at the 2024 International Conference on Life Sciences, Guiyang, China

7/18/24 Xuebing is invited to present in 2024 STXBP1 Summit

7/8/24 Colin and Feiyue join the lab as PhD studnet #3 and #4!

7/8/24 Wesley Huang joins the lab for his summer research rotation

6/24/24 Xuebing speaks at the 50th Sharp lab reunion symposium “Half A Century of Sharp Minds”

6/10/24 Caroline Ugoaru joins the lab for her T35 summer research as an MD student

6/7/24 Xuebing speaks at the 2024 High-Risk, High-Reward Research (HRHR) Symposium at Bethesda

5/19/24 Peiguo's Cas13 review was published online

5/13/24 Xuebing was selected as a 2024 Schaefer Research Scholar

4/19/24 Xuebing speaks at the first Healthspan Extension Summit at Columbia

4/3/24 Xuebing is invited to speak at the inaugural RNADay@Penn 2024

3/26/24 We received the MIND Prize to test a new idea for treating neurodegeneration

2/1/24 We received our first R01 grant from NHLBI!

1/8/24 We welcomed rotation students Feiyue Yang (Systems Biology) and Sebastian Ho (Nutritional & Metabolic Bio)

12/20/23 We received a grant from the Million Dollar Bike Ride (MDBR) Grant Program to dissect STXBP1 3’ UTR regulation for therapeutic development

12/19/23 We received a grant from the Ines Mandl Research Foundation (IMRF) to develop an off-the-shelf gene editing therapy for Marfan Syndrome

11/17/23 We received a grant from the Cure Alzheimer’s Fund to study noncoding translation and feedback loops in Alzheimer's disease!

11/10/23 Xuebing is invited to give a seminar at Duke Biology and RNA Center @ Durham

11/9/23 Xuebing is invited to give a seminar at NIEHS @ Durham

10/17/23 Xuebing is invited to give a seminar at Koch Institute/MIT

10/14/23 Xuebing gave a talk at EMBL@Heidelberg, Germany, during the 2023 non-coding genome symposium

10/13/23 Xuebing is invited to give a seminar at Heidelberg University Hospital @ Heidelberg, Germany

10/11/23 Xuebing is invited to give a seminar at Max Planck Institute for Molecular Genetics @ Berlin, Germany

9/20/23 We received the inaugural Glenn Foundation Discovery Award !

9/18/23 Our NCI admin supplement grant with Que lab has been funded!

9/13/23 We welcome visiting student Katherine Da, Biology and CS @ Dartmouth College

9/4/23 We receive a 2nd grant from Longevity Impetus Grants !

8/28/23 We welcome graduate student Colin Kalicki for his 1st rotation

7/31/23 Xuebing gave a talk in the Basic Cardiovascular Sciences (BCVS) conference in Boston

7/3/23 Our collaborative work with Yuefeng Huang lab was published at Nature Immunology

7/1/23 We receive a grant from HICCC/Inter/Intra-Programmatic Pilot Program (IPPP) to target lung cancer using CRISPR/Cas13

5/30-6/4/23 Xuebing, Michael, and Jordan attended 2023 annual RNA meeting at Singapore. Michael won a poster award. Xuebing gave a talk on RPL3L ribosomes.

4/19/23 Xuebing was invited to visit U of Chicago by postdocs at the Department of Human Genetics

4/12/23 Our paper titled noncoding translation mitigation has been published online at Nature. See CUIMC news release Illuminating tumor cells with dark proteins

3/28/23 Our paper on Cas13 collateral activity has been published online at Communications Biology

3/21/23 Jordan has been selected as one of the two recipients of the 2023 Dean’s Award for Excellence in Research! Congratulations, Jordan!

10/14/22 Xuebing and Michael each gave an invited virtual talk to the Toronto RNA Club

9/29/22 Xuebing gave an invited virtual seminar at the University of Texas at Dallas

9/6-9/22 Xuebing and Michael each gave a talk at the 18th translational control conference at CSHL

8/31/22 Xuebing gave an invited talk at the first FASEB conference on RNA and immunity .

