The Columbia University Department of Systems Biology periodically publishes a newsletter reporting on research highlights and other news from our community. Previously, the newsletter was published under the auspices of the Center for Multiscale Analysis of Genetic and Cellular Networks (MAGNet). Click on the thumbnails to download a copy of the newsletter as a PDF.

Department of Systems Biology Research Highlights

 

  The Evolutionary History of SARS-CoV-2 

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December 2022

Deciphering Cancer Is Messy and Complex. We’re Here for It. 
Andrea Califano, PhD

Study Shows Why Many Cancer Cells Need to Import Fat 
Dennis Vitkup, PhD

Precision Medicine Sends Cancer for a Loop 
Cory Abate-Shen, PhD 
Andrea Califano, PhD

Insights from Chaolin Zhang’s Lab 
 


  The Evolutionary History of SARS-CoV-2 

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December 2021

The Evolutionary History of SARS-CoV-2  
Raul Rabadan, PhD

RNA-Based Oncology Platform  
Andrea Califano, Dr.

Diversity and Severity of Autism Symptoms Linked to Mutation Locations  
Dennis Vitkup, PhD


Research Highlights 2020   

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December 2020

Addressing the Global Pandemic 

New Tumor-Specific Molecular Interaction Maps Capture Complexity of Cancer Networks  
Andrea Califano, Dr  
Barry Honig, PhD

Dynamics of Gut Bacteria Follow Ecological Laws  
Dennis Vitkup, PhD

Ancient Part of Immune System May Underpin Severe COVID  
Sagi Shapira, PhD  
Nicholas Tatonetti, PhD

 


Research Highlights 2019   

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October 2019


A New Window into how Human-Infecting Viruses Work  
Sagi Shapira, PhD  

Designer Proteins Come with Built-In Safeguards  
Harris Wang, PhD  

Mapping the Human Cell Atlas  
Peter Sims, PhD  
Raul Rabadan, PhD  

Prostate Cancer Grant Spotlights Precision Cancer Medicine  
Andrea Califano, Dr  
Michael Shen, PhD


Research Highlights 2018   

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October 2018  
 

Bladder Cancer Organoids Mimic Patient Tumors  
Michael Shen, PhD

Introducing Columbia’s Program for Mathematical Genomics  
Raul Rabadan, PhD

Targeting the Engine Room of the Cancer Cell  
Andrea Califano, Dr

World’s Smallest Tape Recorder is Built from Microbes  
Harris Wang, PhD


 

Research Highlights 2016   

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September 2016

Columbia Awarded NCI Center for Cancer Systems Biology 

Glioblastoma Tumor Evolution and Strategies against Advanced Disease  
Raul Rabadan  
 

How Genomic Data Are Changing Population Genetics  
Molly Przeworski

Method for Determining Proten Function Opens Doors for Precision Medicine  
Andrea Califano


 

Research Highlights 2015 

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June 2015

Columbia Investigators Awarded New NCI Physical Sciences in Oncology Center   
Raul Rabadan

The Exposome: Relating Environmental Factors to Human Disease  
Nicholas Tatonetti

Tracing Bacterial Evolution across Billions of Years  
Dennis Vitkup

Mechanism of Kidney Transplant Tolerance Discovered  
Yufeng Shen


 

Research Highlights 2014   

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December 2014

A Comprehensive Map of Human B-Cell Development  
Dana Pe'er  
 

New Directions in Genome Engineering  
Harris Wang  
 

Algorithm Identifies Genetic Driver of Mesenchymal Glioblastoma  
Andrea Califano

Systems Biology Throws You Out of the Box  
Saeed Tavazoie


MAGNet Newsletters

 

MAGNet Newsletter 2014   

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Spring 2014 - Featured Articles

Cross-Species Computational Analysis Identifies a Synergistic Interaction that Drives Prostate Cancer Malignancy   
Cory Abate-Shen, Andrea Califano, Michael Shen

A Topological Approach for Characterizing Evolution   
Kevin Emmett, Raul Rabadan

A Global View of Tumor-Induced Gene Expression Changes in Human Metabolism   
Dennis Vitkup


 

MAGNet Newsletter 2013   

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Spring 2013 - Featured Articles

PrePPI: A Novel Structure-Based Method for Predicting Protein-Protein Interactions   
Barry Honig

An Integrative Genomics Approach to Define RNA Regulatory Networks   
Chaolin Zhang

From Genome-Scale Sequencing to Angstrom-Scale Insights: The Enzyme DNase I Reveals Its True Colors   
Harmen J. Bussemaker


 

  

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Spring 2012 - Featured Articles

A Mesenchymal Transition Signature Present in Invasive Solid Cancers   
Dimitris Anastassiou

Discovering the Regulatory Programs Underlying Mammalian Transcript Stability   
Hani Goodarzi & Saeed Tavazoie

Mapping the miRNA Regulatory Network in Glioblastoma   
Pavel Sumazin & Andrea Califano


 

  

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Spring 2011 - Featured Articles


Interrogating Molecular Pathways of Prostate Tumorigenesis in Mice and Men   
Cory Abate-Shen & Michael M. Shen

The Origin and Evolution of a Pandemic Virus   
Zachary Carpenter, Carlos Hernandez, Joseph Chan, Raul Rabadan

The Transcriptional Network for Mesenchymal Transformation of Brain Tumours   
Andrea Califano


 

  

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Spring 2010 - Featured Articles


Structural Organization, Evolution, and Heterogeneous Activation of a Bacterial Sporulation Network   
Dennis Vitkup

Breaking the Code of Non-coding DNA in the Human Genome   
Tom Tullius

The Family of Man: Methods and Applications for Discovering Shared Ancestry among Purported Unrelateds   
Itsik Pe'er


 

  

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Winter 2009 - Featured Articles


Three R's of Computer Assisted Biomedical Discovery: Reading, Reasoning and Reporting   
Hannah Tipney & Lawrence Hunter

Dissecting Transcription Factor Function on Multiple Scales Biophysics, and Computers   
Harmen J. Bussemaker

Making Sense of Transcription Factor Specificities, or How to Grow Legs in Strange Places: a Collaboration between Flies, Biophysics, and Computers   
Richard S. Mann & Barry Honig


 

  

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Winter 2008 - Featured Articles


Understanding Cadherin Specificity in the Development of Multicellular Structures: a Combined Experimental and Computational Theory   
Lawrence Shapiro & Barry Honig

Mapping the Transcription Factor Modulator Repertoire in Human B Lymphocytes   
Andrea Califano & Riccardo Dalla-Favera

National Centers for Biomedical Computing and Related Activities at NIH   
Dan Gallahan