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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
948
total RNA-seq
731
ChIP-seq
258
ATAC-seq
176
DNase-seq
174
single cell RNA-seq
87
RNA microarray
snATAC-seq
25
pCHi-C
18
WGBS
16
Hi-C
16
small RNA-seq
6
RRBS
4
MeRIP-seq
3
FAIRE-seq
3
snDrop-seq
Assay category
1138
Transcription
731
DNA binding
437
DNA accessibility
24
DNA methylation
16
3D chromatin structure
Target of assay
504
histone
504
histone modification
274
narrow histone mark
230
broad histone mark
158
control
71
transcription factor
26
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
August, 2017
242
October, 2019
223
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
93
February, 2023
82
November, 2017
80
April, 2019
77
July, 2019
74
October, 2018
65
May, 2022
48
December, 2017
47
September, 2023
40
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
26
November, 2018
25
February, 2020
23
October, 2017
15
May, 2023
9
April, 2020
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
Available data
1737
bam
1594
bigWig
987
tsv
918
bed narrowPeak
539
bigBed narrowPeak
202
fastq
187
bed broadPeak
179
tagAlign
178
bed bed3+
176
bigBed broadPeak
156
txt
64
xls
20
bed bedMethyl
20
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2464
Homo sapiens
Biosample type
2465
tissue
973
primary cell
662
cell line
319
in vitro differentiated cells
10
stem cell
Organ
490
connective tissue
431
adipose tissue
347
pancreas
313
heart
307
liver
293
kidney
265
brain
158
bone element
133
blood vessel
133
vasculature
122
limb
73
artery
56
eye
55
musculature of body
43
nerve
25
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
2388
AMP
47
KPMP
21
T1D
9
LungMap
Genome assembly (visualization)
1701
GRCh38
1574
hg19
Lab
2139
AMP-T2D consortium
136
Katalin Susztak, Upenn
47
KPMP
42
Kyle Gaulton, UCSD
40
Karen Mohlke, UNC
40
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
27
inconsistent control
7
audit script error
Audit category:
4
missing controlled_by
Audit category:
1
inconsistent control read length
lab.title!
Struan F.A. Grant, CHOP
assay_title!
snATAC-seq
month_released!
August, 2017
BIOSAMPLE
ASSAY
2465 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
MeRIP-seq
FAIRE-seq
snDrop-seq
tissue
adipose tissue
382
3
1
islet of Langerhans
209
29
68
4
3
1
4
liver
167
97
20
2
1
1
1
1
kidney
49
27
75
13
64
1
1
1
bone element
84
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