Posts Tagged ‘#genomics’

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chinese cancer data

July 18, 2014

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3759719/

Annotated somatic variants and interactive variant analysis results are available online atwww.ingenuity.com/acrg2012.

Eighty-eight primary HCC tumors and matched adjacent nontumor liver tissues were analyzed by whole-genome DNA sequencing to identify somatic mutations and HBV integration sites. The vast majority (92%,n = 81) of patients in this cohort were HBV carriers (i.e., HBsAg seropositive) suffering from chronic hepatitis B or cirrhosis. None of the patients were hepatitis C virus (HCV) positive

the data:

http://gigadb.org/dataset/100034

The original paper is here: http://www.ncbi.nlm.nih.gov/pubmed/23788652

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chinese cancer data

July 17, 2014

the data:

http://gigadb.org/dataset/100034

The original paper is here: http://www.ncbi.nlm.nih.gov/pubmed/23788652

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PAWG-WGL Links for PCAWG upload status

July 4, 2014

PanCancer.info has fantastic #viz of the progress & int’l effort in the Pan-#Cancer Analysis of Whole #Genomes (#PCAWG) project

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Million Veteran Program (MVP)

June 24, 2014

http://www.research.va.gov/MVP/

Principal Investigators :

John Concato, M.D., M.S., M.P.H.
Yale

J. Michael Gaziano, M.D., M.P.H.
Harvard

QT:{{”

It’s Launch Time for the Million Veteran Program…

The VA Office of Research and Development is launching its
unprecedented partnership between VA and Veterans who volunteer to help build one of the largest databases of genetic, military exposure and health information. The Million Veteran Program (MVP) promises to reshape the field of genomics—a sophisticated science poised to revolutionize health care for Veterans and others throughout the U.S. and around the world.

“}}

From Schmidt’s talk: The Million Veteran Program is building a DB of genetic, military exposure & health info
http://www.research.va.gov/MVP #1000gb

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Genomic Analysis of the Clonal Origins of Relapsed Acute Lymphoblastic Leukemia

June 8, 2014

Science. 2008 Nov 28;322(5906):1377-80. doi: 10.1126/science.1164266.

Mullighan CG1, Phillips LA, Su X, Ma J, Miller CB, Shurtleff SA, Downing JR.

Interesting older paper

Genomic analysis of the clonal origins of relapsed ALL
http://www.sciencemag.org/content/322/5906/1377.abs Older paper, describing relapse as arising from minor subclone

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And now a video game for cancer genomics !

May 11, 2014

we can play in meetings, and tell people we are working on cancer research.
http://scienceblog.cancerresearchuk.org/2014/02/04/download-our-revolutionary-mobile-game-to-help-speed-up-cancer-research

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Brain-Mapping Milestones – NYTimes.com

April 28, 2014

Brain-Mapping Milestones: 1st mention of the BrainSpan.org project in
the Times! http://www.nytimes.com/2014/04/22/science/brain-mapping-milestones.html #Neuroscience & #Genomics

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Processed pseudogenes acquired somatically during cancer development

April 12, 2014

http://www.nature.com/ncomms/2014/140409/ncomms4644/full/ncomms4644.html

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Three-Dimensional Genome Architecture Influences Partner Selection for Chromosomal Translocations in Human Disease

April 10, 2014

QT:"We show that many translocation-prone pairs of regions genome-wide, including the cancer translocation partners BCR-ABL and MYC-IGH, display elevated Hi-C contact frequencies in normal human cells."

Overlap of Hi-C & gene fusions

http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0044196

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Synonymous mutations as driver mutations for cancer

April 10, 2014

http://ac.els-cdn.com/S0092867414001457/1-s2.0-S0092867414001457-main.pdf?_tid=82c57e74-c01a-11e3-95b3-00000aacb35e&acdnat=1397070764_5c441e4c90a317cc7642b6873f888eb6

http://www.sciencedirect.com/science/article/pii/S0092867414001457

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