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GEO accession:
Series GSE40540
Query DataSets for GSE40540
Status
Public on Sep 12, 2012
Title
IP of 5-hydroxymethylcytosine (5-hmC) and 5-methylcytosine (5-mC) enriched DNA fragments from control and PB treated mouse livers
Organism
Mus musculus
Experiment type
Methylation profiling by genome tiling array
Expression profiling by array
Genome binding/occupancy profiling by high throughput sequencing
Summary
This SuperSeries is composed of the SubSeries listed below.
Overall design
Refer to individual Series
Contributor(s)
Thomson JP
,
Meehan RR
,
Lempiäinen H
,
Hackett J
,
Moggs JG
,
Müller A
Citation(s)
23598998
,
23034186
,
25985418
Submission date
Aug 31, 2012
Last update date
Jun 10, 2019
Contact name
John Paterson Thomson
E-mail(s)
john.thomson@igmm.ed.ac.uk
Organization name
University of Edinburgh
Department
MRC Human Genetics Unit
Lab
Meehan
Street address
Crewe Road
City
Edinburgh
ZIP/Postal code
EH4 2XU
Country
United Kingdom
Platforms (6)
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GPL1261
[Mouse430_2] Affymetrix Mouse Genome 430 2.0 Array
GPL11002
Illumina Genome Analyzer IIx (Mus musculus)
GPL13112
Illumina HiSeq 2000 (Mus musculus)
GPL14890
NimbleGen Mouse 2.1M deluxe promoter array [100205_MM9_Promoter_MeDIP_HX1]
GPL16143
NimbleGen Mouse 2.1M deluxe promoter array (ver. 2)
GPL16144
NimbleGen Mouse 2.1M deluxe promoter array (ver. 3)
Samples (153)
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GSM995945
control mouse 1 liver 5hmC profile (28 d)
GSM995946
control mouse 2 liver 5hmC profile (28 d)
GSM995947
control mouse 3 liver 5hmC profile (28 d)
GSM995948
control mouse 4 liver 5hmC profile (28 d)
GSM995949
control mouse 5 liver 5hmC profile (28 d)
GSM995950
pb treated mouse 1 liver 5hmC profile (28 d)
GSM995951
pb treated mouse 2 liver 5hmC profile (28 d)
GSM995952
pb treated mouse 3 liver 5hmC profile (28 d)
GSM995953
pb treated mouse 4 liver 5hmC profile (28 d)
GSM995954
pb treated mouse 5 liver 5hmC profile (28 d)
GSM995955
control mouse 1 liver 5mC profile (28 d)
GSM995956
control mouse 2 liver 5mC profile (28 d)
GSM995957
control mouse 3 liver 5mC profile (28 d)
GSM995958
control mouse 4 liver 5mC profile (28 d)
GSM995959
control mouse 5 liver 5mC profile (28 d)
GSM995960
pb treated mouse 1 liver 5mC profile (28 d)
GSM995961
pb treated mouse 2 liver 5mC profile (28 d)
GSM995962
pb treated mouse 3 liver 5mC profile (28 d)
GSM995963
pb treated mouse 4 liver 5mC profile (28 d)
GSM995964
pb treated mouse 5 liver 5mC profile (28 d)
GSM1001158
control rep1
GSM1001159
control rep2
GSM1001160
control rep3
GSM1001161
control rep4
GSM1001162
control rep5
GSM1001163
pb rep1
GSM1001164
pb rep2
GSM1001165
pb rep3
GSM1001166
pb rep4
GSM1001167
pb rep5
GSM1016353
control mouse 1 liver 5hmC profile (7d)
GSM1016354
control mouse 2 liver 5hmC profile (7d)
GSM1016355
control mouse 3 liver 5hmC profile (7d)
GSM1016356
control mouse 4 liver 5hmC profile (7d)
GSM1016357
control mouse 5 liver 5hmC profile (7d)
GSM1016358
pb treated mouse 1 liver 5hmC profile (7d)
GSM1016359
pb treated mouse 2 liver 5hmC profile (7d)
GSM1016360
pb treated mouse 3 liver 5hmC profile (7d)
GSM1016361
pb treated mouse 4 liver 5hmC profile (7d)
GSM1016362
