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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
629
ChIP-seq
360
total RNA-seq
229
ATAC-seq
187
single cell RNA-seq
56
snATAC-seq
48
WGBS
33
DNase-seq
23
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
2
small RNA-seq
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
629
DNA binding
551
Transcription
319
DNA accessibility
59
DNA methylation
14
3D chromatin structure
1
DNA sequencing
Target of assay
371
transcription factor
275
histone
275
histone modification
141
broad histone mark
narrow histone mark
118
control
89
recombinant protein
75
RNA binding protein
31
chromatin remodeller
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
314
November, 2017
174
May, 2021
148
May, 2020
144
February, 2021
134
May, 2022
94
February, 2023
62
November, 2018
59
September, 2020
58
September, 2018
52
October, 2019
48
July, 2018
44
August, 2021
44
June, 2019
43
April, 2018
37
August, 2017
31
July, 2019
28
December, 2018
22
January, 2019
12
November, 2019
12
November, 2020
11
March, 2020
8
January, 2021
7
August, 2020
5
December, 2019
5
September, 2017
4
May, 2019
4
October, 2022
3
August, 2018
3
June, 2018
3
March, 2023
2
October, 2018
1
January, 2018
Available data
1071
bam
1004
bigWig
788
fastq
577
bed narrowPeak
428
bigBed narrowPeak
389
tsv
153
zippedFastqFolder
94
bed broadPeak
94
bigBed broadPeak
68
tagAlign
38
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
1612
Homo sapiens
Biosample type
2428
tissue
973
primary cell
643
cell line
339
in vitro differentiated cells
9
stem cell
Organ
444
epithelium
404
liver
398
pancreas
95
vasculature
90
blood vessel
77
heart
68
artery
68
blood
68
bodily fluid
50
kidney
35
connective tissue
18
brain
16
vein
10
musculature of body
8
embryo
4
eye
2
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
1118
AMP
324
HPAP
171
T1D
2
community
1
ITG
Genome assembly (visualization)
1027
hg19
882
GRCh38
Lab
1057
AMP-T2D consortium
324
Klaus Kaestner, Upenn
194
Kyle Gaulton, UCSD
32
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
1
ITG
Audit category:
131
inconsistent ontology term
31
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
33
missing controlled_by
Audit category:
21
inconsistent control read length
8
inconsistent control run_type
2
inconsistent assembly
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
1616 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
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
DNAme array
FAIRE-seq
MPRA
...and 3 more
primary cell
pancreatic alpha cell
9
52
35
12
31
1
Langerhans cell
85
48
monocyte
44
54
15
1
1
pancreatic beta cell
9
21
23
12
16
1
exocrine cell
39
+ See 94 more…
cell line
HepG2
369
14
1
1
2
2
2
EndoC_BH1
9
33
19
1
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
59
1
Panc1
10
1
1
+ See 14 more…
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