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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
907
ChIP-seq
260
ATAC-seq
180
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
25
pCHi-C
16
Hi-C
16
small RNA-seq
11
WGBS
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
2
DNase-seq
2
RRBS
Assay category
1227
Transcription
907
DNA binding
290
DNA accessibility
16
3D chromatin structure
13
DNA methylation
Target of assay
628
histone modification
627
histone
324
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
278
August, 2017
238
October, 2019
229
August, 2021
193
May, 2020
120
July, 2018
115
May, 2019
95
February, 2023
82
November, 2017
80
April, 2019
74
October, 2018
66
May, 2022
61
July, 2019
48
December, 2017
47
September, 2023
40
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
25
February, 2020
23
October, 2017
19
April, 2020
15
May, 2023
10
November, 2018
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
Available data
1903
bam
1768
bigWig
1076
tsv
980
bed narrowPeak
557
bigBed narrowPeak
375
fastq
238
tagAlign
213
bed broadPeak
205
bed bed3+
bigBed broadPeak
157
txt
64
xls
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2563
Homo sapiens
Biosample type
2572
tissue
1028
primary cell
602
cell line
393
in vitro differentiated cells
10
stem cell
Organ
543
connective tissue
491
pancreas
484
adipose tissue
357
liver
279
heart
236
brain
229
kidney
158
bone element
127
blood vessel
127
vasculature
85
limb
69
artery
53
eye
47
musculature of body
41
nerve
22
spleen
20
lung
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
2475
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1667
GRCh38
1582
hg19
Lab
2220
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
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
90
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!
FAIRE-seq
files.file_type!
bed bedMethyl
bigBed broadPeak
BIOSAMPLE
ASSAY
2572 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
RNA microarray
snATAC-seq
pCHi-C
Hi-C
small RNA-seq
WGBS
MeRIP-seq
snDrop-seq
DNase-seq
RRBS
tissue
islet of Langerhans
292
71
68
6
7
4
3
4
1
adipose tissue
382
2
3
1
1
liver
167
145
20
1
1
1
1
3
kidney
49
27
75
64
6
1
bone element
84
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