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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1251
total RNA-seq
752
ChIP-seq
358
ATAC-seq
333
single cell RNA-seq
87
RNA microarray
62
snATAC-seq
42
pCHi-C
33
WGBS
26
Hi-C
20
RRBS
18
small RNA-seq
4
MeRIP-seq
3
DNase-seq
3
snDrop-seq
1
DNAme array
Assay category
1602
Transcription
752
DNA binding
423
DNA accessibility
54
DNA methylation
26
3D chromatin structure
Target of assay
506
histone modification
505
histone
305
narrow histone mark
222
control
200
broad histone mark
29
transcription factor
8
RNA binding protein
2
nucleotide modification
Date released
593
February, 2021
340
May, 2020
302
August, 2017
246
May, 2021
233
August, 2021
216
October, 2019
May, 2022
183
February, 2023
168
July, 2018
104
July, 2019
59
September, 2018
59
September, 2020
49
April, 2018
47
September, 2023
41
March, 2020
40
May, 2024
40
November, 2019
31
October, 2018
28
November, 2017
25
February, 2020
23
May, 2019
19
April, 2020
17
October, 2017
16
April, 2019
16
January, 2021
15
May, 2023
12
December, 2017
10
November, 2018
9
November, 2020
8
December, 2019
8
June, 2019
7
August, 2020
6
September, 2017
5
March, 2019
4
December, 2018
3
August, 2018
3
June, 2018
3
October, 2022
2
January, 2018
1
August, 2022
1
January, 2019
1
March, 2023
Available data
2491
bam
2364
bigWig
1345
tsv
1241
bed narrowPeak
762
fastq
bigBed narrowPeak
338
tagAlign
262
bed broadPeak
241
bed bed3+
225
bigBed broadPeak
150
txt
64
xls
34
bed bedMethyl
34
bigBed bedMethyl
19
zippedFastqFolder
17
hic
14
bedpe bed3+
8
csv
6
bed bed3
4
hdf5
3
cool
1
bedpe
1
tagAlign bed3+
1
tar
Organism
2990
Homo sapiens
Biosample type
2149
tissue
844
primary cell
377
in vitro differentiated cells
307
cell line
10
stem cell
Organ
663
pancreas
561
connective tissue
480
adipose tissue
284
liver
280
epithelium
232
heart
232
kidney
159
bone element
159
brain
87
vasculature
85
blood vessel
55
eye
50
artery
47
musculature of body
38
limb
20
lung
17
nerve
16
skeleton
12
spleen
9
vein
8
blood
8
bodily fluid
5
gonad
5
ovary
2
intestine
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
spinal cord
1
stomach
1
urinary bladder
Project
2501
AMP
235
T1D
190
HPAP
47
KPMP
19
LungMap
1
ITG
Genome assembly (visualization)
1747
hg19
1734
GRCh38
Lab
2275
AMP-T2D consortium
267
Kyle Gaulton, UCSD
190
Klaus Kaestner, Upenn
142
Katalin Susztak, Upenn
47
KPMP
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:
121
inconsistent ontology term
39
audit script error
Audit category:
67
missing controlled_by
Audit category:
4
inconsistent control read length
files.file_type!
bigBed narrowPeak
month_released!
May, 2022
organ_slims!
pericardium
BIOSAMPLE
ASSAY
2993 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
RNA microarray
snATAC-seq
pCHi-C
WGBS
Hi-C
RRBS
small RNA-seq
MeRIP-seq
DNase-seq
snDrop-seq
DNAme array
tissue
islet of Langerhans
286
71
50
6
7
4
3
1
4
adipose tissue
382
1
2
1
3
liver
147
107
1
1
3
1
1
1
kidney
49
9
75
64
6
1
1
bone element
84
+ See 158 more…
primary cell
monocyte
54
85
15
1
1
pancreatic alpha cell
52
13
7
12
6
1
Langerhans cell
52
27
pancreatic beta cell
21
13
3
12
1
CD8-positive, alpha-beta T cell
4
33
2
1
+ See 88 more…
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