8/25/22 Congrats Dr. Jordan Kesner! First PhD from the lab!

7/21/22 Lab releases the 2nd bioRxiv preprint , led by Jordan, Ziheng, and Alex

6/4/22 Jordan gave a talk at RNA society meeting 2022

5/25/22 Congrats to Aditi for passing her qualifying exam!

5/4/22 Xuebing gave an invited talk at Weill Cornell and MSKCC

5/3/22 Xuebing gave an invited virtual talk at Prevail Therapeutics / Eli Lilly and Company

4/18/22 Lab welcomes Yang Guo as a postdoctoral research scientist !

11/30/21 First preprint from the lab, led by Peiguo: RNA-guided cell targeting with CRISPR/RfxCas13d collateral activity in human cells

11/16/21 Lab welcomes Barnard/Columbia undergraduate student Yue Yin!

10/14/21 Lab receives Longevity Impetus Grants to study aging!

9/20/21 Lab welcomes Jonathan Algoo as a rotation student in the Fall!

6/21/21 Lab receives 2021 Paul A. Marks Scholars Award , which provides unrestricted fund for 3 years

6/3/21 Lab receives Columbia Precision Medicine Pilot Grant , which supports our study on specialized ribosomes in the heart

5/27/21 Aditi Trehan became PhD student #2 of the Wu lab!

5/18/21 Lab receives the 2021 Pershing Square Sohn Prize for Young Investigators in Cancer Research , which supports our study on cancer-targeting using CRISPR/Cas13 and machine learning. Also see CUIMC News

4/12/21 Aditi Trehan started her rotation in the lab!

10/6/20 Lab receives NIH Director's New Innovator Award (DP2) for genome-scale study of mRNA noncoding functions using CRISPR/Cas13. Also see CUIMC News

9/1/20 Zanis joined the lab as a Postdoc!

8/3/20 The Wu lab welcomes our first PhD student Jordan Kesner!

6/15/20 Xuebing is named a 2020 Pew-Stewart Scholar for Cancer Research , which will support our study of how cancer cells reprogram mRNA structures on a genome-scale. Also see Columbia HICCC News

4/1/20 Lab's COVID-19 research highlighted in HICCC news article Columbia University Cancer Researchers in the Fight Against COVID-19

2/21/20 Xuebing's faculty profile/interview article at Dept. Systems Biology and Cancer Center / HICCC

2/10/20 Shruti Verma joined the lab from Columbia Engineering

12/17/19 Xuebing is named Highly Cited Researcher in 2019 by Web of Science

12/03/19 Michael's AHA postdoc fellowship application was funded. Congratulations!

11/25/19 Qijin Yin started as a visiting scholar. Welcome Qijin!

11/01/19 Welcome four new members to the lab: Peiguo Shi (postdoc), Zanis Fang (MS/DSI Scholar), Katherine Liu and Yixuan Li (undergrad)

10/24/19 Lab moves to our permanent space in P&S

06/28/19 Xuebing gave a talk at the RNA therapeutics conference at UMass Med School.

06/14/19 Xuebing gave a video-taped talk at the RNA Society Annual Meeting in Krakow, Poland.

05/28/19 Ellen Alt joined the lab as a summer research student. Welcome Ellen!

03/01/19 Michael Murphy joined the lab as a staff associate. Welcome Michael!

02/19/19 Alexis Aparicio joined the lab as our first Technician. Welcome Alex!

01/15/19 Ziheng (Calvin) Chen, a graduate student in the BME Master of Science program joined the lab. Welcome Calvin!

12/07/18 Xuebing won the The RNA Society/Scaringe Young Scientist Award 2019

11/01/18 Lab officially started!

We are seeking passionate researchers of all stages (postdocs, graduate students, undergraduates, and research associates) to join our team.

