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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
980
total RNA-seq
794
ChIP-seq
173
DNase-seq
158
ATAC-seq
86
RNA microarray
68
single cell RNA-seq
25
WGBS
24
pCHi-C
22
snATAC-seq
16
small RNA-seq
13
Hi-C
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1064
Transcription
794
DNA binding
357
DNA accessibility
36
DNA methylation
13
3D chromatin structure
Target of assay
539
histone modification
538
histone
291
narrow histone mark
247
broad histone mark
171
control
86
transcription factor
20
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
284
August, 2017
August, 2021
216
October, 2019
193
May, 2020
160
June, 2019
120
July, 2018
82
November, 2017
80
April, 2019
74
October, 2018
70
July, 2019
66
May, 2022
65
May, 2019
60
February, 2023
48
December, 2017
47
September, 2023
40
May, 2021
40
November, 2019
37
March, 2020
26
November, 2018
23
October, 2017
22
February, 2020
19
April, 2020
15
May, 2023
8
January, 2021
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
1820
bam
1662
bigWig
969
tsv
780
bed narrowPeak
499
bigBed narrowPeak
377
fastq
238
tagAlign
208
bed broadPeak
200
bed bed3+
171
bigBed broadPeak
100
txt
24
bed bedMethyl
24
bigBed bedMethyl
9
hic
8
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2373
Homo sapiens
Biosample type
2381
tissue
1047
primary cell
552
cell line
352
in vitro differentiated cells
10
stem cell
Organ
546
connective tissue
503
pancreas
487
adipose tissue
361
liver
265
brain
181
heart
171
kidney
158
bone element
127
blood vessel
vasculature
122
limb
82
musculature of body
71
artery
56
eye
43
nerve
25
spleen
20
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
1
stomach
1
urinary bladder
Project
2284
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1684
hg19
1650
GRCh38
Lab
2199
AMP-T2D consortium
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
19
Xin Sun, UCSD
14
Katalin Susztak, Upenn
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Bing Ren, UCSD
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
91
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
month_released!
August, 2021
organ_slims!
vasculature
BIOSAMPLE
ASSAY
2381 results
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total RNA-seq
ChIP-seq
DNase-seq
ATAC-seq
RNA microarray
single cell RNA-seq
WGBS
pCHi-C
snATAC-seq
small RNA-seq
Hi-C
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
297
71
1
68
4
7
2
1
1
4
adipose tissue
382
2
3
3
1
liver
167
145
2
20
1
3
1
1
1
1
kidney
27
13
11
56
1
1
bone element
84
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