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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1011
total RNA-seq
879
ChIP-seq
240
ATAC-seq
180
single cell RNA-seq
177
DNase-seq
28
snATAC-seq
23
pCHi-C
16
small RNA-seq
15
Hi-C
11
WGBS
4
FAIRE-seq
4
MeRIP-seq
3
RNA microarray
3
snDrop-seq
2
RRBS
Assay category
1207
Transcription
879
DNA binding
449
DNA accessibility
15
3D chromatin structure
13
DNA methylation
Target of assay
618
histone modification
617
histone
318
narrow histone mark
299
broad histone mark
187
control
76
transcription factor
27
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
461
February, 2021
257
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
74
October, 2018
66
May, 2022
63
July, 2019
48
December, 2017
47
September, 2023
40
May, 2021
40
May, 2024
November, 2019
38
March, 2020
24
February, 2020
20
November, 2018
19
April, 2020
19
October, 2017
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
1840
bam
1725
bigWig
1054
tsv
957
bed narrowPeak
557
bigBed narrowPeak
351
fastq
234
tagAlign
210
bed broadPeak
190
bed bed3+
175
bigBed broadPeak
73
txt
64
xls
25
bed bedMethyl
bigBed bedMethyl
10
hic
9
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2587
Homo sapiens
Biosample type
2596
tissue
982
primary cell
556
cell line
273
in vitro differentiated cells
9
stem cell
Organ
532
connective tissue
473
adipose tissue
450
pancreas
360
liver
306
heart
298
kidney
257
brain
132
blood vessel
132
vasculature
120
limb
78
musculature of body
74
bone element
73
artery
56
eye
43
nerve
23
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
skin of body
1
small intestine
1
spinal cord
Project
2499
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1776
GRCh38
1678
hg19
Lab
2244
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
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
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
audit.ERROR.category!
inconsistent ontology term
audit.NOT_COMPLIANT.category!
missing controlled_by
files.file_type!
bigBed bedMethyl
month_released!
November, 2019
BIOSAMPLE
ASSAY
2596 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
snATAC-seq
pCHi-C
small RNA-seq
Hi-C
WGBS
FAIRE-seq
MeRIP-seq
RNA microarray
snDrop-seq
RRBS
tissue
islet of Langerhans
273
61
49
6
1
7
4
2
1
4
adipose tissue
382
2
3
1
1
liver
167
145
20
1
2
1
1
1
3
kidney
49
27
75
64
13
6
1
1
heart left ventricle
3
35
2
18
3
1
1
2
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