Graduate student looking for rotation or postdoc opportunity : please email me ([email protected]) directly.

Graduate programs we are affiliated with : Integrated Program in Cellular, Molecular, and Biomedical Studies (CMBS) ; Systems Biology (also a track in the CMBS program); Nutritional and Metabolic Biology .

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Peter A Sims, PhD

  • Associate Professor of Systems Biology (in Biochemistry and Molecular Biophysics and in Systems Biology)
  • Google Scholar

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Credentials & experience.

Peter Sims, PhD is an Associate Professor in the Department of Systems Biology and Department of Biochemistry & Molecular Biophysics, Vagelos College of Physicians & Surgeons (VP&S). He is also the Faculty Director of the Columbia Single Cell Analysis Core, Scientific Director of the Sulzberger Columbia Genome Center, and co leads the Precision Oncology and Systems Biology program within the Herbert Irving Comprehensive Cancer Center (HICCC). His lab develops experimental and computational tools for genomic analysis with applications in cancer biology, immunology and neuroscience. Dr. Sims received his PhD in chemistry from Harvard University where he also conducted his postdoctoral research.

Academic Appointments

Administrative titles.

  • Director, Columbia Single Cell Analysis Core
  • Co-Leader, Precision Oncology and Systems Biology Program, HICCC
  • Scientific Director, Sulzberger Columbia Genome Center, VP&S

Education & Training

  • Postdoctoral Fellowship, Harvard University
  • BS, Chemistry, University of California San Diego
  • PhD, 2009 Chemistry, Harvard University

Committees, Societies, Councils

  • Member, Planning Committee, Chan Zuckerberg Biohub New York, 2023-present
  • Editorial Board, Genome Medicine, 2022-present
  • Guest Editor, Current Opinion in Systems Biology, Genetics and Epigenomics, 2018

Honors & Awards

The Sims Lab at Columbia University Medical Center focuses on the development of new technology for the application of systems biology in biomedicine. We recently developed and applied new experimental and computational methods for cell type-specific, genome-wide analysis of transcription and translation in complex tissues such as the brain. In addition, we have developed new technology for large-scale expression analysis of individual cells by combining cutting-edge microscopy, next-generation sequencing, and microfabrication. We apply these tools in several human disease contexts including brain tumors and other neurological disorders.

Research Interests : single-cell genomics, genomic technology development, computational biology, malignant gliomas, immunology

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Peter A Sims, PhD

  • Associate Professor of Systems Biology (in Biochemistry and Molecular Biophysics and in Systems Biology)
  • Google Scholar

Profile Navigation

Credentials & experience, related news.

Peter Sims, PhD is an Associate Professor in the Department of Systems Biology and Department of Biochemistry & Molecular Biophysics, Vagelos College of Physicians & Surgeons (VP&S). He is also the Faculty Director of the Columbia Single Cell Analysis Core, Scientific Director of the Sulzberger Columbia Genome Center, and co leads the Precision Oncology and Systems Biology program within the Herbert Irving Comprehensive Cancer Center (HICCC). His lab develops experimental and computational tools for genomic analysis with applications in cancer biology, immunology and neuroscience. Dr. Sims received his PhD in chemistry from Harvard University where he also conducted his postdoctoral research.

Academic Appointments

Administrative titles.

  • Director, Columbia Single Cell Analysis Core
  • Co-Leader, Precision Oncology and Systems Biology Program, HICCC
  • Scientific Director, Sulzberger Columbia Genome Center, VP&S

Education & Training

  • Postdoctoral Fellowship, Harvard University
  • BS, Chemistry, University of California San Diego
  • PhD, 2009 Chemistry, Harvard University

Committees, Societies, Councils

  • Member, Planning Committee, Chan Zuckerberg Biohub New York, 2023-present
  • Editorial Board, Genome Medicine, 2022-present
  • Guest Editor, Current Opinion in Systems Biology, Genetics and Epigenomics, 2018

Honors & Awards

The Sims Lab at Columbia University Medical Center focuses on the development of new technology for the application of systems biology in biomedicine. We recently developed and applied new experimental and computational methods for cell type-specific, genome-wide analysis of transcription and translation in complex tissues such as the brain. In addition, we have developed new technology for large-scale expression analysis of individual cells by combining cutting-edge microscopy, next-generation sequencing, and microfabrication. We apply these tools in several human disease contexts including brain tumors and other neurological disorders.

