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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
978
total RNA-seq
907
ChIP-seq
260
ATAC-seq
178
DNase-seq
152
single cell RNA-seq
24
pCHi-C
17
snATAC-seq
16
Hi-C
16
small RNA-seq
11
WGBS
4
FAIRE-seq
4
MeRIP-seq
3
RNA microarray
3
snDrop-seq
2
RRBS
Assay category
1146
Transcription
907
DNA binding
459
DNA accessibility
16
3D chromatin structure
13
DNA methylation
Target of assay
628
histone modification
627
histone
324
narrow histone mark
303
broad histone mark
187
control
94
transcription factor
28
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
456
February, 2021
279
August, 2017
242
October, 2019
193
May, 2020
172
August, 2021
163
June, 2019
120
July, 2018
115
May, 2019
91
February, 2023
82
November, 2017
80
April, 2019
74
October, 2018
63
July, 2019
59
May, 2022
48
December, 2017
47
September, 2023
40
May, 2021
40
May, 2024
40
November, 2019
39
March, 2020
25
February, 2020
23
October, 2017
20
November, 2018
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
1907
bam
1772
bigWig
1075
tsv
984
bed narrowPeak
561
bigBed narrowPeak
377
fastq
238
tagAlign
213
bed broadPeak
205
bed bed3+
176
bigBed broadPeak
txt
64
xls
25
bed bedMethyl
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2567
Homo sapiens
Biosample type
2575
tissue
1078
primary cell
660
cell line
391
in vitro differentiated cells
10
stem cell
Organ
545
connective tissue
493
pancreas
486
adipose tissue
360
liver
306
heart
264
brain
236
kidney
132
blood vessel
132
vasculature
121
limb
78
musculature of body
73
artery
70
bone element
56
eye
43
nerve
23
spleen
lung
18
ureter
15
epithelium
12
skeleton
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
1
stomach
1
urinary bladder
Project
2497
AMP
47
KPMP
31
T1D
Genome assembly (visualization)
1843
GRCh38
1745
hg19
Lab
2305
AMP-T2D consortium
85
Katalin Susztak, Upenn
47
KPMP
46
Kyle Gaulton, UCSD
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
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:
27
inconsistent control
7
inconsistent ontology term
3
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
files.file_type!
txt
bigBed bedMethyl
organ_slims!
lung
BIOSAMPLE
ASSAY
2575 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
pCHi-C
snATAC-seq
Hi-C
small RNA-seq
WGBS
FAIRE-seq
MeRIP-seq
RNA microarray
snDrop-seq
RRBS
tissue
islet of Langerhans
292
71
68
1
4
7
3
1
4
adipose tissue
382
2
3
1
1
liver
167
145
20
2
1
1
1
1
3
kidney
27
75
13
51
6
1
1
heart left ventricle
3
35
2
3
18
1
1
2
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