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School of Medicine
Dept. of Medicine
Ideker Lab in the News
Frontline Cancer: Genetic background can provide clues about possible future tumors.
Dr. Scott Lippman,
La Jolla Light
, (31 May 2017).
CRISPR-based mapping of genetic interactions
Nature Reviews Genetics
18, 272–273 (2017) doi:10.1038/nrg.2017.25 Published online 03 April 2017.
Gene Editing Approach Uncovered Cervical Cancer’s Weak Spots.
Cervical Cancer News
(27 Mar 2017).
Gene editing used to find cancer's genetic weak spots
, Bradley J. Fikes,
San Diego Union Tribune
, (22 March 2017). [
CRISPR/Cas9 Reveals Cancer’s Synthetic Lethal Vulnerabilities
GEN Genetic Engineering & Biotechnology News Highlights
(21 March 2017).
CRISPR Method Used to Detect Synthetic Lethalities in Cancer.
GenomeWeb, (20 March 2017).
Gene Editing Technique Helps Find Cancer’s Weak Spots
. Heather Buschman,
UCSD Health Newsroom
, (20 March 2017).
The Siri of the cell - Tech Podcast.
Leigh Alexander and Iain Chambers,
, (9 Mar 2017).
Massively Parallel Perturbations.
, (1 Mar 2017).
An In Depth Look at the Father of Systems Biology. Mary Chitty, Library Director & Taxonomist, Cambridge Healthtech Institute.
(28 Nov 2016).
New Bioinformatic Analysis Reveals Role of Proteins in Diabetic Kidney Disease
, Yadira Galindo, UCSD Health Newsroo
m, (15 November 2016).
A Disease of the Genome
Frontline Genomics Magaine,
Issue 10, 17-20, (Oct 2016)
Researchers ID Cancer Gene-Drug Combinations Ripe for Precision Medicine
, Heather Buschman, UCSD Health Newsroom, (21 July 2016).
Big Data's Big Implications for Cancer Treatments
, Patricia Fitzpatrick Dimond, GEN Genetic Engineering & Biotechnology News, 9 May (2016).
San Diego biotech raises $46 million
, Bradley J. Fikes, UT San Diego, 5 May (2016)
Biomarker Tracks Accelerated HIV-Associated Aging
, National Institute of Mental Health (NIH), 21 April (2016). and
AIDS.Gov, 27 Apr (2016).
People Who Are HIV-Positive May Be Aging Faster Than Their Peers
, Michaeleen Doucleff, NPR Health, 26 April (2016).
HIV Infection Prematurely Ages People by an Average of Five Years
, Heather Buschman, UCSD Health Newsroom, 21 April (2016).
Meet The Author: Andrew Gross
, Molecular Cell, Vol 62, 21 April (2016).
NextGen Stars Program
, AACR American Assoc For Cancer Research, April (2016). Dr.
John Paul Shen presents at the AACR Major Symposium "Modeling the Interface between Cancer Genomics and Drugs".
New Research Unit will Identify Opportunities for Disease Treatments Using Computation, Mathematics and Statistics
, Jennifer O'Brien, UCSF News Center, 16 March (2016).
Just The FAQs: Connecting Genotype to Phenotype with "
Ontotype", UC San Diego Health Sciences, 24 Feb (2016).
Comparative Genomics: One for all
, Duncan T Odom, ELife, 11 Feb (2016).
All's Well That Scales Well
, H Craig Mak, Cell Systems Editorial, Vol 2, Issue 2, p 59. 24 Feb (2016).
GenomeSpace “Recipes” Help Biologists Interpret Genomic Data
, Heather Buschman, UCSD Health Newsroom, 20 Jan (2016).