Research Interests : single-cell genomics, genomic technology development, computational biology, malignant gliomas, immunology

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Software Engineer

  • Systems Biology
  • Columbia University Medical Center
  • Opening on: Oct 23 2024
  • Job Type: Officer of Administration
  • Bargaining Unit:
  • Regular/Temporary: Regular
  • End Date if Temporary:
  • Hours Per Week: 35
  • Standard Work Schedule:
  • Salary Range: $63,700 - $72,000

Position Summary

The Department of Systems Biology, AlQuraishi Lab, is seeking a candidate with extensive expertise in software engineering, high-performance computing, and the development of machine learning models using modern frameworks such as PyTorch and JAX. The candidate will split 50% of their time on software engineering work in support of large-scale machine learning models and their training, and 50% on novel research in the biological machine learning space, with a focus on foundation and molecular models.

Responsibilities

  • Develop software engineering infrastructure for large-scale machine learning models.
  • Develop training procedures and deployments on high-performance computing platforms using Slurm, PBS, and AWS.
  • Optimize the time and space complexity of machine learning models in both the inference and training contexts.
  • Research new foundation models for genomes and proteins.
  • Analyze data from raw sources and machine learning training runs.
  • Summarize and prepare reports on analyses.
  • Performs other related duties as assigned.

Minimum Qualifications

  • Bachelor’s degree or equivalent in education and experience required plus 3 years of related experience

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    Columbia University Department of Systems Biology. Irving Cancer Research Center. 1130 St. Nicholas Avenue, New York, NY 10032. (212) 851-4673.

  2. Graduate Education

    PhD education at Columbia stresses the importance of high-throughput experimentation, quantitative analysis of large biological data sets, and innovative technology development. Whether your primary interest is in experimental or computational research in systems biology, the experience you gain will prepare you to participate in cutting-edge ...

  3. Systems Biology

    The Systems Biology program includes research areas taking mathematical and computational approaches to understand fundamental biological processes including development, gene regulation, the function of cells, organs, and tissues, and disease mechanisms. Students in this track will take elective courses in computer science, statistics, and ...

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  5. About the Program

    Graduate EducationAbout the Program. With the increasing availability of data from the genome and other "omics," computational and experimental systems biology have become important disciplines within the biological sciences. Columbia University offers PhD graduate education that prepares students to become leaders in this exciting and rapidly ...

  6. Curriculum

    Reflecting the interdisciplinary nature of the discipline, Systems Biology PhD students are currently required to take six core courses, including two systems biology courses, two biology-themed courses, and two statistical or computational courses. First year fall semester: Core Course 1 and 2; First year spring semester: Core Course 3 and 4

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    Genomics, Computational and Systems Biology. Systems biology is an interdisciplinary search for the fundamental organizing principles that underlie the evolution and function of biological systems ranging from small molecular networks to multi-species communities. The related field of genomics aims to understand the structure, function, and ...

  9. Requirements and Curriculum

    Course Curriculum. As students within the Integrated Program for Cellular, Molecular, and Biomedical Studies at Columbia University, students in the Systems Biology specialization must fulfill the general requirements of the program. However, given the varied interests and concentrations of our students, we make an effort to tailor specific ...

  10. Affiliated PhD Programs

    The Integrated Program is an interdepartmental program at Columbia University Medical Center that offers PhD education across a wide range of disciplines. The Department of Systems Biology and Center for Computational Biology and Bioinformatics have created a special track within the Integrated Program, enabling graduate students to work with ...

