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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
742
ChIP-seq
350
total RNA-seq
227
ATAC-seq
183
single cell RNA-seq
56
snATAC-seq
48
WGBS
27
DNase-seq
21
pCHi-C
13
Hi-C
9
RRBS
6
MeRIP-seq
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
DNAme array
1
FAIRE-seq
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
small RNA-seq
1
whole genome sequencing assay
Assay category
742
DNA binding
536
Transcription
311
DNA accessibility
58
DNA methylation
13
3D chromatin structure
1
DNA sequencing
Target of assay
362
transcription factor
266
histone
266
histone modification
137
broad histone mark
129
narrow histone mark
115
control
89
recombinant protein
71
RNA binding protein
23
chromatin remodeller
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
320
November, 2017
226
May, 2021
148
May, 2020
141
February, 2021
134
May, 2022
94
February, 2023
73
September, 2018
64
October, 2019
59
September, 2020
58
August, 2017
58
November, 2018
48
August, 2021
46
July, 2018
41
April, 2018
38
June, 2019
28
December, 2018
23
January, 2019
23
July, 2019
16
November, 2019
12
March, 2020
8
January, 2021
7
August, 2020
6
November, 2020
5
December, 2019
5
May, 2019
5
September, 2017
4
October, 2022
3
August, 2018
3
June, 2018
3
March, 2023
2
October, 2018
1
January, 2018
Available data
1146
bam
1094
bigWig
824
fastq
673
bed narrowPeak
440
bigBed narrowPeak
374
tsv
153
zippedFastqFolder
120
tagAlign
102
bed broadPeak
102
bigBed broadPeak
32
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
8
hic
6
bedpe bed3+
4
hdf5
4
tar
3
cool
2
csv
1
bed bed3
1
txt
1
vcf
Organism
1698
Homo sapiens
Biosample type
2230
tissue
1048
primary cell
654
cell line
297
in vitro differentiated cells
9
stem cell
Organ
485
epithelium
438
pancreas
407
liver
103
vasculature
97
blood vessel
79
heart
69
blood
69
bodily fluid
68
artery
55
kidney
connective tissue
22
vein
21
brain
14
musculature of body
8
embryo
5
eye
2
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
1163
AMP
324
HPAP
212
T1D
2
community
1
ITG
Genome assembly (visualization)
1115
hg19
961
GRCh38
Lab
1092
AMP-T2D consortium
324
Klaus Kaestner, Upenn
243
Kyle Gaulton, UCSD
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
1
ITG
Audit category:
133
inconsistent ontology term
31
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
51
missing controlled_by
Audit category:
31
inconsistent control read length
inconsistent control run_type
3
inconsistent assembly
audit.WARNING.category!
inconsistent control run_type
organ_slims!
connective tissue
BIOSAMPLE
ASSAY
1702 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
WGBS
DNase-seq
pCHi-C
Hi-C
RRBS
MeRIP-seq
STARR-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
DNAme array
FAIRE-seq
MPRA
shRNA RNA-seq
...and 3 more
primary cell
monocyte
85
54
15
1
1
pancreatic alpha cell
13
52
35
12
31
1
Langerhans cell
85
48
pancreatic beta cell
13
21
23
12
16
1
CD8-positive, alpha-beta T cell
33
4
2
1
+ See 82 more…
cell line
HepG2
370
14
1
1
2
2
2
EndoC_BH1
15
33
19
1
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
1
+ See 14 more…
See all biosamples
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