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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
483
ChIP-seq
100
total RNA-seq
72
ATAC-seq
69
single cell RNA-seq
48
WGBS
3
DNase-seq
3
Hi-C
2
STARR-seq
2
pCHi-C
1
CRISPR genome editing followed by sgRNA sequencing
1
RRBS
1
whole genome sequencing assay
Assay category
483
DNA binding
169
Transcription
75
DNA accessibility
49
DNA methylation
3
3D chromatin structure
1
DNA sequencing
Target of assay
300
transcription factor
99
histone
99
histone modification
82
recombinant protein
81
control
56
RNA binding protein
51
narrow histone mark
48
broad histone mark
21
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
80
May, 2022
72
September, 2018
46
November, 2018
41
August, 2017
38
February, 2023
34
August, 2021
33
April, 2018
32
July, 2018
19
September, 2020
15
December, 2017
15
October, 2019
8
February, 2021
7
August, 2020
5
December, 2019
5
January, 2019
5
September, 2017
3
August, 2018
3
May, 2021
2
July, 2019
2
June, 2019
2
October, 2018
1
December, 2018
1
June, 2018
1
May, 2020
Available data
635
fastq
598
bam
554
bigWig
404
bed narrowPeak
338
bigBed narrowPeak
123
tsv
80
zippedFastqFolder
61
bed broadPeak
61
bigBed broadPeak
19
tagAlign
9
bed bed3+
4
bedpe bed3+
hic
3
cool
3
tar
2
bed bedMethyl
2
bigBed bedMethyl
2
hdf5
1
bed bed3
1
vcf
Organism
784
Homo sapiens
Biosample type
tissue
416
cell line
351
primary cell
18
in vitro differentiated cells
Organ
428
liver
413
epithelium
357
pancreas
119
connective tissue
100
vasculature
95
blood vessel
74
heart
69
blood
69
bodily fluid
68
artery
32
kidney
31
embryo
21
brain
20
vein
6
musculature of body
5
eye
3
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
636
AMP
149
HPAP
Genome assembly (visualization)
542
hg19
489
GRCh38
Lab
606
AMP-T2D consortium
149
Klaus Kaestner, Upenn
30
Bing Ren, UCSD
Audit category:
inconsistent ontology term
1
inconsistent replicate
Audit category:
57
missing controlled_by
Audit category:
30
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
audit.ERROR.category!
inconsistent ontology term
biosample_type!
tissue
files.file_type!
hic
BIOSAMPLE
ASSAY
785 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
WGBS
DNase-seq
Hi-C
STARR-seq
pCHi-C
CRISPR genome editing followed by sgRNA sequencing
RRBS
whole genome sequencing assay
cell line
HepG2
378
14
1
1
1
2
2
1
Panc1
13
1
1
EndoC_BH1
1
primary cell
pancreatic alpha cell
13
52
35
12
31
pancreatic beta cell
13
21
23
12
16
pancreatic acinar cell
8
4
9
11
pancreatic ductal cell
13
4
4
10
pancreatic endocrine cell
23
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in vitro differentiated cells
hepatocyte
15
pancreatic PP cell
3
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