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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
951
total RNA-seq
867
ChIP-seq
178
DNase-seq
131
ATAC-seq
102
single cell RNA-seq
27
WGBS
24
pCHi-C
16
small RNA-seq
13
Hi-C
11
RRBS
4
FAIRE-seq
3
RNA microarray
3
snDrop-seq
1
snATAC-seq
Assay category
1069
Transcription
867
DNA binding
314
DNA accessibility
38
DNA methylation
13
3D chromatin structure
Target of assay
593
histone modification
592
histone
309
narrow histone mark
283
broad histone mark
185
control
89
transcription factor
23
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
Date released
456
February, 2021
284
August, 2017
242
October, 2019
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
99
August, 2021
82
November, 2017
80
April, 2019
77
July, 2019
74
October, 2018
73
February, 2023
48
December, 2017
40
March, 2020
40
November, 2019
38
May, 2021
26
November, 2018
25
February, 2020
22
October, 2017
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
3
December, 2019
2
January, 2018
1
August, 2022
1
May, 2022
1
May, 2023
Available data
1882
bam
1711
bigWig
1075
tsv
842
bed narrowPeak
561
bigBed narrowPeak
351
fastq
238
tagAlign
211
bed broadPeak
205
bed bed3+
176
bigBed broadPeak
txt
25
bed bedMethyl
25
bigBed bedMethyl
9
bedpe bed3+
9
hic
6
csv
5
bed bed3
1
tagAlign bed3+
Organism
2323
Homo sapiens
Biosample type
2331
tissue
614
cell line
524
primary cell
340
in vitro differentiated cells
8
stem cell
Organ
547
connective tissue
488
adipose tissue
442
pancreas
321
liver
273
heart
265
brain
133
blood vessel
133
vasculature
122
limb
105
kidney
81
musculature of body
73
artery
70
bone element
56
eye
43
nerve
25
spleen
18
ureter
15
epithelium
12
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lung
1
lymph node
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
2327
AMP
4
T1D
Genome assembly (visualization)
1741
GRCh38
1711
hg19
Lab
2331
AMP-T2D consortium
85
Katalin Susztak, Upenn
47
KPMP
46
Kyle Gaulton, UCSD
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:
27
inconsistent control
7
inconsistent ontology term
3
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
files.file_type!
txt
BIOSAMPLE
ASSAY
2331 results
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total RNA-seq
ChIP-seq
DNase-seq
ATAC-seq
single cell RNA-seq
WGBS
pCHi-C
small RNA-seq
Hi-C
RRBS
FAIRE-seq
RNA microarray
snDrop-seq
snATAC-seq
tissue
islet of Langerhans
286
71
1
34
4
1
1
1
1
adipose tissue
382
2
3
3
1
liver
147
145
2
1
3
1
1
1
1
heart left ventricle
3
35
3
2
18
4
1
1
1
bone tissue
58
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