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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
624
ChIP-seq
141
total RNA-seq
68
single cell RNA-seq
29
ATAC-seq
27
snATAC-seq
11
DNase-seq
11
WGBS
4
RRBS
2
FAIRE-seq
1
GRO-seq
1
Hi-C
Assay category
624
DNA binding
209
Transcription
69
DNA accessibility
15
DNA methylation
1
3D chromatin structure
Target of assay
368
transcription factor
127
histone modification
126
control
126
histone
82
recombinant protein
71
RNA binding protein
71
broad histone mark
55
narrow histone mark
23
chromatin remodeller
5
other context
5
other post-translational modification
Date released
318
November, 2017
204
August, 2017
73
November, 2018
58
October, 2018
51
December, 2017
39
February, 2021
39
February, 2023
24
May, 2022
22
September, 2020
17
July, 2018
17
October, 2017
15
April, 2018
12
January, 2019
12
September, 2018
8
December, 2018
6
September, 2017
2
June, 2018
1
January, 2018
1
March, 2019
Available data
2748
bam
2574
bigWig
1498
bed narrowPeak
1315
tsv
919
fastq
909
bigBed narrowPeak
354
tagAlign
299
bed broadPeak
262
bigBed broadPeak
227
bed bed3+
158
txt
73
zippedFastqFolder
64
xls
30
bed bedMethyl
30
bigBed bedMethyl
13
hic
11
bedpe bed3+
8
csv
7
bed bed3
3
hdf5
3
tar
1
bedpe
1
tagAlign bed3+
1
vcf
Organism
912
Homo sapiens
Biosample type
377
tissue
367
cell line
171
primary cell
in vitro differentiated cells
4
stem cell
Organ
471
pancreas
450
liver
epithelium
blood
bodily fluid
46
connective tissue
43
adipose tissue
24
spleen
21
brain
6
vasculature
3
blood vessel
2
musculature of body
Project
819
AMP
100
HPAP
Genome assembly (visualization)
679
hg19
614
GRCh38
1
hg18
Lab
793
AMP-T2D consortium
100
Klaus Kaestner, Upenn
24
Kyle Gaulton, UCSD
1
Mark McCarthy, Oxford
1
Stephen Parker, UMich
Audit category:
27
audit script error
27
inconsistent control
6
inconsistent ontology term
Audit category:
62
missing controlled_by
Audit category:
35
inconsistent control read length
9
inconsistent control run_type
3
inconsistent assembly
biosample_type!
in vitro differentiated cells
organ_slims!
blood
bodily fluid
epithelium
BIOSAMPLE
ASSAY
919 results
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ChIP-seq
total RNA-seq
single cell RNA-seq
ATAC-seq
snATAC-seq
DNase-seq
WGBS
RRBS
FAIRE-seq
GRO-seq
Hi-C
tissue
islet of Langerhans
28
97
6
20
1
1
liver
67
2
1
1
body of pancreas
33
4
2
2
spleen
20
1
1
2
pancreas
16
2
1
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cell line
HepG2
360
5
1
1
primary cell
Langerhans cell
34
27
exocrine cell
39
pancreatic endocrine cell
23
skeletal muscle myoblast
15
1
1
pancreatic cell
9
+ See 8 more…
stem cell
hESC
3
1
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