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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
732
ChIP-seq
216
ATAC-seq
97
total RNA-seq
87
single cell RNA-seq
56
snATAC-seq
42
WGBS
33
DNase-seq
18
pCHi-C
14
Hi-C
10
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
whole genome sequencing assay
Assay category
732
DNA binding
306
DNA accessibility
186
Transcription
53
DNA methylation
14
3D chromatin structure
1
DNA sequencing
Target of assay
356
transcription factor
259
histone
259
histone modification
135
broad histone mark
124
narrow histone mark
115
control
88
recombinant protein
69
RNA binding protein
20
chromatin remodeller
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
303
November, 2017
171
May, 2021
134
May, 2022
102
May, 2020
82
February, 2023
59
February, 2021
59
September, 2020
58
October, 2019
57
November, 2018
55
June, 2019
54
August, 2017
47
September, 2018
31
August, 2021
28
December, 2018
18
January, 2019
15
November, 2019
13
July, 2019
8
January, 2021
8
November, 2020
7
August, 2020
5
May, 2019
5
September, 2017
4
October, 2022
3
March, 2020
3
March, 2023
1
January, 2018
Available data
1157
bam
1101
bigWig
802
fastq
670
bed narrowPeak
439
bigBed narrowPeak
tsv
153
zippedFastqFolder
109
tagAlign
95
bed broadPeak
95
bigBed broadPeak
40
bed bed3+
11
bed bedMethyl
11
bigBed bedMethyl
8
hic
6
bedpe bed3+
5
hdf5
4
tar
3
cool
2
bed bed3
2
csv
1
txt
1
vcf
Organism
1326
Homo sapiens
Biosample type
1695
tissue
813
primary cell
517
cell line
246
in vitro differentiated cells
4
stem cell
Organ
369
liver
330
epithelium
292
pancreas
69
blood
69
bodily fluid
49
vasculature
43
blood vessel
43
kidney
24
connective tissue
23
heart
22
vein
18
brain
14
artery
12
musculature of body
5
eye
1
bone element
1
bone marrow
Project
894
AMP
318
HPAP
115
T1D
2
community
1
ITG
Genome assembly (visualization)
770
hg19
617
GRCh38
Lab
830
AMP-T2D consortium
318
Klaus Kaestner, Upenn
148
Kyle Gaulton, UCSD
25
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
1
ITG
Audit category:
90
inconsistent ontology term
31
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
52
missing controlled_by
Audit category:
inconsistent control read length
9
inconsistent control run_type
3
inconsistent assembly
audit.WARNING.category!
inconsistent control read length
files.file_type!
tsv
month_released!
June, 2018
BIOSAMPLE
ASSAY
1330 results
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table-tab-icon
Clear Filters
ChIP-seq
ATAC-seq
total RNA-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 2 more
primary cell
Langerhans cell
85
48
pancreatic alpha cell
11
35
42
25
1
monocyte
85
15
1
1
1
pancreatic beta cell
11
23
11
16
1
exocrine cell
39
+ See 69 more…
cell line
HepG2
352
1
1
1
2
2
GM12878
60
1
EndoC_BH1
15
18
1
6
3
2
2
1
Panc1
13
1
1
smooth muscle cell of the coronary artery
6
8
+ See 9 more…
See all biosamples
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