Posts Tagged ‘entex’

Characterizing the Major Structural Variant Alleles of the Human Genome: Cell

November 10, 2019

https://www.cell.com/cell/fulltext/S0092-8674(18)31633-7

DNA methylation age of human tissues and cell types | Genome Biology | Full Text

October 26, 2019

Published: 10 December 2013
DNA methylation age of human tissues and cell types
Steve Horvath
Genome Biology volume 14, Article number: 3156 (2013)

https://genomebiology.biomedcentral.com/articles/10.1186/gb-2013-14-10-r115

GWAS ATLAS resource

August 24, 2019

A global overview of pleiotropy and genetic architecture in complex traits

Kyoko Watanabe, Sven Stringer, Oleksandr Frei, Maša Umićević Mirkov, Christiaan de Leeuw, Tinca J. C. Polderman, Sophie van der Sluis, Ole A. Andreassen, Benjamin M. Neale & Danielle Posthuma

https://www.nature.com/articles/s41588-019-0481-0

Genome-wide analysis of polymerase III-transcribed Alu elements suggests cell-type-specific enhancer function.

August 18, 2019

https://genome.cshlp.org/content/early/2019/08/14/gr.249789.119.long

Single Cell Resource for Mouse

August 2, 2019

QT:{{”

Tabula Muris is a compendium of single cell transcriptome data from the model organism Mus musculus, containing nearly 100,000 cells from 20 organs and tissues. The data allow for direct and controlled comparison of gene expression in cell types shared between tissues, such as immune cells from distinct anatomical locations. They also allow for a comparison of two distinct technical approaches: “}}

https://tabula-muris.ds.czbiohub.org/

GTEx sex differential expression paper

September 5, 2018

https://www.nature.com/articles/nature24265
https://bmcbiol.biomedcentral.com/articles/10.1186/s12915-017-0352-z

+
TCGA sex differences
https://www.cell.com/cancer-cell/abstract/S1535-6108(16)30111-8

Leveraging molecular QTL to understand the genetic architecture of diseases and complex traits | bioRxiv

July 11, 2018

https://www.biorxiv.org/content/early/2017/10/15/203380

Leveraging molecular QTL to understand the genetic architecture of diseases and complex traits

Farhad Hormozdiari, Steven Gazal, Bryce van de Geijn, Hilary Finucane, Chelsea J.-T. Ju, Po-Ru Loh, Armin Schoech, Yakir Reshef, Xuanyao Liu, Luke O’Connor, Alexander Gusev, Eleazar Eskin, Alkes Price
doi: https://doi.org/10.1101/203380

differential Hi-C analysis

July 10, 2018

https://genome.cshlp.org/content/28/3/412.long

It is kind of a similar idea about finding the differential chromatin interactions

mammalian tissue expression database

June 1, 2018

curated tissue expression database for mammalians: human, mouse, rat, pig

web: https://tissues.jensenlab.org/
paper: https://academic.oup.com/database/article/doi/10.1093/database/bay003/4851151 a relevant figure:
https://academic.oup.com/view-large/figure/112879298/bay003f2.tif

systematic comparison of dnase-seq & atac-seq

April 21, 2018

Reproducible inference of TF footprints in #ATACseq & DNase-seq…via protocol-specific bias modeling
https://www.BiorXiv.org/content/early/2018/03/19/284364 Systematic comparison of the 2 assay HT @gamzeandgursoy