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GEO accession:
Series GSE115984
Query DataSets for GSE115984
Status
Public on Nov 07, 2018
Title
The non-canonical SMC protein SmcHD1 antagonises TAD formation on the inactive X chromosome
Organism
Mus musculus
Experiment type
Genome binding/occupancy profiling by high throughput sequencing
Other
Expression profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
Summary
This SuperSeries is composed of the SubSeries listed below.
Overall design
Refer to individual Series
Citation(s)
30604745
Submission date
Jun 19, 2018
Last update date
Mar 19, 2019
Contact name
Michal R. Gdula
E-mail(s)
michal.gdula@bioch.ox.ac.uk
Organization name
Oxford University
Street address
South Parks Road
City
Oxford
ZIP/Postal code
OX1 3RF
Country
United Kingdom
Platforms (3)
GPL13112
Illumina HiSeq 2000 (Mus musculus)
GPL21103
Illumina HiSeq 4000 (Mus musculus)
GPL21626
NextSeq 550 (Mus musculus)
Samples (108)
Less...
More...
GSM3040183
SmcHD1_wt_DC_rep1_ChIP_Lib_11A
GSM3040184
SmcHD1_mut_DC_rep1_ChIP_Lib_12A
GSM3040185
SmcHD1_wt_DC_rep2_ChIP_Lib_13A
GSM3040186
SmcHD1_mut_DC_rep2_ChIP_Lib_14A
GSM3040187
SmcHD1_wt_DC_rep3_ChIP_Lib_17A
GSM3040188
SmcHD1_mut_DC_rep3_ChIP_Lib_18A
GSM3040189
H3K27me3_wt_rep1_ChIP
GSM3040190
H3K27me3_wt_rep2_ChIP
GSM3040191
H3K27me3_mut_rep1_ChIP
GSM3040192
H3K27me3_mut_rep2_ChIP
GSM3040193
Rad21_wt_DC_rep1_ChIP_Lib_13B
GSM3040194
Rad21_mut_DC_rep1_ChIP_Lib_14B
GSM3040195
Rad21_wt_DC_rep2_ChIP_Lib_17B
GSM3040196
Rad21_mut_DC_rep2_ChIP_Lib_18B
GSM3040197
Rad21_CRISPRko_A3_DC_rep1_ChIP_Lib_15B
GSM3040198
Rad21_CRISPRko_D4_DC_rep1_ChIP_Lib_16B
GSM3040199
Rad21_CRISPRko_A3_DC_rep2_ChIP_Lib_19B
GSM3040200
Rad21_CRISPRko_D4_DC_rep2_ChIP_Lib_20B
GSM3040201
CTCF_wt_rep1_ChIP_Lib_1C
GSM3040202
CTCF_mut_rep1_ChIP_Lib_2C
GSM3040203
CTCF_wt_rep2_ChIP_Lib_3C
GSM3040204
CTCF_mut_rep2_ChIP_Lib_4C
GSM3040205
CTCF_CRISPRko_A3_rep1_ChIP_Lib_5C
GSM3040206
CTCF_CRISPRko_D4_rep1_ChIP_Lib_6C
GSM3040207
CTCF_wt_rep3_ChIP_Lib_7C
GSM3040208
CTCF_mut_rep3_ChIP_Lib_8C
GSM3040209
CTCF_CRISPRko_A3_rep2_ChIP_Lib_9C
GSM3040210
CTCF_CRISPRko_D4_rep2_ChIP_Lib_10C
GSM3040211
H3K27me3_wt_rep1_input
GSM3040212
H3K27me3_wt_rep2_input
GSM3040213
H3K27me3_mut_rep1_input
GSM3040214
H3K27me3_mut_rep2_input
GSM3040215
wt_DC_rep1_input_Lib_11D
GSM3040216
mut_DC_rep1_input_Lib_12D
GSM3040217
wt_DC_rep2_input_Lib_13D
GSM3040218
mut_DC_rep2_input_Lib_14D
GSM3040219
wt_DC_rep3_input_Lib_17D
GSM3040220
mut_DC_rep3_input_Lib_18D
GSM3040221
CRISPRko_A3_DC_rep1_input_Lib_15D
GSM3040222
CRISPRko_D4_DC_rep1_input_Lib_16D
GSM3040223
CRISPRko_A3_DC_rep2_input_Lib_19D
GSM3040224
CRISPRko_D4_DC_rep2_input_Lib_20D
GSM3040225
wt_rep1_input_Lib_1D
GSM3040226
mut_rep1_input_Lib_2D
GSM3040227
wt_rep2_input_Lib_3D
GSM3040228
mut_rep2_input_Lib_4D
GSM3040229
CRISPRko_A3_rep1_input_Lib_5D
GSM3040230
CRISPRko_D4_rep1_input_Lib_6D
GSM3040231
wt_rep3_input_Lib_7D
GSM3040232
