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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
988
total RNA-seq
867
ChIP-seq
185
ATAC-seq
178
DNase-seq
163
single cell RNA-seq
87
RNA microarray
27
WGBS
25
pCHi-C
22
snATAC-seq
16
small RNA-seq
15
Hi-C
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1167
Transcription
867
DNA binding
389
DNA accessibility
27
DNA methylation
15
3D chromatin structure
Target of assay
593
histone modification
592
histone
309
narrow histone mark
283
broad histone mark
187
control
89
transcription factor
23
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
279
August, 2017
242
October, 2019
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
101
August, 2021
95
February, 2023
82
November, 2017
80
April, 2019
74
October, 2018
71
July, 2019
66
May, 2022
48
December, 2017
47
September, 2023
40
March, 2020
40
May, 2021
40
November, 2019
26
November, 2018
25
February, 2020
23
October, 2017
19
April, 2020
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
1
May, 2023
Available data
1907
bam
1732
bigWig
1076
tsv
880
bed narrowPeak
561
bigBed narrowPeak
374
fastq
238
tagAlign
213
bed broadPeak
205
bed bed3+
176
bigBed broadPeak
100
txt
16
bed bedMethyl
16
bigBed bedMethyl
10
bedpe bed3+
10
hic
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2575
Homo sapiens
Biosample type
2584
tissue
1078
primary cell
662
cell line
394
in vitro differentiated cells
10
stem cell
Organ
547
connective tissue
503
pancreas
488
adipose tissue
360
liver
272
heart
264
brain
158
bone element
156
kidney
133
blood vessel
133
vasculature
122
limb
78
musculature of body
73
artery
56
eye
43
nerve
25
spleen
20
lung
18
ureter
16
skeleton
15
epithelium
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
2487
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1745
hg19
1744
GRCh38
Lab
2414
AMP-T2D consortium
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
19
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
9
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
assay_title!
RRBS
lab.title!
Katalin Susztak, Upenn
BIOSAMPLE
ASSAY
2584 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
WGBS
pCHi-C
snATAC-seq
small RNA-seq
Hi-C
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
298
71
68
1
4
7
3
1
4
adipose tissue
382
2
3
3
1
liver
167
145
20
2
1
3
1
1
1
kidney
27
13
53
1
bone element
84
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