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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
737
ChIP-seq
130
total RNA-seq
single cell RNA-seq
31
ATAC-seq
11
DNase-seq
11
WGBS
4
RRBS
2
FAIRE-seq
1
GRO-seq
1
Hi-C
Assay category
737
DNA binding
130
Transcription
44
DNA accessibility
15
DNA methylation
1
3D chromatin structure
Target of assay
421
transcription factor
165
histone modification
164
histone
146
control
87
broad histone mark
83
RNA binding protein
82
recombinant protein
77
narrow histone mark
33
chromatin remodeller
5
other context
5
other post-translational modification
Date released
324
November, 2017
233
August, 2017
87
November, 2018
72
September, 2018
60
October, 2018
51
December, 2017
35
December, 2018
30
January, 2019
16
October, 2017
11
September, 2017
6
April, 2018
2
July, 2018
1
January, 2018
Available data
2796
bam
2510
bigWig
1415
bed narrowPeak
1154
tsv
1025
bigBed narrowPeak
928
fastq
319
bed broadPeak
284
bigBed broadPeak
274
tagAlign
246
bed bed3+
90
txt
36
bed bedMethyl
36
bigBed bedMethyl
12
hic
11
bedpe bed3+
7
bed bed3
5
hdf5
4
tar
1
tagAlign bed3+
Organism
921
Homo sapiens
Biosample type
427
cell line
351
tissue
146
primary cell
in vitro differentiated cells
4
stem cell
Organ
450
liver
307
pancreas
103
epithelium
60
blood
60
bodily fluid
43
adipose tissue
43
connective tissue
24
spleen
21
brain
6
vasculature
3
blood vessel
2
musculature of body
Project
928
AMP
Genome assembly (visualization)
779
hg19
730
GRCh38
1
hg18
Lab
928
AMP-T2D consortium
135
Klaus Kaestner, Upenn
24
Kyle Gaulton, UCSD
1
Mark McCarthy, Oxford
1
Stephen Parker, UMich
Audit category:
28
inconsistent control
Audit category:
83
missing controlled_by
Audit category:
39
inconsistent control read length
9
inconsistent control run_type
3
inconsistent assembly
biosample_type!
in vitro differentiated cells
assay_title!
single cell RNA-seq
BIOSAMPLE
ASSAY
928 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
RRBS
FAIRE-seq
GRO-seq
Hi-C
cell line
HepG2
360
5
1
1
GM12878
60
tissue
islet of Langerhans
28
97
1
1
liver
67
2
1
1
body of pancreas
33
4
2
2
spleen
20
1
1
2
pancreas
16
2
1
+ See 8 more…
primary cell
pancreatic beta cell
13
10
7
pancreatic alpha cell
13
10
6
pancreatic endocrine cell
23
pancreatic ductal cell
13
4
4
pancreatic acinar cell
8
4
5
+ See 4 more…
stem cell
hESC
3
1
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