Three UC San Diego Professors Named AAAS Fellows
, Mario Aguilera,
UCSD News Center,
24 Nov (2015), and at
, 16 Nov (2015)
New Biomarkers Might Help Personalize Metastatic Colorectal Cancer Treatment
UCSD Health Newsroom
, 17 June (2015) and in
17 June (2015)
UC San Diego, UC San Francisco Launch New Cancer Cell Mapping Initiative
UCSD News Center
, 29 January (2015) and in
, 29 January (2015)
Don't judge every tumor by its tissue, scientists say
, Julia Rosen,
Los Angeles Times
, 7 Aug (2014)
How cells remodel after UV radiation
Medical Xpress, 19 December (2013) and in
Medical News Today
, 29 December (2013),
, 19 December (2013),
, 20 December (2013),
, 20 December (2013), and
, 19 December (2013)
Making connections: using networks to stratify human tumors
, Benjamin J. Raphael, Nature Methods 10(11):1077-1078 (2013)
Wildly Heterogeneous Genes,
Innovations Report, 16 September (2013) and in
, 15 September (2013)
Studying Tumor Mutations via a Network Approach
, GEN Genetic Engineering & Biotechnology News, 16 September (2013) and in
, 16 September (2013)
Gene networks predict cancer prognosis
, Bradley J. Fikes, UT San Diego, 15 September (2013)
Unraveling cancer through network models
, Sarah Webb, PhD, BioTechniques, 09 September (2013)
Searching for Meaningful Markers of Aging
, David Stipp, New York Times, 22 July (2013)
UCSD Study Clarifies Epigenetic Behavior
, Bradley J. Fikes, UT San Diego, 04 January (2013)
Automating the construction of gene ontologies.
Kara Dolinski and David Botstein,
Nature Biotechnology News and Views
, (09 Jan 2013)
Network-Extracted Ontologies Organize Knowledge from Genomic Data
, BiotechDaily, 24 December (2012)
Biomarking time: methylome modifications offer new measure of our ''biological'' age news
, UCSD News, 21 November (2012)
My data are your data
, Vivien Marx, Nature Biotechnology, 30, 509–511, 07 June (2012)
Proteomics: The interaction map
Nature 484, 271–275 (12 April 2012) doi:10.1038/484271a
Published online (11 April 2012).
La Jolla Research and Innovation Summit Connects Business and Academia
, Tiffany Fox, April 25 (2011)
Digging Deeper, Seeing Farther: Supercomputers Alter Science
, John Markoff, The New York Times, April 26 (2011)
Study shows how stress causes extensive genetic rewriting
, Kristen Bole, PHYSORG.com, January 12 (2011)
Rewiring makes the difference
, Andrea Califano, Molecular Systems Biology 7(463):doi:10.1038/msb.2010.117, January 18 (2011)
UC San Diego Receives $6.5M to Decipher Protein Interactions
, Steve Sinovic, San Diego Business Journal, December 13 (2010)
Scientists Map Genetic Network’s Response to DNA-Damaging Agents
, Steve Sinovic, San Diego Business Journal, December 3 (2010)
UCSD Gets $6.5M NIH Grant to Fund New Network Biology Center
, GenomeWeb Daily News, November 2 (2010)
Stanford, UCSD Biologists Take Plunge Into Arpanet-Style Project with Sage Bionetworks
, Luke Timmerman, Xconomy -- Seattle, October 6 (2010)
UCSD awarded $15.4 million for systems biology research
, La Jolla Light, October (2010)
Neither models nor miracles: a look at synthetic biology
, Robert Fortner, Ars Technica, August 24 (2010)
Life Science Technologies: Protein-Protein Interaction Technologies Toward a Human Interactome
, Jeffrey M. Perkel, Science, July 23 (2010)
Search for pathway-level biomarkers
, Amy Swinderman, Drug Discovery News, August (2009)
More harm than good?
