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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1029
total RNA-seq
905
ChIP-seq
246
ATAC-seq
177
DNase-seq
168
single cell RNA-seq
27
WGBS
22
pCHi-C
18
snATAC-seq
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
RNA microarray
3
snDrop-seq
Assay category
1213
Transcription
905
DNA binding
445
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
626
histone modification
625
histone
322
narrow histone mark
303
broad histone mark
187
control
94
transcription factor
28
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
461
February, 2021
284
August, 2017
240
October, 2019
229
August, 2021
193
May, 2020
162
June, 2019
120
July, 2018
115
May, 2019
95
February, 2023
82
November, 2017
80
April, 2019
77
July, 2019
74
October, 2018
66
May, 2022
48
December, 2017
47
September, 2023
40
May, 2021
40
May, 2024
39
November, 2019
37
March, 2020
26
November, 2018
24
February, 2020
23
October, 2017
May, 2023
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
4
November, 2020
3
December, 2019
3
March, 2019
2
January, 2018
1
August, 2022
Available data
1902
bam
1769
bigWig
1072
tsv
980
bed narrowPeak
560
bigBed narrowPeak
376
fastq
238
tagAlign
211
bed broadPeak
204
bed bed3+
175
bigBed broadPeak
73
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2641
Homo sapiens
Biosample type
2649
tissue
1034
primary cell
570
cell line
279
in vitro differentiated cells
9
stem cell
Organ
545
connective tissue
503
pancreas
486
adipose tissue
361
liver
313
heart
285
kidney
262
brain
133
blood vessel
133
vasculature
121
limb
81
musculature of body
74
bone element
73
artery
56
eye
43
nerve
25
spleen
lung
18
ureter
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
Project
2571
AMP
47
KPMP
31
T1D
Genome assembly (visualization)
1842
GRCh38
1749
hg19
Lab
2332
AMP-T2D consortium
128
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
audit.ERROR.category!
inconsistent ontology term
lab.title!
Mark McCarthy, Oxford
month_released!
May, 2023
organ_slims!
lung
BIOSAMPLE
ASSAY
2649 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
WGBS
pCHi-C
snATAC-seq
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
RNA microarray
snDrop-seq
tissue
islet of Langerhans
292
71
66
1
6
4
7
3
1
1
4
adipose tissue
381
2
3
3
1
liver
167
145
20
2
1
3
1
1
1
1
kidney
49
27
64
13
61
6
1
1
1
heart left ventricle
3
35
2
3
18
4
1
1
1
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