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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
583
ChIP-seq
195
ATAC-seq
180
single cell RNA-seq
178
DNase-seq
87
RNA microarray
28
snATAC-seq
27
WGBS
25
pCHi-C
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1227
Transcription
583
DNA binding
405
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
627
histone modification
626
histone
narrow histone mark
303
broad histone mark
187
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
234
August, 2017
166
May, 2020
165
August, 2021
163
June, 2019
120
July, 2018
112
October, 2019
95
February, 2023
82
May, 2019
77
July, 2019
66
May, 2022
63
October, 2018
57
April, 2019
54
November, 2017
47
September, 2023
46
December, 2017
40
May, 2021
40
November, 2019
38
March, 2020
26
November, 2018
25
February, 2020
25
May, 2024
21
October, 2017
19
April, 2020
15
May, 2023
8
January, 2021
7
December, 2018
6
April, 2018
6
September, 2017
5
January, 2019
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1664
bam
1504
bigWig
1076
tsv
718
bed narrowPeak
453
bigBed narrowPeak
349
fastq
199
bed bed3+
198
bed broadPeak
176
bigBed broadPeak
157
txt
128
tagAlign
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
Organism
2381
Homo sapiens
Biosample type
2388
tissue
973
primary cell
643
cell line
339
in vitro differentiated cells
9
stem cell
Organ
534
connective tissue
476
adipose tissue
473
pancreas
317
liver
275
heart
225
kidney
158
bone element
151
brain
115
blood vessel
115
vasculature
107
limb
73
musculature of body
67
artery
54
eye
35
nerve
23
spleen
20
lung
18
ureter
16
skeleton
15
epithelium
2
intestine
2
thymus
1
adrenal gland
1
esophagus
1
gonad
1
large intestine
1
ovary
1
pericardium
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2293
AMP
47
KPMP
29
T1D
19
LungMap
Genome assembly (visualization)
1544
GRCh38
1516
hg19
Lab
2115
AMP-T2D consortium
78
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
25
Patrick T. Ellinor, Broad
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:
89
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
22
missing controlled_by
Audit category:
3
inconsistent control read length
1
inconsistent assembly
files.file_type!
xls
organ_slims!
pituitary gland
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
2388 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
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
292
34
67
6
1
7
4
3
1
1
4
adipose tissue
382
1
3
3
1
liver
167
103
20
1
2
3
1
1
1
1
kidney
49
17
11
64
13
6
1
1
1
bone element
84
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