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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1024
total RNA-seq
895
ChIP-seq
249
ATAC-seq
169
DNase-seq
124
single cell RNA-seq
87
RNA microarray
24
pCHi-C
21
WGBS
16
Hi-C
16
small RNA-seq
11
RRBS
8
snATAC-seq
4
MeRIP-seq
3
FAIRE-seq
3
snDrop-seq
Assay category
1164
Transcription
895
DNA binding
429
DNA accessibility
32
DNA methylation
16
3D chromatin structure
Target of assay
626
histone modification
625
histone
322
narrow histone mark
303
broad histone mark
184
control
87
transcription factor
28
RNA binding protein
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
284
August, 2017
242
October, 2019
229
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
82
November, 2017
80
April, 2019
77
February, 2023
77
July, 2019
74
October, 2018
66
May, 2022
48
December, 2017
40
May, 2024
40
November, 2019
39
May, 2021
36
March, 2020
November, 2018
25
February, 2020
23
October, 2017
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
1879
bam
1747
bigWig
1076
tsv
965
bed narrowPeak
544
bigBed narrowPeak
351
fastq
238
tagAlign
204
bed broadPeak
196
bed bed3+
167
bigBed broadPeak
157
txt
64
xls
19
bed bedMethyl
19
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2646
Homo sapiens
Biosample type
2654
tissue
589
cell line
558
primary cell
394
in vitro differentiated cells
8
stem cell
Organ
546
connective tissue
487
adipose tissue
468
pancreas
354
liver
313
heart
263
brain
252
kidney
158
bone element
133
blood vessel
133
vasculature
122
limb
82
musculature of body
73
artery
56
eye
43
nerve
18
ureter
16
skeleton
16
spleen
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
2654
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1835
GRCh38
1736
hg19
Lab
2395
AMP-T2D consortium
142
Katalin Susztak, Upenn
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
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
27
inconsistent control
9
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
files.file_type!
vcf
month_released!
November, 2018
BIOSAMPLE
ASSAY
2654 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
pCHi-C
WGBS
Hi-C
small RNA-seq
RRBS
snATAC-seq
MeRIP-seq
FAIRE-seq
snDrop-seq
tissue
islet of Langerhans
285
69
57
1
6
4
3
1
1
4
1
adipose tissue
382
2
3
1
3
liver
167
141
20
1
1
3
1
1
1
kidney
49
27
75
13
17
1
1
6
1
bone element
84
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