pb treated mouse 5 liver 5hmC profile (7d)
GSM1016363
control mouse 1 liver 5mC profile (7d)
GSM1016364
control mouse 2 liver 5mC profile (7d)
GSM1016365
control mouse 3 liver 5mC profile (7d)
GSM1016366
control mouse 4 liver 5mC profile (7d)
GSM1016367
control mouse 5 liver 5mC profile (7d)
GSM1016368
pb treated mouse 1 liver 5mC profile (7d)
GSM1016369
pb treated mouse 2 liver 5mC profile (7d)
GSM1016370
pb treated mouse 3 liver 5mC profile (7d)
GSM1016371
pb treated mouse 4 liver 5mC profile (7d)
GSM1016372
pb treated mouse 5 liver 5mC profile (7d)
GSM1016379
control mouse 1 liver 5hmC profile (1d)
GSM1016380
control mouse 2 liver 5hmC profile (1d)
GSM1016381
control mouse 3 liver 5hmC profile (1d)
GSM1016382
control mouse 4 liver 5hmC profile (1d)
GSM1016383
control mouse 5 liver 5hmC profile (1d)
GSM1016384
pb treated mouse 1 liver 5hmC profile (1d)
GSM1016385
pb treated mouse 2 liver 5hmC profile (1d)
GSM1016386
pb treated mouse 3 liver 5hmC profile (1d)
GSM1016387
pb treated mouse 4 liver 5hmC profile (1d)
GSM1016388
pb treated mouse 5 liver 5hmC profile (1d)
GSM1016389
control mouse 1 liver 5mC profile (1d)
GSM1016390
control mouse 2 liver 5mC profile (1d)
GSM1016391
control mouse 3 liver 5mC profile (1d)
GSM1016392
control mouse 4 liver 5mC profile (1d)
GSM1016393
control mouse 5 liver 5mC profile (1d)
GSM1016394
pb treated mouse 1 liver 5mC profile (1d)
GSM1016395
pb treated mouse 2 liver 5mC profile (1d)
GSM1016396
pb treated mouse 3 liver 5mC profile (1d)
GSM1016397
pb treated mouse 4 liver 5mC profile (1d)
GSM1016398
pb treated mouse 5 liver 5mC profile (1d)
GSM1016399
control mouse 1 liver 5hmC profile (91d)
GSM1016400
control mouse 2 liver 5hmC profile (91d)
GSM1016401
control mouse 3 liver 5hmC profile (91d)
GSM1016402
control mouse 4 liver 5hmC profile (91d)
GSM1016403
control mouse 5 liver 5hmC profile (91d)
GSM1016404
pb treated mouse 1 liver 5hmC profile (91d)
GSM1016405
pb treated mouse 2 liver 5hmC profile (91d)
GSM1016406
pb treated mouse 3 liver 5hmC profile (91d)
GSM1016407
pb treated mouse 4 liver 5hmC profile (91d)
GSM1016408
pb treated mouse 5 liver 5hmC profile (91d)
GSM1016409
control mouse 1 liver 5mC profile (91d)
GSM1016410
control mouse 2 liver 5mC profile (91d)
GSM1016411
control mouse 3 liver 5mC profile (91d)
GSM1016412
control mouse 4 liver 5mC profile (91d)
GSM1016413
control mouse 5 liver 5mC profile (91d)
GSM1016414
pb treated mouse 1 liver 5mC profile (91d)
GSM1016415
pb treated mouse 2 liver 5mC profile (91d)
GSM1016416
pb treated mouse 3 liver 5mC profile (91d)
GSM1016417
pb treated mouse 4 liver 5mC profile (91d)
GSM1016418
pb treated mouse 5 liver 5mC profile (91d)
GSM1016419
A H3K36me3 vehicle donor1024
GSM1016420
A H3K36me3 phenobarbital donor2021
GSM1016421
A H3K36me3 phenobarbital donor2024
GSM1016422
A INPUT vehicle donor1021
GSM1016423
A INPUT vehicle donor1024
GSM1016424
A INPUT phenobarbital donor2021
GSM1016425
A INPUT phenobarbital donor2024
GSM1016426
A H3K36me3 vehicle donor1021
GSM1016427
B INPUT vehicle donor1
GSM1016428
B INPUT vehicle donor7
GSM1016429
B INPUT phenobarbital donor11
GSM1016430
B INPUT phenobarbital donor15
GSM1016431
B H3K4me2 vehicle donor1
GSM1016432
B H3K4me2 vehicle donor7
GSM1016433
B H3K4me2 phenobarbital donor11
GSM1016434
