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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1031
total RNA-seq
910
ChIP-seq
259
ATAC-seq
180
single cell RNA-seq
178
DNase-seq
87
RNA microarray
29
pCHi-C
28
snATAC-seq
27
WGBS
16
Hi-C
16
small RNA-seq
RRBS
4
FAIRE-seq
4
MeRIP-seq
snDrop-seq
1
CRISPR RNA-seq
1
CRISPRi RNA-seq
1
GRO-seq
Assay category
1229
Transcription
910
DNA binding
469
DNA accessibility
27
DNA methylation
16
3D chromatin structure
Target of assay
630
histone modification
629
histone
325
narrow histone mark
304
broad histone mark
188
control
94
transcription factor
28
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
542
February, 2021
279
August, 2017
242
October, 2019
229
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
95
February, 2023
82
November, 2017
80
April, 2019
74
October, 2018
71
July, 2019
66
May, 2022
51
December, 2017
47
September, 2023
44
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
26
November, 2018
25
February, 2020
22
October, 2017
19
April, 2020
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
3
January, 2018
2
March, 2023
1
August, 2022
Available data
1910
bam
1774
bigWig
1077
tsv
986
bed narrowPeak
561
bigBed narrowPeak
377
fastq
238
tagAlign
212
bed broadPeak
208
bed bed3+
176
bigBed broadPeak
157
txt
64
xls
16
bed bedMethyl
16
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2761
Homo sapiens
Biosample type
2762
tissue
1078
primary cell
662
cell line
394
in vitro differentiated cells
10
stem cell
Organ
548
connective tissue
502
pancreas
488
adipose tissue
360
liver
312
heart
295
kidney
264
brain
158
bone element
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
2673
AMP
47
KPMP
31
T1D
19
LungMap
2
community
Genome assembly (visualization)
1861
GRCh38
1748
hg19
1
hg18
Lab
2419
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
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
Stephen Parker, UMich
Audit category:
92
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
26
missing controlled_by
Audit category:
8
inconsistent control read length
1
inconsistent assembly
assay_title!
RRBS
snDrop-seq
lab.title!
Stephen Parker, UMich
BIOSAMPLE
ASSAY
2772 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
pCHi-C
snATAC-seq
WGBS
Hi-C
small RNA-seq
FAIRE-seq
MeRIP-seq
CRISPR RNA-seq
CRISPRi RNA-seq
GRO-seq
tissue
islet of Langerhans
292
71
67
6
1
4
7
3
1
4
adipose tissue
382
2
3
1
3
liver
167
145
20
1
2
1
3
1
1
kidney
49
27
75
64
13
6
1
1
bone element
84
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stem cell
hESC
3
1
SB Ad3.1
1
1
mesenchymal stem cell
1
mesendoderm
1
neural progenitor cell (neural stem cell)
1
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