Bioinformatics (2015) 31 (1): 33-39. doi: 10.1093/bioinformatics/btu615
Making novel proteins from #pseudogenes
http://bioinformatics.oxfordjournals.org/content/31/1/33.short Outcomes in 16 cases where one gets stable & functional translated products
http://bioinformatics.oxfordjournals.org/content/31/1/33.short
Here is a link for some helpful information on the new NIH format for biosketches:
Tomasetti & Volgenstein
Science 2 January 2015:
Vol. 347 no. 6217 pp. 78-81
DOI: 10.1126/science.1260825
It’s a correlation between aggressiveness, mutations and cell division http://www.sciencemag.org/content/347/6217/78
The discovery of integrated gene networks for autism and related disorders
Fereydoun Hormozdiari
Osnat Penn
Elhanan Borenstein
Evan E. Eichler
Published in Advance November 5, 2014, doi:10.1101/gr.178855.114 Genome Res. 2015. 25: 142-154
QT:{{”
Motivated by this observation, we have developed a novel method that simultaneously integrates information from both PPI and coexpression networks to identify highly connected modules in both types of networks that are also enriched in mutations in cases and not in controls. We call this method MAGI, short for merging affected genes into integrated networks. MAGI is based on a combinatorial
optimization algorithm that aims to maximize the number of mutations in the modules while accounting for gene length and distribution of putative LoF and missense mutations in cases and controls. MAGI is generic and can be applied to any disease, given a list of de novo mutations in cases and relevant coexpression information. Using neurodevelopmental RNA-seq data from the BrainSpan Atlas
(http://www.brainspan.org/), we have applied it to exome sequence data generated from ASD, ID, epilepsy, and schizophrenia, providing a comprehensive comparison of common and specific gene modules for these diseases.
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On Amazon but reviews indicate that computer interface is a bit problematic
Seems to have a complex computer interface; not available from Amazon
works with iphone but doesn’t appear to available as of Dec-2014
http://www.myspiroo.com/
http://techcrunch.com/2014/04/04/my-spiroo-can-tell-your-doctor-when-youre-out-of-breath/
Human Genetics Shape the Gut #Microbiome
http://www.cell.com/abstract/S0092-8674%2814%2901241-0 A particular family of firmicutes is highly heritable & correlated w/ BMI
Goodrich, J.K., Waters, J.L., Poole, A.C., Sutter, J.L., Koren, O., Blekhman, R., Beaumont, M., Van Treuren, W., Knight, R., Bell, J.T., et al. (2014). Human Genetics Shape the Gut Microbiome. Cell 159, 789–799.
A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of #Chromatin Looping
http://www.cell.com/cell/abstract/S0092-8674(14)01497-4 HiC data for 9 celltypes
A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping
Suhas S.P. Rao
,Miriam H. Huntley
Neva C. Durand
Elena K. Stamenova
Ivan D. Bochkov
James T. Robinson
Adrian L. Sanborn
Ido Machol
Arina D. Omer
Eric S. Lander
Erez Lieberman Aiden
DOI: http://dx.doi.org/10.1016/j.cell.2014.11.021
http://www.cell.com/cell/abstract/S0092-8674(14)01497-4
Bioinformatics. Sep 15, 2013; 29(18): 2223–2230.
Published online Jul 9, 2013. doi: 10.1093/bioinformatics/btt375 PMCID: PMC3753564
A comparative analysis of algorithms for somatic SNV detection in cancer
linkstream2 microblog 