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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
667
ChIP-seq
222
total RNA-seq
133
single cell RNA-seq
61
ATAC-seq
27
snATAC-seq
10
WGBS
2
DNase-seq
2
RRBS
1
FAIRE-seq
1
GRO-seq
1
Hi-C
Assay category
667
DNA binding
355
Transcription
91
DNA accessibility
12
DNA methylation
1
3D chromatin structure
Target of assay
357
transcription factor
165
histone modification
164
histone
140
control
87
broad histone mark
77
narrow histone mark
66
recombinant protein
62
RNA binding protein
26
chromatin remodeller
2
other context
2
other post-translational modification
Date released
324
November, 2017
231
August, 2017
November, 2018
76
February, 2023
73
September, 2018
60
October, 2018
51
December, 2017
50
July, 2018
45
February, 2021
44
April, 2018
41
September, 2020
35
December, 2018
30
January, 2019
24
May, 2022
17
October, 2017
11
September, 2017
7
August, 2020
3
August, 2018
3
June, 2018
1
January, 2018
1
March, 2019
Available data
2957
bam
2762
bigWig
1552
bed narrowPeak
1460
tsv
1127
fastq
905
bigBed narrowPeak
343
tagAlign
266
bed broadPeak
242
bigBed broadPeak
205
bed bed3+
157
txt
153
zippedFastqFolder
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
17
hic
14
bedpe bed3+
7
bed bed3
7
csv
5
hdf5
4
tar
3
cool
1
bedpe
1
tagAlign bed3+
1
vcf
Organism
1120
Homo sapiens
Biosample type
408
primary cell
366
cell line
349
tissue
in vitro differentiated cells
4
stem cell
Organ
464
pancreas
397
liver
238
epithelium
45
blood
45
bodily fluid
45
connective tissue
42
adipose tissue
19
brain
15
spleen
6
vasculature
3
blood vessel
musculature of body
Project
958
AMP
169
HPAP
Genome assembly (visualization)
817
hg19
754
GRCh38
1
hg18
Lab
932
AMP-T2D consortium
169
Klaus Kaestner, Upenn
24
Kyle Gaulton, UCSD
1
Mark McCarthy, Oxford
1
Stephen Parker, UMich
Audit category:
28
inconsistent control
27
audit script error
7
inconsistent ontology term
Audit category:
80
missing controlled_by
Audit category:
34
inconsistent control read length
5
inconsistent control run_type
3
inconsistent assembly
organ_slims!
musculature of body
month_released!
November, 2018
biosample_type!
in vitro differentiated cells
BIOSAMPLE
ASSAY
1127 results
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ChIP-seq
total RNA-seq
single cell RNA-seq
ATAC-seq
snATAC-seq
WGBS
DNase-seq
RRBS
FAIRE-seq
GRO-seq
Hi-C
primary cell
pancreatic alpha cell
13
52
12
13
6
Langerhans cell
34
27
pancreatic beta cell
13
21
12
10
exocrine cell
39
pancreatic ductal cell
13
4
9
4
+ See 18 more…
cell line
HepG2
315
5
1
GM12878
45
tissue
islet of Langerhans
28
97
6
20
1
1
liver
63
1
1
body of pancreas
33
4
pancreas
16
spleen
14
1
+ See 7 more…
stem cell
hESC
3
1
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