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GSE72420

GSE GEO
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The Ro60 Autoantigen Binds Endogenous Retroelements and Regulates Inflammatory Gene Expression

Organism: Homo sapiens
Platform: GPL9052
Samples: 135
Experiment Types:
Expression profiling by high throughput sequencing
Submitted: Aug 26 2015
Last Updated: May 15 2019
Status: Public on Sep 16 2015
Contact: Tiffany,,hung (Genentech)

Relations

SuperSeries of: GSE72500 SuperSeries of: GSE72501 SuperSeries of: GSE72502 SuperSeries of: GSE72509 BioProject: https://www.ncbi.nlm.nih.gov/bioproject/PRJNA294172

Summary

This SuperSeries is composed of the SubSeries listed below.

Overall Design

Refer to individual Series

Analysis (3 steps)

View Data Processing
Processing steps for GSE72420
  1. Illumina software used for basecalling.
  2. Reads were mapped to human genome build hg19 using STAR (https://code.google.com/p/rna-star/) with the "outFilterMultimapNmax 20" option, then PCR duplicates were removed using unique nmers in the barcode sequence.
  3. Peak calling was performed using pyicoclip (http://regulatorygenomics.upf.edu/Software/Pyicoteo/pyicoclip.html) using RefSeq genes as the region file.

Supplementary Files (1)

GSE72420_RAW.tar Download
GEO Samples (135)
GSM1863313 GSM1863314 GSM1863315 GSM1863316 GSM1863317 GSM1863318 GSM1863319 GSM1863320 GSM1863321 GSM1863322 GSM1863323 GSM1863324 GSM1863325 GSM1863326 GSM1863327 GSM1863328 GSM1863329 GSM1863330 GSM1863633 GSM1863634 GSM1863635 GSM1863636 GSM1863637 GSM1863638 GSM1863639 GSM1863640 GSM1863641 GSM1863642 GSM1863643 GSM1863644 GSM1863645 GSM1863646 GSM1863647 GSM1863648 GSM1863649 GSM1863650 GSM1863651 GSM1863652 GSM1863653 GSM1863654 GSM1863655 GSM1863656 GSM1863657 GSM1863658 GSM1863659 GSM1863660 GSM1863661 GSM1863662 GSM1863663 GSM1863664 GSM1863665 GSM1863666 GSM1863667 GSM1863668 GSM1863669 GSM1863670 GSM1863671 GSM1863672 GSM1863673 GSM1863674 GSM1863675 GSM1863676 GSM1863677 GSM1863678 GSM1863679 GSM1863680 GSM1863681 GSM1863682 GSM1863683 GSM1863684 GSM1863685 GSM1863686 GSM1863687 GSM1863688 GSM1863689 GSM1863690 GSM1863691 GSM1863692 GSM1863693 GSM1863694 GSM1863695 GSM1863696 GSM1863697 GSM1863698 GSM1863699 GSM1863700 GSM1863701 GSM1863702 GSM1863703 GSM1863704 GSM1863705 GSM1863706 GSM1863707 GSM1863708 GSM1863709 GSM1863710 GSM1863711 GSM1863712 GSM1863713 GSM1863714 GSM1863715 GSM1863716 GSM1863717 GSM1863718 GSM1863719 GSM1863720 GSM1863721 GSM1863722 GSM1863723 GSM1863724 GSM1863725 GSM1863726 GSM1863727 GSM1863728 GSM1863729 GSM1863730 GSM1863731 GSM1863732 GSM1863733 GSM1863734 GSM1863735 GSM1863736 GSM1863737 GSM1863738 GSM1863739 GSM1863740 GSM1863741 GSM1863742 GSM1863743 GSM1863744 GSM1863745 GSM1863746 GSM1863747 GSM1863748 GSM1863749

Dataset Citations (1)

The Ro60 autoantigen binds endogenous retroelements and regulates inflammatory gene expression.
PMID 26382853 · 2015 · Science (New York, N.Y.)
T Hung, G A Pratt, B Sundararaman, M J Townsend, C Chaivorapol, T Bhangale, R R Graham, W Ortmann, L A Criswell, G W Yeo, T W Behrens

Linked Publications (1)

The Ro60 autoantigen binds endogenous retroelements and regulates inflammatory gene expression.
Science (New York, N.Y.) · 2015