Posts Tagged ‘dw’

A survey of human brain transcriptome diversity at the single cell level

June 27, 2017

Brain #transcriptome diversity at the single cell level
http://www.PNAS.org/content/112/23/7285 Has useful gene-exp. profiles of specific neural cell types

has profiles for 185 biomarker genes for 6 cell types

R package: variancePartition

November 13, 2016

https://bioconductor.org/packages/release/bioc/html/variancePartition.html

new tool in psychencode meeting

Authorship solution

July 28, 2016

A solution to a perennial problem: Co-first “author ordering determined by coin flip” – eg
http://onlinelibrary.wiley.com/wol1/doi/10.1002/anie.201604431/full & https://arxiv.org/pdf/1412.6980v8.pdf

similar
https://arxiv.org/pdf/1412.6980v8.pdf
∗Equal contribution. Author ordering determined by coin flip over a Google Hangout.

Similarity network fusion for aggregating data types on a genomic scale : Nature Methods : Nature Publishing Group

February 9, 2016

Similarity #network fusion for aggregating data types
http://www.nature.com/nmeth/journal/v11/n3/full/nmeth.2810.html Combines mRNA, miRNA & gene fusions to classify cancer subtypes http://compbio.cs.toronto.edu/SNF/SNF

Single-cell ChIP-seq

October 23, 2015

#Singlecell ChIPseq reveals…subpopulations defined by chromatin statehttp://www.nature.com/nbt/journal/vaop/ncurrent/full/nbt.3383.html Sparse data: on order of 1K uniq. reads/cell

http://www.nature.com/nbt/journal/vaop/ncurrent/full/nbt.3383.html

Lessons from modENCODE

July 11, 2015

http://www.annualreviews.org/doi/abs/10.1146/annurev-genom-090413-025448

Publication delays at PLOS and 3,475 other journals

July 6, 2015

#Publication delays at PLOS & 3,475 other[s] by @dhimmel http://blog.dhimmel.com/plos-and-publishing-delays Perhaps journals should provide on-time stats as airlines do

Similarity network fusion for aggregating data types on a genomic scale : Nature Methods : Nature Publishing Group

June 1, 2015

Similarity #network fusion for aggregating data types http://www.nature.com/nmeth/journal/v11/n3/full/nmeth.2810.html Combines mRNA, miRNA & gene fusions to classify cancer subtypes
http://compbio.cs.toronto.edu/SNF/SNF

markov logic network from KDD 2014, might be good for netessay

August 31, 2014

[[DW: very large-scale models (vs. VLSI): markov logic network on customer networks, Innovation Award Talk by Pedro Domingos, KDD 2014 ]]

http://homes.cs.washington.edu/~pedrod/803

also, it has biological applications like:
Markov Logic Networks in the Analysis of Genetic Data
https://www.systemsbiology.org/markov-logic-networks-analysis-genetic-data

Dr Fenyo in NYU Proteomic talks

August 31, 2014

http://www.fenyolab.org/presentations/presentations.html
https://www.youtube.com/watch?v=wviPWfF5bdw