GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE34097 Query DataSets for GSE34097
Status Public on May 02, 2012
Title The SEC family of RNA Polymerase II elongation factors: gene target specificity and transcriptional output
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary The elongation stage of transcription is a highly regulated in metazoan. We previously purified the AFF1/AFF4-containing Super Elongation Complex (SEC) as a major regulator of development and cancer pathogenesis. Here, we report the biochemical isolation of SEC-like 2 (SEC-L2) and SEC-like 3 (SEC-L3) containing AFF2 and AFF3 in association with P-TEFb, ENL, and AF9. The SEC family members demonstrate high levels of Pol II CTD kinase activity, however, only SEC is required for the proper induction of the HSP70 gene upon stress. Genome-wide mRNA-seq analyses demonstrate that SEC-L2-3 control the expression of different subsets of genes, while AFF4/SEC plays a more dominant role in rapid gene expression in cells. MYC is one of the direct targets of AFF4/SEC, and the SEC requirement to the MYC gene regulates its expression in different cancer cells bearing either acute myeloid or lymphoid leukemia. These findings suggest that AFF4/SEC could be a potential therapeutic target for the treatment of leukemia or other cancers associated with MYC overexpression.
Overall design RNA-seq in human embyonic kidney 293T cells of wild-type and after RNAi of AFF2, AFF3, AFF4. ChIP-seq of AFF4 and Pol2 in human 293T cells.
Contributor(s) Garrett AS, Luo Z, Shilatifard A
Citation(s) 22547686
Submission date Dec 02, 2011
Last update date May 15, 2019
Contact name Alexander (Garrett) Garruss
Organization name Stowers Institute for Medical Research
Lab Shilatifard
Street address 1000 East 50th Street
City Kansas CIty
State/province Missouri
ZIP/Postal code 64110
Country USA
Platforms (1)
GPL10999 Illumina Genome Analyzer IIx (Homo sapiens)
Samples (13)
GSM841726 Non-targeting shRNA rep 1 RNA-seq
GSM841727 Non-targeting shRNA rep 2 RNA-seq
GSM841728 Non-targeting shRNA rep 3 RNA-seq
SRA SRP009568
BioProject PRJNA149901

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE34097_RAW.tar 19.9 Gb (http)(custom) TAR (of BAM, BED)
GSE34097_aff2_genes_cufflinks.txt.gz 785.3 Kb (ftp)(http) TXT
GSE34097_aff3_genes_cufflinks.txt.gz 787.7 Kb (ftp)(http) TXT
GSE34097_aff4_genes_cufflinks.txt.gz 787.0 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap