http://www.mhumbert.com/publications/oakland17.pdf
Identifying Personal DNA Methylation Profiles by Genotype Inference
Michael Backes⇤, Pascal Berrang⇤, Matthias Bieg†, Roland Eils†‡, Carl Herrmann†‡, Mathias Humbert⇤, Irina Lehmann§
Archive for the 'SciLit' Category
German activities on RNA privacy
October 21, 2017Re-Identification of Individuals in Genomic Data-Sharing Beacons via Allele Inference | bioRxiv
October 21, 2017https://www.biorxiv.org/content/early/2017/10/09/200147
higher order markov to predict snps
Discovering novel pharmacogenomic biomarkers by imputing drug response in cancer patients from large genomics studies
October 21, 2017Geeleher cites http://genome.CSHLP.org/content/early/2017/08/28/gr.221077.117?top=1 … Novel pharmacogenomic biomarkers by imputing drug response in cancer..from…genomics studies #ASHG17
http://genome.cshlp.org/content/early/2017/08/28/gr.221077.117?top=1
SiFit: inferring tumor trees from single-cell sequencing data under finite-sites models | Genome Biology | Full Text
October 21, 2017Multistep nucleation of nanocrystals in aqueous solution : Nature Chemistry : Nature Research
October 1, 2017Multistep nucleation of nanocrystals in…solution
http://www.Nature.com/nchem/journal/v9/n1/full/nchem.2618.html Creation of Au-Au pair, expelling water, drives cluster formation
QT:{{”
To explain how the gold-rich aqueous phase forms and breaks down in Figures 1A and 2A, we
performed ab-initio calculations of a hydrated gold atom pair (Figure 4). This hydrated atom pair
becomes ionized when brought closer together: the left gold atom plus two nearby water molecules
form a linear cationic coordination complex, [Au(H2O)2]+1, while the right gold atom becomes an
anion surrounded by a simple hydration shell. Other (square planar and linear) complexes involving
chloride and hydroxide ligands may also participate, depending on pH (26, 33) (Section SI2). For
nanoclusters to form inside the gold-rich aqueous phase, pairs of gold atoms within it must be partially
dehydrated. In our calculations (Figure 4), this dehydration is delayed by a 7.6 kcal/mol (12.9 kBT)
energy barrier required to breakdown the linear cationic complex (close to the gold anion).
“}}
Assembly-based inference of B-cell receptor repertoires from short read RNA sequencing data with V’DJer | Bioinformatics | Oxford Academic
September 30, 2017Assembly-based inference of Bcell receptor repertoires from..RNAseq w/
V’DJer https://academic.OUP.com/bioinformatics/article/32/24/3729/2525640/Assembly-based-inference-of-B-cell-receptor Less diversity assoc w/ long survival
Investigating the case of human nose shape and climate adaptation
September 25, 2017The case of human nose shape & climate adaptation
http://journals.PLoS.org/plosgenetics/article?id=10.1371/journal.pgen.1006616 Comparing its Qst-Fst statistic w/ that for height & skin color
QT:{{”
“To address the question of whether local adaptation to climate is responsible for nose shape divergence across populations, we use Qst–Fst comparisons to show that nares width and alar base width are more differentiated across populations than expected under genetic drift alone. To test whether this differentiation is due to climate adaptation, we compared the spatial distribution of these variables with the global distribution of temperature, absolute humidity, and relative humidity. We find that width of the nares is correlated with temperature and absolute humidity, but not with relative humidity. We conclude that some aspects of nose shape may indeed have been driven by local adaptation to climate. However, we think that this is a simplified explanation of a very complex evolutionary history, which possibly also involved other non-neutral forces such as sexual selection.”
“}}
Network propagation: a universal amplifier of genetic associations : Nature Reviews Genetics : Nature Research
September 11, 2017#Network propagation [by Markov walks, heat flow, diffusion, &c]: a universal amplifier of genetic associations
http://www.Nature.com/nrg/journal/v18/n9/abs/nrg.2017.38.html
Lenore Cowen,
Trey Ideker,
Benjamin J. Raphael
& Roded Sharan
http://www.nature.com/nrg/journal/v18/n9/abs/nrg.2017.38.html?foxtrotcallback=true
Protein Structural Memory Influences Ligand Binding Mode(s) and Unbinding Rates – Journal of Chemical Theory and Computation (ACS Publications)
September 4, 2017Structural Memory Influences Ligand-Binding Mode http://pubs.ACS.org/doi/abs/10.1021/acs.jctc.5b01052 Rearrangement of #solvation layer is ~100x slower than unbinding
J Chem Theory Comput. 2016 Mar 8;12(3):1393-9. doi:
10.1021/acs.jctc.5b01052. Epub 2016 Feb 3.
Xu M, Caflisch A, Hamm P.
linkstream2 microblog 