  11. Faculty

    PhD Programs > Systems Biology > Faculty; Biochemistry, Molecular Biophysics and Structural Biology; Biomedical Informatics; Cancer Biology; ... Department of Systems Biology (Columbia University) Academic Appointments . Clyde '56 and Helen Wu Professor of Chemical Biology (in Systems Biology) and Professor of Biomedical Informatics and of ...

  12. Biological Sciences

    The Biological Sciences PhD program is an interdisciplinary training program based in the highly-esteemed Department of Biological Sciences on Columbia's Morningside (116 th St.) campus in Manhattan. Research areas include Cancer and Disease Biology; Cell, Developmental and Stem Cell Biology; Evolutionary Biology, Comparative Genomics and ...

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    The Columbia University Department of Systems Biology is a multidisciplinary program whose goal is to advance the integration of quantitative and experimental research methods in the biological and biomedical sciences. Our faculty. The Department of Systems Biology includes over thirty faculty members with a wide range of interests. We ...

  14. Precision Oncology and Systems Biology

    The Precision Oncology and Systems Biology (POSB) Program builds on the strength of cancer systems biology at Columbia University and the Herbert Irving Comprehensive Cancer Center (HICCC), contributing to precision oncology research on a truly predictive and personalized basis. ... Peter A. Sims, PhD. Associate Professor of Systems Biology (in ...

  15. Wu Lab @ Columbia

    Graduate student looking for rotation or postdoc opportunity: please email me ([email protected]) directly. Graduate programs we are affiliated with: Integrated Program in Cellular, Molecular, and Biomedical Studies (CMBS); Systems Biology (also a track in the CMBS program); Nutritional and Metabolic Biology.

  16. Peter A. Sims, PhD

    Peter Sims, PhD is an Associate Professor in the Department of Systems Biology and Department of Biochemistry & Molecular Biophysics, Vagelos College of Physicians & Surgeons (VP&S). He is also the Faculty Director of the Columbia Single Cell Analysis Core, Scientific Director of the Sulzberger Columbia Genome Center, and co leads the Precision ...

  17. Peter A. Sims, PhD

    Research. Overview. Dr. Sims received in Ph.D. in chemistry from Harvard University where he also conducted postdoctoral research, and has been an Assistant Professor at Columbia since 2012. He has served as Director of Systems Biology Graduate Studies since 2016 and Director of the Columbia Single Cell Analysis Core since 2017.

  18. PhD Program

    PhD Program. Keyword filter: 1 Item. Seven Biology PhD Students offered NSF GRFP Awards. News Article. Academic Office, Department of Biological Sciences 600 Fairchild Center; Mail Code 2402, 1212 Amsterdam Avenue · New York, NY 10027. Phone. (212) 854-4581. Contact Us.

  19. Peter A. Sims, PhD

    Peter Sims, PhD is an Associate Professor in the Department of Systems Biology and Department of Biochemistry & Molecular Biophysics, Vagelos College of Physicians & Surgeons (VP&S). He is also the Faculty Director of the Columbia Single Cell Analysis Core, Scientific Director of the Sulzberger Columbia Genome Center, and co leads the Precision ...

  20. Prediction of Protein-DNA Binding Affinity from Sequencing Data with

    Harmen Bussemaker, PhD, Professor of Biological Sciences and of Systems Biology will deliver the talk "Prediction of Protein-DNA Binding Affinity from Sequencing Data with Interpretable Machine Learning" as part of the Department of Systems Biology Faculty Seminar Series. For more information about his research, visit the Bussemaker lab.

  21. Software Engineer

    Job Type: Officer of Administration Bargaining Unit: Regular/Temporary: Regular End Date if Temporary: Hours Per Week: 35 Standard Work Schedule: Building: Salary Range: $63,700 - $72,000 The salary of the finalist selected for this role will be set based on a variety of factors, including but not limited to departmental budgets, qualifications, experience, education, licenses, specialty, and ...