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| Status |
Public on Aug 31, 2017 |
| Title |
Genomic binding profiling upon expression of AbdA in S2 cells |
| Organism |
Drosophila melanogaster |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
We sought to determine the genomic binding profile of the Drosophila Hox protein AbdA in a homogenous cell system. S2-DRSC cells that have no Hox expression were stably transfected with HA-tagged AbdA under the control of a metallothionein promoter. Upon AbdA expression, we identified high enrichment of AbdA at a large number transcription start sites that colocalises with the GAGA and M1BP. Genes targeted by GAGA and M1BP contain paused RNA polymerase II and show enrichment of PcG proteins. Upon AbdA binding at M1BP-target sites, a significant reduction in PcG protein binding is observed with a concomitant reduction in RNA Pol II pausing. These data suggest that AbdA targets both GAGA- and M1BP-controlled genes, and at M1BP-controlled genes, AbdA binding is sufficient to release PcG-mediated RNA Pol II pausing to induce gene transcription.
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| Overall design |
S2-DRSC cells are stably transfected with HA-tagged AbdA (S2-DRSC:AbdA). S2 and S2-AbdA cells are analysed for genomic binding of HA-AbdA, Poised RNA Pol II (Rpb3), Elongating RNA Pol II (PolII_phosphoSer2), M1BP, GAGA factor, dRing, E(z), in the absence (S2-DRSC) and presence (S2-DRSC-HA::AbdA) of AbdA
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| Contributor(s) |
Zouaz A, Auradkar A, Delfini MC, Macchi M, Barthez M, Akoa SE, Bastianelli L, Levine SS, Graba Y, Saurin AJ |
| Citation(s) |
28871058, 32541927 |
| |
| Submission date |
Jul 18, 2017 |
| Last update date |
Jun 22, 2020 |
| Contact name |
Andrew J Saurin |
| E-mail(s) |
[email protected]
|
| Organization name |
IBDM / CNRS
|
| Street address |
Campus de Luminy
|
| City |
Marseille |
| ZIP/Postal code |
13009 |
| Country |
France |
| |
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| Platforms (2) |
| GPL13304 |
Illumina HiSeq 2000 (Drosophila melanogaster) |
| GPL21306 |
Illumina HiSeq 4000 (Drosophila melanogaster) |
|
| Samples (33)
|
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| This SubSeries is part of SuperSeries: |
| GSE101557 |
Expression of Hox transcription factors in Drosophila S2 cells |
|
| Relations |
| BioProject |
PRJNA394937 |
| SRA |
SRP113069 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE101554_S2-AbdA_Ez_ChIP.bigWig |
527.6 Mb |
(ftp)(http) |
BIGWIG |
| GSE101554_S2-AbdA_Ez_ChIP_peaks.bed.gz |
99.5 Kb |
(ftp)(http) |
BED |
| GSE101554_S2-AbdA_GAF_ChIP.bigWig |
261.0 Mb |
(ftp)(http) |
BIGWIG |
| GSE101554_S2-AbdA_GAF_ChIP_peaks.bed.gz |
151.3 Kb |
(ftp)(http) |
BED |
| GSE101554_S2-AbdA_HA_ChIP.bigWig |
408.0 Mb |
(ftp)(http) |
BIGWIG |
| GSE101554_S2-AbdA_HA_ChIP_peaks.bed.gz |
157.6 Kb |
(ftp)(http) |
BED |
| GSE101554_S2-AbdA_M1BP_ChIP.bigWig |
468.0 Mb |
(ftp)(http) |
BIGWIG |
| GSE101554_S2-AbdA_M1BP_ChIP_peaks.bed.gz |
104.2 Kb |
(ftp)(http) |
BED |
| GSE101554_S2-AbdA_Rpb3_ChIP.bigWig |
235.1 Mb |
(ftp)(http) |
BIGWIG |
| GSE101554_S2-AbdA_Rpb3_ChIP_peaks.bed.gz |
141.6 Kb |
(ftp)(http) |
BED |
| GSE101554_S2-AbdA_Ser2_ChIP.bigWig |
296.0 Mb |
(ftp)(http) |
BIGWIG |
| GSE101554_S2-AbdA_Ser2_ChIP_peaks.bed.gz |
102.9 Kb |
(ftp)(http) |
BED |
| GSE101554_S2-AbdA_dRing_ChIP.bigWig |
473.5 Mb |
(ftp)(http) |
BIGWIG |
| GSE101554_S2-AbdA_dRing_ChIP_peaks.bed.gz |
98.5 Kb |
(ftp)(http) |
BED |
| GSE101554_S2_Ez_ChIP.bigWig |
546.2 Mb |
(ftp)(http) |
BIGWIG |
| GSE101554_S2_Ez_ChIP_peaks.bed.gz |
99.4 Kb |
(ftp)(http) |
BED |
| GSE101554_S2_GAF_ChIP.bigWig |
394.8 Mb |
(ftp)(http) |
BIGWIG |
| GSE101554_S2_GAF_ChIP_peaks.bed.gz |
111.7 Kb |
(ftp)(http) |
BED |
| GSE101554_S2_HA_ChIP.bigWig |
444.2 Mb |
(ftp)(http) |
BIGWIG |
| GSE101554_S2_M1BP_ChIP.bigWig |
472.0 Mb |
(ftp)(http) |
BIGWIG |
| GSE101554_S2_M1BP_ChIP_peaks.bed.gz |
112.5 Kb |
(ftp)(http) |
BED |
| GSE101554_S2_Rpb3_ChIP.bigWig |
211.3 Mb |
(ftp)(http) |
BIGWIG |
| GSE101554_S2_Rpb3_ChIP_peaks.bed.gz |
150.0 Kb |
(ftp)(http) |
BED |
| GSE101554_S2_Ser2_ChIP.bigWig |
419.7 Mb |
(ftp)(http) |
BIGWIG |
| GSE101554_S2_Ser2_ChIP_peaks.bed.gz |
70.1 Kb |
(ftp)(http) |
BED |
| GSE101554_S2_dRing_ChIP.bigWig |
499.9 Mb |
(ftp)(http) |
BIGWIG |
| GSE101554_S2_dRing_ChIP_peaks.bed.gz |
73.6 Kb |
(ftp)(http) |
BED |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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