B H3K4me2 phenobarbital donor15
GSM1016435
C INPUT vehicle donor5
GSM1016436
C INPUT vehicle donor10
GSM1016437
C INPUT phenobarbital donor14
GSM1016438
C INPUT phenobarbital donor17
GSM1016439
C H3K27me3 vehicle donor5
GSM1016440
C H3K27me3 vehicle donor10
GSM1016441
C H3K27me3 phenobarbital donor14
GSM1016442
C H3K27me3 phenobarbital donor17
GSM1104784
NUID-0000-0100-9069
GSM1104785
NUID-0000-0100-9090
GSM1104786
NUID-0000-0100-9101
GSM1104787
NUID-0000-0100-9112
GSM1104788
NUID-0000-0100-9097
GSM1104789
NUID-0000-0100-9098
GSM1104790
NUID-0000-0100-9099
GSM1104791
NUID-0000-0100-9100
GSM1104792
NUID-0000-0100-9102
GSM1104793
NUID-0000-0100-9071
GSM1104794
NUID-0000-0100-9072
GSM1104795
NUID-0000-0100-9073
GSM1104796
NUID-0000-0100-9074
GSM1104797
NUID-0000-0100-9075
GSM1104798
NUID-0000-0100-9108
GSM1104799
NUID-0000-0100-9109
GSM1104800
NUID-0000-0100-9110
GSM1104801
NUID-0000-0100-9111
GSM1104802
NUID-0000-0100-9113
GSM1104803
NUID-0000-0100-9081
GSM1104804
NUID-0000-0102-2344
GSM1104805
NUID-0000-0100-9083
GSM1104806
NUID-0000-0100-9084
GSM1104807
NUID-0000-0100-9085
GSM1104808
NUID-0000-0100-9119
GSM1104809
NUID-0000-0100-9120
GSM1104810
NUID-0000-0100-9121
GSM1104811
NUID-0000-0100-9122
GSM1104812
NUID-0000-0100-9124
GSM1104813
NUID-0000-0100-9092
GSM1104814
NUID-0000-0100-9093
GSM1104815
NUID-0000-0100-9094
GSM1104816
NUID-0000-0100-9095
GSM1104817
NUID-0000-0100-9096
GSM1104818
NUID-0000-0100-9130
GSM1104819
NUID-0000-0100-9131
GSM1104820
NUID-0000-0100-9132
GSM1104821
NUID-0000-0100-9133
GSM1104822
NUID-0000-0100-9135
This SuperSeries is composed of the following SubSeries:
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More...
GSE40537
IP of 5-hydroxymethylcytosine (5-hmC) enriched DNA fragments from control and PB treated mouse livers (28 day)
GSE40538
IP of 5-methylcytosine (5-mC) enriched DNA fragments from control and PB treated mouse livers (28 day)
GSE40773
Dynamic changes in liver 5-hydroxymethylcytosine profiles upon non-genotoxic carcinogen exposure
GSE41392
IP of 5-methylcytosine (5-hmC) enriched DNA fragments from control and PB treated mouse livers (7 day)
GSE41393
IP of 5-methylcytosine (5-mC) enriched DNA fragments from control and PB treated mouse livers (7 day)
GSE41395
IP of 5-methylcytosine (5-hmC) enriched DNA fragments from control and PB treated mouse livers (1 day)
GSE41396
IP of 5-methylcytosine (5-mC) enriched DNA fragments from control and PB treated mouse livers (1 day)
GSE41397
IP of 5-methylcytosine (5-hmC) enriched DNA fragments from control and PB treated mouse livers (91 day)
GSE41398
IP of 5-methylcytosine (5-mC) enriched DNA fragments from control and PB treated mouse livers (91 day)
GSE41399
Changes in histone modifications H3K4me2, H3k27me3 and H3K36me3 due to phenobarbital in mice
GSE45465
Dynamic changes in liver 5-hydroxymethylcytosine profiles upon non-genotoxic carcinogen exposure [Replicated control vs. pb treated study]
Relations
BioProject
PRJNA174858
Download family
Format
SOFT formatted family file(s)
SOFT
MINiML formatted family file(s)
MINiML
Series Matrix File(s)
TXT
Supplementary file
Size
Download
File type/resource
GSE40540_RAW.tar
7.0 Gb
(http)
(custom)
TAR (of BEDGRAPH, CEL, PAIR)
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