Chen 2013, A global change in RNA Polymerase II pausing during the Drosophila midblastula transition.

Description

Pol-II, TATA-Binding Protein (TBP), histone marks and nucleosomes (MNase) in several embryos stages.

Source

Raw data was downloaded from: GEO
Input file format: BED
Download date: 29-3-2017

Samples

From D. melanogaster (Apr 2006 BDGP R5/dm3).

ChIP-seq data:

	Filename	Description	Feature	GEO-ID
1	GSM1022889_06to08h_k27_1.sga	06to08h\|H3K27me3\|rep1	k27	GSM1022889
2	GSM1022905_preMBT_k4_1.sga	preMBT\|H3K4me3\|rep1	k4	GSM1022905
3	GSM1022906_preMBT_k4_2.sga	preMBT\|H3K4me3\|rep2	k4	GSM1022906
4	GSM1022907_preMBT_pol_1.sga	preMBT\|pol-II\|rep1	pol	GSM1022907
5	GSM1022908_preMBT_pol_2.sga	preMBT\|pol-II\|rep2	pol	GSM1022908
6	GSM1022909_preMBT_pol_3.sga	preMBT\|pol-II\|rep3	pol	GSM1022909
7	GSM1022910_preMBT_pol_4.sga	preMBT\|pol-II\|rep4	pol	GSM1022910
8	GSM1022911_preMBT_tbp_1.sga	preMBT\|TBP\|rep1	tbp	GSM1022911
9	GSM1022912_preMBT_tbp_2.sga	preMBT\|TBP\|rep2	tbp	GSM1022912
10	GSM1022890_MBT_h3ac_1.sga	MBT\|H3ac\|rep1	h3ac	GSM1022890
11	GSM1022891_MBT_h3ac_2.sga	MBT\|H3ac\|rep2	h3ac	GSM1022891
12	GSM1022892_MBT_k27_1.sga	MBT\|H3K27me3\|rep1	k27	GSM1022892
13	GSM1022893_MBT_k4_1.sga	MBT\|H3K4me3\|rep1	k4	GSM1022893
14	GSM1022894_MBT_k4_2.sga	MBT\|H3K4me3\|rep2	k4	GSM1022894
15	GSM1022895_MBT_pol_1.sga	MBT\|pol-II\|rep1	pol	GSM1022895
16	GSM1022896_MBT_pol_2.sga	MBT\|pol-II\|rep2	pol	GSM1022896
17	GSM1022897_MBT_pol_3.sga	MBT\|pol-II\|rep3	pol	GSM1022897
18	GSM1022898_MBT_tbp_1.sga	MBT\|TBP\|rep1	tbp	GSM1022898
19	GSM1022899_MBT_tbp_2.sga	MBT\|TBP\|rep2	tbp	GSM1022899
20	GSM1022901_postMBT_k27_1.sga	postMBT\|H3K27me3\|rep1	k27	GSM1022901
21	GSM1022902_postMBT_pol_1.sga	postMBT\|pol-II\|rep1	pol	GSM1022902
22	GSM1022903_postMBT_tbp_1.sga	postMBT\|TBP\|rep1	tbp	GSM1022903
23	GSM1022913_preMBT_wce_1.sga	preMBT\|Input\|rep1	wce	GSM1022913
24	GSM1022900_MBT_wce_1.sga	MBT\|Input\|rep1	wce	GSM1022900
25	GSM1022904_postMBT_wce_1.sga	postMBT\|Input\|rep1	wce	GSM1022904

DNase FAIRE data:

	Filename	Description	Feature	GEO-ID
1	GSM1022624_MBT_mnase_1.sga	MBT\|MNase\|rep1	mnase	GSM1022624

Technical Notes

BED files were downloaded from GEO and converted in SGA file format using ChIP-Seq.

References

Chen K, Johnston J, Shao W, Meier S, Staber C, Zeitlinger J
A global change in RNA polymerase II pausing during the Drosophila midblastula transition. Elife. 2013 Aug 13;2:e00861. doi: 10.7554/eLife.00861. 23951546
GEO series GSE41703: A global change in RNA Polymerase II pausing during the Drosophila midblastula transition

Last update: 1 Oct 2018