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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
860
total RNA-seq
710
ChIP-seq
228
ATAC-seq
174
DNase-seq
117
single cell RNA-seq
87
RNA microarray
23
WGBS
23
pCHi-C
15
Hi-C
13
small RNA-seq
10
RRBS
8
snATAC-seq
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
990
Transcription
710
DNA binding
414
DNA accessibility
33
DNA methylation
15
3D chromatin structure
Target of assay
521
histone
521
histone modification
263
narrow histone mark
258
broad histone mark
141
control
50
transcription factor
21
RNA binding protein
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
544
February, 2021
236
October, 2019
230
August, 2017
229
August, 2021
163
June, 2019
120
July, 2018
115
May, 2019
82
November, 2017
80
April, 2019
77
February, 2023
74
October, 2018
69
July, 2019
40
November, 2019
39
May, 2021
33
March, 2020
26
May, 2022
24
February, 2020
23
October, 2017
19
November, 2018
15
May, 2023
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1617
bam
1465
bigWig
922
tsv
829
bed narrowPeak
512
bigBed narrowPeak
294
fastq
210
bed broadPeak
199
bed bed3+
173
bigBed broadPeak
168
tagAlign
157
txt
64
xls
24
bed bedMethyl
24
bigBed bedMethyl
10
hic
9
bedpe bed3+
5
bed bed3
5
csv
1
bedpe
1
tagAlign bed3+
Organism
2271
Homo sapiens
Biosample type
2279
tissue
545
primary cell
379
in vitro differentiated cells
250
cell line
8
stem cell
Organ
547
connective tissue
488
adipose tissue
475
pancreas
liver
273
heart
265
brain
252
kidney
158
bone element
133
blood vessel
133
vasculature
122
limb
82
musculature of body
73
artery
56
eye
43
nerve
25
spleen
18
ureter
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lung
1
lymph node
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
2279
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1579
GRCh38
1485
hg19
Lab
2100
AMP-T2D consortium
142
Katalin Susztak, Upenn
25
Kyle Gaulton, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
91
inconsistent ontology term
9
audit script error
Audit category:
26
missing controlled_by
Audit category:
5
inconsistent control read length
1
inconsistent assembly
organ_slims!
liver
BIOSAMPLE
ASSAY
2279 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
WGBS
pCHi-C
Hi-C
small RNA-seq
RRBS
snATAC-seq
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
291
69
57
1
4
3
1
1
1
4
adipose tissue
382
2
3
3
1
kidney
49
27
75
13
17
1
1
6
1
bone element
84
heart left ventricle
3
35
2
3
18
4
1
1
1
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