EQTL.UCHICAGO.EDU

eQTL resources from the Gilad/Pritchard group

EQTL resources from the Gilad/Pritchard group. Resources regarding gene regulation from the Pritchard lab. Download data from our paper on understanding cell type-specific effects of DNA variation and on characterizing the suitability of induced pluripotent stem cells (iPSCs) as models for studies of complex disease. Download data from our paper on understanding the links between variation in the major steps of gene regulation and complex traits. Histone modification and Pol2 data. Download files to mask...

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eQTL resources from the Gilad/Pritchard group | eqtl.uchicago.edu Reviews

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EQTL resources from the Gilad/Pritchard group. Resources regarding gene regulation from the Pritchard lab. Download data from our paper on understanding cell type-specific effects of DNA variation and on characterizing the suitability of induced pluripotent stem cells (iPSCs) as models for studies of complex disease. Download data from our paper on understanding the links between variation in the major steps of gene regulation and complex traits. Histone modification and Pol2 data. Download files to mask...

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2 ipscs

3 rna splicing

4 mnase seq data

5 dnase seq data

6 qtl browser

7 rna seq data

8 rna seq software

9 methylation data

10 genome masking files

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eQTL resources from the Gilad/Pritchard group | eqtl.uchicago.edu Reviews

https://eqtl.uchicago.edu

EQTL resources from the Gilad/Pritchard group. Resources regarding gene regulation from the Pritchard lab. Download data from our paper on understanding cell type-specific effects of DNA variation and on characterizing the suitability of induced pluripotent stem cells (iPSCs) as models for studies of complex disease. Download data from our paper on understanding the links between variation in the major steps of gene regulation and complex traits. Histone modification and Pol2 data. Download files to mask...

INTERNAL PAGES

eqtl.uchicago.edu

1

eQTL Browser Documentation

http://eqtl.uchicago.edu/help.html

The eQTL browser was updated on 22 April 2010. The results shown on the individual tracks may be downloaded using the "Download GFF File" function in the Reports and Analysis tab. When downloading the GFF files in a given browser window please take note that all the tracks that are displayed in that window will be downloaded. We recommend turning off certain tracks, for example, the Entrez gene track, when downloading eQTL results. Schadt et. al (2008). Myers et al. (2007). Stranger et al. (2007). Jean-B...

2

Welcome to eqtl.uchicago.edu!

http://eqtl.uchicago.edu/cgi-bin/gbrowse/eqtl

Welcome to eqtl.uchicago.edu! Search using a sequence name, gene name, locus, or other landmark. The wildcard character * is allowed. To center on a location, click the ruler. Use the Scroll/Zoom buttons to change magnification and position. To return to the homepage, and for documentation click here. Welcome to eqtl.uchicago.edu! Degner, Pai, Pique-Regi et al. (2012): -log10(P), LCLs, 70 Nigerian HAPMAP ids, DNase sensitivity QTLs (dsQTLs) by DNase-seq. Gaffney et al. (2012): Posterior probability c...

3

Data for "Controls of Nucleosome Positioning in the Human Genome"

http://eqtl.uchicago.edu/nucleosomes/mnase_seq.html

Data for "Controls of Nucleosome Positioning in the Human Genome". This webpage provides data for our paper on nucleosome positioning:. Gaffney DJ, McVicker G, Pai AA, Fondufe-Mittendorf YN, Lewellen N, Michelini K, Widom J, Gilad Y, Pritchard JK. "Controls of Nucleosome Positioning in the Human Genome". PLOS Genet 2012 Nov;8(11):e1003036. [ Full. Sequencing reads can be downloaded from GEO (accession GSE36979). Or from SRA (project SRP012024). Summary of the sequenced lanes and individuals.

4

Index of /RNA_Seq_data

http://eqtl.uchicago.edu/RNA_Seq_data

Index of /RNA Seq data. Ensembl 4 30.gz. List lanes pickrell 2010 nature. List lanes pickrell 2010 plosgenetics. Apache/2.2.2 (Fedora) Server at eqtl.uchicago.edu Port 80.

5

Index of /dsQTL_data

http://eqtl.uchicago.edu/dsQTL_data

Index of /dsQTL data. Apache/2.2.2 (Fedora) Server at eqtl.uchicago.edu Port 80.

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epigen.kcl.ac.uk

Jordana Bell Lab

http://epigen.kcl.ac.uk/software.html

Welcome back to Tian for a 3-month undergraduate research project. Congratulations to Leonie on passing her PhD viva! Farewell to Pei-Chien who is starting a research group in Taiwan. Farewell to Abhishek who is going back to clinical work. Welcome to Caroline who is pursuing a postdoc on human microbiome research. Email: jordana.bell { at } kcl.ac.uk. Performs a two-dimensional non-parametric linkage analysis using the two-locus MLS ( Bell et al. 2006.

jkplab.org

Software/Data | pickrell lab

https://jkplab.org/softwaredata

STATISTICAL AND POPULATION GENOMICS @NYGC. Is a tool for analyzing two genome-wide association studies with the goal of identifying genetic variants associated with the two traits. The code is available here. And the model is described in Pickrell et al. (2015) Detection and interpretation of shared genetic influences on 40 human traits. Approximately independent LD blocks. Is a command line tool for integrating functional genomic data into genome-wide association studies. The code is available here.

jkplab.org

Publications | pickrell lab

https://jkplab.org/publications

STATISTICAL AND POPULATION GENOMICS @NYGC. 8211; denotes equal contribution. Names of Pickrell lab members are bolded. Erlich Y, Pickrell JK. Case-control association mapping without cases. Submitted. Segurel L, Tung JY, Hinds D. Detection and interpretation of shared genetic influences on 42 human traits. Nature Genetics. 2016 May 16. [ preprint. Social Science Genetic Association Consortium. Genome-wide association study identifies 74 loci associated with educational attainment. Nature. Approximately i...

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eqtl.org

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eqtl.uchicago.edu

eQTL resources from the Gilad/Pritchard group

EQTL resources from the Gilad/Pritchard group. Resources regarding gene regulation from the Pritchard lab. Download data from our paper on understanding cell type-specific effects of DNA variation and on characterizing the suitability of induced pluripotent stem cells (iPSCs) as models for studies of complex disease. Download data from our paper on understanding the links between variation in the major steps of gene regulation and complex traits. Histone modification and Pol2 data. Download files to mask...

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