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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1030
total RNA-seq
894
ChIP-seq
259
ATAC-seq
180
single cell RNA-seq
178
DNase-seq
86
RNA microarray
27
WGBS
27
snATAC-seq
25
pCHi-C
16
small RNA-seq
14
Hi-C
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1226
Transcription
894
DNA binding
468
DNA accessibility
38
DNA methylation
14
3D chromatin structure
Target of assay
616
histone modification
615
histone
319
narrow histone mark
296
broad histone mark
186
control
94
transcription factor
28
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
272
August, 2017
242
October, 2019
226
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
95
February, 2023
82
November, 2017
80
April, 2019
77
July, 2019
73
October, 2018
66
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
18
April, 2020
15
May, 2023
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
4
November, 2020
3
December, 2019
3
March, 2019
2
January, 2018
1
August, 2022
Available data
1894
bam
1760
bigWig
1075
tsv
972
bed narrowPeak
549
bigBed narrowPeak
364
fastq
231
tagAlign
207
bed broadPeak
205
bed bed3+
176
bigBed broadPeak
157
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
10
hic
9
bedpe bed3+
6
csv
5
bed bed3
1
tagAlign bed3+
Organism
2758
Homo sapiens
Biosample type
2758
tissue
1083
primary cell
597
cell line
377
in vitro differentiated cells
6
stem cell
Organ
546
connective tissue
489
pancreas
487
adipose tissue
360
liver
313
heart
299
kidney
265
brain
158
bone element
133
blood vessel
133
vasculature
122
limb
82
musculature of body
73
artery
56
eye
43
nerve
25
spleen
19
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
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2662
AMP
47
KPMP
31
T1D
18
LungMap
Genome assembly (visualization)
1846
GRCh38
1741
hg19
Lab
2411
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
18
Xin Sun, UCSD
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:
inconsistent control read length
audit.WARNING.category!
inconsistent control read length
lab.title!
Bing Ren, UCSD
organ_slims!
mammary gland
BIOSAMPLE
ASSAY
2758 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
WGBS
snATAC-seq
pCHi-C
small RNA-seq
Hi-C
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
291
71
67
6
1
7
4
1
1
1
4
adipose tissue
382
2
3
3
1
liver
167
144
20
1
2
3
1
1
1
1
kidney
49
27
75
64
13
6
1
1
1
bone element
84
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