mut_rep3_input_Lib_8D
GSM3040233
CRISPRko_A3_rep2_input_Lib_9D
GSM3040234
CRISPRko_D4_rep2_input_Lib_10D
GSM3204306
MEF WT rep1
GSM3204307
MEF MUT rep1
GSM3204308
MEF WT rep2
GSM3204309
MEF MUT rep2
GSM3425847
MEF WT new rep1
GSM3425848
MEF WT new rep2
GSM3425849
MEF MUT new rep1
GSM3425850
MEF MUT new rep2
GSM3425851
MEF CRISPR KO A3 rep1
GSM3425852
MEF CRISPR KO A3 rep2
GSM3425853
MEF CRISPR KO D4 rep1
GSM3425854
MEF CRISPR KO D4 rep2
GSM3427466
SmcHD1_wt_rep1
GSM3427467
SmcHD1_mut_rep1
GSM3427468
SmcHD1_wt_rep2
GSM3427469
SmcHD1_mut_rep2
GSM3427470
SmcHD1_wt_ctr_rep1
GSM3427471
SmcHD1_CRISPRko_rep1
GSM3427472
SmcHD1_wt_ctr_rep2
GSM3427473
SmcHD1_CRISPRko_rep2
GSM3427474
SmcHD1_wt_ctr_rep3
GSM3427475
SmcHD1_CRISPRko_rep3
GSM3453034
H3K27me3_wt_rep1_ChIP_Lib_K9B_rec
GSM3453035
H3K27me3_wt_rep1_input_Lib_K9E_rec
GSM3453036
H3K27me3_wt_rep2_ChIP_Lib_K11B_rec
GSM3453037
H3K27me3_wt_rep2_input_Lib_K11E_rec
GSM3453038
H3K27me3_wt_rep3_ChIP_Lib_K17B_rec
GSM3453039
H3K27me3_wt_rep3_input_Lib_K17E_rec
GSM3453040
H3K27me3_mut_rep1_ChIP_Lib_K10B_rec
GSM3453041
H3K27me3_mut_rep1_input_Lib_K10E_rec
GSM3453042
H3K27me3_mut_rep2_ChIP_Lib_K12B_rec
GSM3453043
H3K27me3_mut_rep2_input_Lib_K12E_rec
GSM3453044
H3K27me3_mut_rep3_ChIP_Lib_K18B_rec
GSM3453045
H3K27me3_mut_rep3_input_Lib_K18E_rec
GSM3453046
CTCF_wt_rep1_ChIP_Lib_C7B_rec
GSM3453047
CTCF_wt_rep1_input_Lib_C7E_rec
GSM3453048
CTCF_wt_rep2_ChIP_Lib_C9B_rec
GSM3453049
CTCF_wt_rep2_input_Lib_C9E_rec
GSM3453050
CTCF_wt_rep3_ChIP_Lib_C11B_rec
GSM3453051
CTCF_wt_rep3_input_Lib_C11E_rec
GSM3453052
CTCF_mut_rep1_ChIP_Lib_C8B_rec
GSM3453053
CTCF_mut_rep1_input_Lib_C8E_rec
GSM3453054
CTCF_mut_rep2_ChIP_Lib_C10B_rec
GSM3453055
CTCF_mut_rep2_input_Lib_C10E_rec
GSM3453056
CTCF_mut_rep3_ChIP_Lib_C12B_rec
GSM3453057
CTCF_mut_rep3_input_Lib_C12E_rec
GSM3454810
MEF WT
GSM3454811
MEF MUT
GSM3459737
MEF WT G1
GSM3459740
MEF WT S1
GSM3459741
MEF WT G2
GSM3459743
MEF WT S2
GSM3459744
MEF MUT G1
GSM3459746
MEF MUT S1
GSM3459747
MEF MUT G2
GSM3459749
MEF MUT S2
This SuperSeries is composed of the following SubSeries:
Less...
More...
GSE111820
SmcHD1,H3k27me3,CTCF and RAd21 ChIP-seq
GSE115983
Hi-C in wild-type and SmcHD1 MommeD1 MEFs, first set
GSE121087
Hi-C in wild-type, SmcHD1 MommeD1mut and somKO MEFs
GSE121184
chrRNA-seq in wild-type, SmcHD1 MommeD1mut and somKO MEFs
GSE122019
H3K27me3 and CTCF ChIP-seq in reciprocal wild-type and SmcHD1 MommeD1mut MEF cell lines
GSE122094
WGBS in wild-type and MommeD1mut MEFs
GSE122196
The non-canonical SMC protein SmcHD1 antagonises TAD formation on the inactive X chromosome (Repli-seq)
Relations
BioProject
PRJNA476698
Download family
Format
SOFT formatted family file(s)
SOFT
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Series Matrix File(s)
TXT
Supplementary file
Size
Download
File type/resource
GSE115984_RAW.tar
89.3 Gb
(http)
(custom)
TAR (of BED, BEDGRAPH, BW, TXT)
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