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E-GEOD-41272 - Genome-wide analysis of miRNA-mRNA interactions in the marrow microenvironment (HTS)

Status
Released on 1 September 2013, last updated on 26 September 2013
Organism
Homo sapiens
Samples (16)
Protocols (3)
Description
We report genome-wide analysis of miRNA-mRNA interactions in the hematopoietic marrow microenvironment (ME) by employing the biochemical technique. High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation or HITS-CLIP. Specifically, we analyzed 3 kinds of stromal cells (two human stromal cell lines named HS5 and HS27a and primary mesenchymal stromal cells (MSC) from normal donors) and two types of endothelial cells (TrBMEC, a human bone marrow endothelial cell line) and HUVEC (Human Umbilical Vein Endothelial Cells). Immune precipitation (IP) of Argonaut proteins (AGO1-4) was performed by anti-AGO monoclonal antibody 2A8. IP was performed on cells cross-linked by short-wave ultraviolet radiation (UV) 365 nM. Protocol was modified from as originally published by Chi et al Nature. 2009 Jul 23;460(7254):479-86.
Experiment type
other 
Contacts
Manoj Pillai <manoj.pillai@ucdenver.edu>, Jay R Hesselberth, Joseph Brown, Manoj M Pillai
MINSEQE
Exp. designProtocolsVariablesProcessedSeq. reads
Files
Investigation descriptionE-GEOD-41272.idf.txt
Sample and data relationshipE-GEOD-41272.sdrf.txt
Processed data (1)E-GEOD-41272.processed.1.zip
Additional data (1)E-GEOD-41272.additional.1.zip
Links