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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1197
total RNA-seq
1144
ChIP-seq
346
ATAC-seq
251
single cell RNA-seq
129
DNase-seq
85
RNA microarray
57
snATAC-seq
42
pCHi-C
33
WGBS
25
Hi-C
17
RRBS
17
small RNA-seq
4
FAIRE-seq
4
MeRIP-seq
1
DNAme array
Assay category
1465
Transcription
1144
DNA binding
536
DNA accessibility
51
DNA methylation
25
3D chromatin structure
Target of assay
835
histone modification
834
histone
424
narrow histone mark
410
broad histone mark
213
control
101
transcription factor
35
RNA binding protein
3
chromatin remodeller
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
585
February, 2021
343
August, 2017
340
May, 2020
261
October, 2019
246
May, 2021
183
February, 2023
168
July, 2018
137
June, 2019
115
May, 2019
105
August, 2021
97
July, 2019
91
November, 2017
76
October, 2018
73
September, 2018
66
May, 2022
57
April, 2019
49
April, 2018
48
December, 2017
41
March, 2020
40
May, 2024
40
November, 2019
40
September, 2020
27
November, 2018
February, 2020
23
October, 2017
19
April, 2020
16
January, 2021
11
September, 2017
10
November, 2020
7
August, 2020
7
December, 2018
7
January, 2019
5
December, 2019
5
March, 2019
3
August, 2018
3
June, 2018
3
October, 2022
2
January, 2018
1
August, 2022
1
March, 2023
1
May, 2023
Available data
2387
bam
2266
bigWig
1303
tsv
1104
bed narrowPeak
786
fastq
567
bigBed narrowPeak
338
tagAlign
184
bed broadPeak
164
bed bed3+
zippedFastqFolder
147
bigBed broadPeak
95
txt
31
bed bedMethyl
31
bigBed bedMethyl
16
hic
14
bedpe bed3+
6
bed bed3
4
hdf5
3
cool
3
csv
1
bedpe
1
tagAlign bed3+
1
tar
Organism
3343
Homo sapiens
Biosample type
2453
tissue
899
primary cell
643
cell line
394
in vitro differentiated cells
10
stem cell
Organ
770
pancreas
584
connective tissue
488
adipose tissue
374
liver
341
epithelium
kidney
323
heart
274
brain
167
vasculature
161
blood vessel
159
bone element
119
limb
94
musculature of body
73
artery
60
eye
42
nerve
25
spleen
22
vein
20
lung
18
ureter
16
skeleton
8
blood
8
bodily fluid
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
skin of body
1
small intestine
1
stomach
1
urinary bladder
Project
2926
AMP
235
T1D
171
HPAP
19
LungMap
1
ITG
Genome assembly (visualization)
2266
hg19
2202
GRCh38
Lab
2778
AMP-T2D consortium
291
Kyle Gaulton, UCSD
171
Klaus Kaestner, Upenn
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
19
Xin Sun, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
ITG
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
136
inconsistent ontology term
33
audit script error
27
inconsistent control
Audit category:
70
missing controlled_by
Audit category:
11
inconsistent control read length
3
inconsistent assembly
1
inconsistent control run_type
files.file_type!
zippedFastqFolder
month_released!
February, 2020
organ_slims!
kidney
BIOSAMPLE
ASSAY
3352 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
snATAC-seq
pCHi-C
WGBS
Hi-C
RRBS
small RNA-seq
FAIRE-seq
MeRIP-seq
DNAme array
tissue
islet of Langerhans
292
71
68
6
1
7
4
3
1
1
4
adipose tissue
382
2
3
1
3
liver
167
145
20
1
2
1
3
1
1
1
bone element
84
heart left ventricle
3
35
2
18
3
1
4
1
1
+ See 157 more…
primary cell
monocyte
54
85
15
1
1
pancreatic alpha cell
52
13
13
12
6
1
Langerhans cell
33
27
pancreatic beta cell
21
13
10
12
1
CD8-positive, alpha-beta T cell
4
33
2
1
+ See 86 more…
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