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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
664
ChIP-seq
222
total RNA-seq
133
single cell RNA-seq
60
ATAC-seq
27
snATAC-seq
10
WGBS
4
RRBS
2
DNase-seq
1
FAIRE-seq
1
Hi-C
Assay category
664
DNA binding
355
Transcription
90
DNA accessibility
14
DNA methylation
1
3D chromatin structure
Target of assay
357
transcription factor
163
histone modification
162
histone
139
control
86
broad histone mark
76
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
233
August, 2017
November, 2018
76
February, 2023
73
September, 2018
60
October, 2018
50
July, 2018
48
December, 2017
45
February, 2021
44
April, 2018
41
September, 2020
35
December, 2018
30
January, 2019
24
May, 2022
16
October, 2017
11
September, 2017
7
August, 2020
3
August, 2018
3
June, 2018
1
March, 2019
Available data
3011
bam
2826
bigWig
1610
bed narrowPeak
1465
tsv
1124
fastq
952
bigBed narrowPeak
358
tagAlign
311
bed broadPeak
275
bigBed broadPeak
236
bed bed3+
158
txt
153
zippedFastqFolder
64
xls
29
bed bedMethyl
29
bigBed bedMethyl
19
hic
16
bedpe bed3+
7
bed bed3
7
csv
5
hdf5
4
tar
3
cool
1
bedpe
1
tagAlign bed3+
1
vcf
Organism
1117
Homo sapiens
Biosample type
408
primary cell
366
cell line
350
tissue
in vitro differentiated cells
stem cell
Organ
463
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
2
musculature of body
Project
955
AMP
169
HPAP
Genome assembly (visualization)
815
hg19
750
GRCh38
Lab
930
AMP-T2D consortium
169
Klaus Kaestner, Upenn
24
Kyle Gaulton, UCSD
1
Mark McCarthy, Oxford
Stephen Parker, UMich
Audit category:
28
inconsistent control
27
audit script error
7
inconsistent ontology term
Audit category:
80
missing controlled_by
Audit category:
32
inconsistent control read length
5
inconsistent control run_type
3
inconsistent assembly
biosample_type!
in vitro differentiated cells
stem cell
lab.title!
Stephen Parker, UMich
month_released!
November, 2018
BIOSAMPLE
ASSAY
1124 results
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ChIP-seq
total RNA-seq
single cell RNA-seq
ATAC-seq
snATAC-seq
WGBS
RRBS
DNase-seq
FAIRE-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
19
1
1
liver
63
1
1
body of pancreas
33
4
pancreas
16
spleen
14
1
+ See 8 more…
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