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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
766
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 RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
CRISPRi RNA-seq
1
DNAme array
1
FAIRE-seq
1
GRO-seq
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
766
DNA binding
306
DNA accessibility
188
Transcription
53
DNA methylation
14
3D chromatin structure
1
DNA sequencing
Target of assay
371
transcription factor
277
histone
277
histone modification
142
broad histone mark
135
narrow histone mark
116
control
89
recombinant protein
75
RNA binding protein
31
chromatin remodeller
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
324
November, 2017
171
May, 2021
134
May, 2022
102
May, 2020
82
February, 2023
62
November, 2018
59
August, 2017
59
February, 2021
59
September, 2020
58
October, 2019
55
June, 2019
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
March, 2023
5
May, 2019
5
September, 2017
4
October, 2022
3
December, 2017
3
March, 2020
2
January, 2018
Available data
1151
bam
1095
bigWig
802
fastq
701
bed narrowPeak
464
bigBed narrowPeak
tsv
153
zippedFastqFolder
120
tagAlign
108
bed broadPeak
108
bigBed broadPeak
43
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
1361
Homo sapiens
Biosample type
tissue
818
primary cell
543
cell line
in vitro differentiated cells
6
stem cell
Organ
395
liver
334
epithelium
296
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
929
AMP
318
HPAP
115
T1D
4
community
1
ITG
Genome assembly (visualization)
804
hg19
647
GRCh38
1
hg18
Lab
865
AMP-T2D consortium
318
Klaus Kaestner, Upenn
148
Kyle Gaulton, UCSD
25
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
4
Anna Gloyn, Oxford
1
ITG
Audit category:
90
inconsistent ontology term
31
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
57
missing controlled_by
Audit category:
33
inconsistent control read length
9
inconsistent control run_type
3
inconsistent assembly
biosample_type!
tissue
in vitro differentiated cells
month_released!
April, 2018
files.file_type!
tsv
BIOSAMPLE
ASSAY
1367 results
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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 RNA-seq
CRISPR genome editing followed by sgRNA sequencing
CRISPRi RNA-seq
DNAme array
FAIRE-seq
...and 5 more
primary cell
Langerhans cell
85
48
pancreatic alpha cell
13
35
42
25
1
monocyte
85
15
1
1
1
pancreatic beta cell
13
23
11
16
1
exocrine cell
39
+ See 69 more…
cell line
HepG2
378
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…
stem cell
hESC
3
SB Ad3.1
1
1
See all biosamples
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