, Justine Davies, The Guardian, June 23 (2009)
Amid Efforts to Give Foods More Antioxidant Punch, Mysteries Remain
, Jennifer LaRue Huget, The Washington Post, June 2 (2009)
Oxidative stress may extend lifespan
, The Times of India, May 29 (2009)
UCSD's Ideker Seeks Contributors for 'Clearinghouse' of Network Models
, Vivien Marx, October 17 (2008)
Primetime for Protein Arrays
, Jeanene Swanson, Genome Technology, July/August (2008)
Networking, protein style
, Nicola McCarthy, Nature Reviews: Cancer, December (2007)
Using Molecular Pathways to Assess Cancer Patients
, Katherine Bourzac, Technology Review, October 17 (2007)
What Can Systems Biology Do for You? Four computational modeling strategies and the data that build them
, Jeffrey M. Perkel, The Scientist, March (2007)
Friendster for Proteins
, Robert Langreth and Matthew Herper, Forbes, March 12 (2007)
Scientist to Watch. Trey Ideker: Navigating Deep Waters
, Ishani Ganguli, The Scientist, Oct (2006)
Making Inroads on Malaria
: MS and Other Analytical Methods Aid the Detection and Understanding of the Persistent Parasite Plasmodium.
Tom Hayden, Analytical Chemistry, August 1 (2006)
How Cells Thwart Cancer: A systems biology map of cells' responses to DNA damage could provide valuable clues to discovering new cancer drugs
Katherine Bourzac, Technology Review, May 25 (2006)
Cell, Heal Thyself: New systems biology model reveals how cells repair DNA damage
, Jacobs School of Engineering, May 18 (2006)
By creating maps of the body’s complex molecular interactions, Trey Ideker is providing new ways to find drug
, Jon Cohen, Technology Review, Mar 20 (2006)
10 Emerging Technologies Report: Comparative Interactomics
, Technology Review, Feb 21 (2006)
Two UCSD Bioengineering Professors Recognized as Pioneers in Emerging Field of Comparative Interactomics
, Jacobs School of Engineering, Nov 2 (2005)
Malaria Parasites 'Wiring' May be Key
, The San Diego Union Tribune, Nov 3 (2005)
Researchers Develop New Method To Find Deadly Malaria Parasite's Achilles Heel,
ScienceDaily, Nov 2 (2005)
TR35: Technology Review's top 35 innovators under the age of 35
, Technology Review, Oct (2005)
UCSD Bioengineering Professor Trey Ideker Named Top 35 Young Scientist By MIT'S Technology Review Magazine
, UCSD News, Sept 6 (2005)
Mapping 'circuitry' of yeast genes using technique that could be applied to humans
, Medical News Today, May 7(2005)
Researchers Map 'Circuitry' of Yeast Genes Using Technique That Could be Applied to Humans
, Science Daily, May 6 (2005)
Examination of Internal 'Wiring' of Yeast, Worm, and Fly Reveals Conserved Circuits
, Jacobs School of Engineering, Feb 8 (2005)
2004 & Prior
UCSD Bioengineering Professor Wins 2004 Packard Foundation Fellowship
, Jacobs School of Engineering, Oct 15 (2004)
Thinking, Tinkering, Tooling in Systems Biology
, Genomics and Proteomics (2004)
UCSD and SDSC to Host RECOMB Computational Molecular Biology Meetings
, Jacobs School of Engineering, Mar 23 (2004)
PATHBLAST: Software Tackles Protein Pathways
, Jacobs School of Engineering, Sept 25 (2003)
Hot Papers: Yeast Pushes the Proteomic Envelope
, Mignon Fogarty, The Scientist, July 28 (2003)
Data Explosion: Bringing Chaos to Order with Bioinformatics
, Charles W. Schmidt, Environmental Health Perspectives, May (2003)
Integrating the Pieces of Systems Biology, Beth Schachter, Genomics and Proteomics, June (2003)
"The Path Not Taken"
, Edward M. Marcotte, Nature Biotech, July (2001), pp.626-627
ISB Scientists Have Their Work Cut Out
, John S. MacNeil, Genome Web, May (2001)
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