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Series GSE76359 Query DataSets for GSE76359
Status Public on Feb 08, 2016
Title Deciphering the importance of the palindromic architecture of the immunoglobulin heavy chain 3’ regulatory region.
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary The IgH 3’ regulatory region (3’RR) controls class switch recombination (CSR) and somatic hypermutation (SHM) in B cells. The mouse 3’RR contains four enhancer elements with hs1,2 flanked by inverted repeated sequences and the center of a 25-kb palindrome bounded by two hs3 enhancer inverted copies (hs3a and hs3b). hs4 lies downstream of the palindrome. Evolution maintained in mammals this unique palindromic arrangement suggesting that it is functionally significant. We report that deconstructing the palindromic IgH 3’RR strongly impacts its function even when enhancers are preserved. CSR and IgH transcription appear poorly dependent from the 3’RR architecture and are more or less preserved provided 3’RR enhancers are present. By contrast, an “architectural effect” significantly lowers VH germline transcription, AID recruitment and SHM. In conclusion, this work indicates that the IgH 3’RR does not simply pile up enhancer units but also optimally expose them into a functional architecture of crucial importance.
Overall design RNAseq analysis of B-cell splenocytes with (S=stimulated) or without (R=resting) LPS activation from wt, delta2leftPAL, and deltaIRIS mice.
Citation(s) 26883548
Submission date Dec 28, 2015
Last update date Jul 26, 2019
Contact name Kevin Lebrigand
Organization name IPMC/CNRS
Lab Functional Genomics Platform of Nice-Sophia-Antipolis, France.
Street address 660 route des lucioles
City Valbonne - Sophia-Antipolis
ZIP/Postal code 06560
Country France
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (4)
GSM1982106 DEL-R
GSM1982107 DEL-S
GSM1982108 IRIS-R
BioProject PRJNA307097
SRA SRP067834

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Supplementary file Size Download File type/resource
GSE76359_RAW.tar 802.3 Mb (http)(custom) TAR (of BW)
GSE76359_featurecounts_table.txt.gz 2.5 Mb (ftp)(http) TXT
GSE76359_kallisto_estcounts_table.txt.gz 2.8 Mb (ftp)(http) TXT
GSE76359_kallisto_tpm_table.txt.gz 2.9 Mb (ftp)(http) TXT
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Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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