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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1014
total RNA-seq
516
ChIP-seq
256
ATAC-seq
179
single cell RNA-seq
151
DNase-seq
85
RNA microarray
28
snATAC-seq
27
WGBS
23
pCHi-C
16
Hi-C
12
small RNA-seq
10
RRBS
3
FAIRE-seq
3
snDrop-seq
2
MeRIP-seq
Assay category
1205
Transcription
516
DNA binding
438
DNA accessibility
37
DNA methylation
16
3D chromatin structure
Target of assay
440
histone modification
439
histone
232
broad histone mark
207
narrow histone mark
control
76
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
233
August, 2017
229
August, 2021
170
May, 2020
138
June, 2019
136
October, 2019
120
July, 2018
94
February, 2023
68
May, 2019
66
April, 2019
66
July, 2019
66
May, 2022
47
September, 2023
45
October, 2018
40
May, 2021
40
May, 2024
40
November, 2019
38
March, 2020
36
December, 2017
21
November, 2018
19
April, 2020
15
May, 2023
13
February, 2020
8
January, 2021
7
October, 2017
6
April, 2018
6
January, 2019
5
March, 2019
3
December, 2018
December, 2019
2
January, 2018
2
November, 2020
1
August, 2022
Available data
1548
bigWig
1516
bam
1051
tsv
791
bed narrowPeak
445
bigBed narrowPeak
278
fastq
177
bed broadPeak
161
bed bed3+
157
txt
149
bigBed broadPeak
87
tagAlign
64
xls
24
bed bedMethyl
24
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
4
bed bed3
1
bedpe
Organism
2317
Homo sapiens
Biosample type
2325
tissue
989
primary cell
566
cell line
349
in vitro differentiated cells
9
stem cell
Organ
511
connective tissue
466
pancreas
452
adipose tissue
315
liver
297
heart
290
kidney
brain
158
bone element
117
blood vessel
117
vasculature
105
limb
78
musculature of body
66
artery
56
eye
32
nerve
20
lung
18
ureter
17
spleen
16
skeleton
14
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
2228
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1631
GRCh38
1587
hg19
Lab
1975
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
2
Mark McCarthy, Oxford
2
Rohit N. Kulkarni, M.D., Ph.D.
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
88
inconsistent ontology term
27
inconsistent control
7
audit script error
Audit category:
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
audit.NOT_COMPLIANT.category!
missing controlled_by
month_released!
December, 2019
organ_slims!
brain
target.investigated_as!
control
BIOSAMPLE
ASSAY
2325 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
Hi-C
small RNA-seq
RRBS
FAIRE-seq
snDrop-seq
MeRIP-seq
tissue
islet of Langerhans
292
48
67
6
1
7
4
3
1
1
2
adipose tissue
382
1
3
3
1
liver
167
102
20
1
2
3
1
1
1
1
kidney
49
21
75
63
13
6
1
1
1
bone element
84
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