Looks like 88 freely available liver cancer genome datasets
http://gigadb.org/dataset/100034
Archive for the 'SciLit' Category
GigaDB Dataset – DOI 10.5524/100034 – Hepatocellular carcinoma genomic data from the Asia Cancer Research Group.
March 28, 2014Predicting Social Security numbers from public data
March 27, 2014QT:{{”
Such findings highlight the hidden privacy costs of widespread information dissemination and the complex interactions among multiple data sources in modern information economies (11), underscoring the role of public records as breeder documents (12) of more sensitive data.
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2 new FANTOM papers
March 27, 2014QT:{{”
The atlas is used to compare regulatory programs between different cells at unprecedented depth, to identify disease-associated regulatory single nucleotide polymorphisms, and to classify
cell-type-specific and ubiquitous enhancers.
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A promoter-level mammalian expression atlas
http://www.nature.com/nature/journal/v507/n7493/full/nature13182.html
An atlas of active enhancers across human cell types and tissues http://www.nature.com/nature/journal/v507/n7493/full/nature12787.html
het/hom
March 24, 2014het/hom ratio = ~1.5
in the sequencing of many Asian individuals (Table 1)
http://www.nature.com/ng/journal/v43/n8/fig_tab/ng.872_T1.html
From
Extensive genomic and transcriptional diversity identified through massively parallel DNA and RNA sequencing of eighteen Korean individuals
Nature Genetics 43, 745-752 (2011) doi:10.1038/ng.872
age distribution of repeats
March 24, 2014From the following article:
Initial sequencing and analysis of the human genome
International Human Genome Sequencing Consortium
Nature 409, 860-921(15 February 2001)
doi:10.1038/35057062
Alu age distribution
http://www.nature.com/nature/journal/v409/n6822/fig_tab/409860a0_F18.html
number of transcription factor molecules per cell
March 6, 2014System-wide analyses have underestimated #protein abundances… Corrected protein conc. better correlated w/ #mRNA
https://peerj.com/articles/270
…once a non linear bias in mass spec. data is corrected, the concentration of the factor expressed at the median level is present at 70,000 molecules per cell. ….
Li, J, Bickel, P.J. and Biggin M.D. (2014) System Wide Analyses have Underestimated Protein Abundances and the Importance of Transcription in Mammals. PeerJ DOI10.7717/peerj.270
PARADIGM-SHIFT predicts the function of mutations in multiple cancers using pathway impact analysis
March 3, 2014PARADIGM-SHIFT predicts… function of mutations in… #cancers using pathway[s]. #Network-based gene prioritization
http://bioinformatics.oxfordjournals.org/content/28/18/i640
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