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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1031
total RNA-seq
805
ChIP-seq
260
ATAC-seq
180
single cell RNA-seq
178
DNase-seq
87
RNA microarray
snATAC-seq
27
WGBS
25
pCHi-C
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1227
Transcription
805
DNA binding
442
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
620
histone modification
619
histone
320
narrow histone mark
299
broad histone mark
187
control
transcription factor
27
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
257
August, 2017
242
October, 2019
223
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
111
May, 2019
93
February, 2023
82
November, 2017
77
July, 2019
74
April, 2019
65
May, 2022
59
October, 2018
47
September, 2023
40
March, 2020
40
May, 2021
40
November, 2019
35
May, 2024
25
February, 2020
19
November, 2018
19
October, 2017
17
December, 2017
15
May, 2023
9
April, 2020
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
December, 2018
4
November, 2020
3
December, 2019
2
January, 2018
Available data
1811
bam
1672
bigWig
1076
tsv
905
bed narrowPeak
493
bigBed narrowPeak
290
fastq
234
tagAlign
211
bed broadPeak
187
bed bed3+
176
bigBed broadPeak
156
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2639
Homo sapiens
Biosample type
2647
tissue
978
primary cell
344
in vitro differentiated cells
300
cell line
10
stem cell
Organ
530
connective tissue
473
pancreas
471
adipose tissue
322
liver
301
heart
292
kidney
261
brain
158
bone element
130
blood vessel
130
vasculature
122
limb
81
musculature of body
72
artery
56
eye
43
nerve
19
spleen
18
ureter
16
skeleton
15
epithelium
10
lung
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
2570
AMP
47
KPMP
21
T1D
9
LungMap
Genome assembly (visualization)
1759
GRCh38
1659
hg19
Lab
2326
AMP-T2D consortium
136
Katalin Susztak, Upenn
47
KPMP
42
Kyle Gaulton, UCSD
40
Karen Mohlke, UNC
35
Patrick T. Ellinor, Broad
9
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:
91
inconsistent ontology term
7
audit script error
Audit category:
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
assay_title!
snATAC-seq
audit.NOT_COMPLIANT.category!
missing controlled_by
target.investigated_as!
transcription factor
BIOSAMPLE
ASSAY
2647 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
WGBS
pCHi-C
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
292
60
68
6
1
4
3
1
1
4
adipose tissue
382
2
3
3
1
liver
167
108
20
1
2
3
1
1
1
1
kidney
49
26
75
64
13
1
1
1
bone element
84
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