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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
763
ChIP-seq
268
total RNA-seq
180
ATAC-seq
54
single cell RNA-seq
33
DNase-seq
23
pCHi-C
11
Hi-C
10
RRBS
8
snATAC-seq
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
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
763
DNA binding
326
Transcription
222
DNA accessibility
12
DNA methylation
11
3D chromatin structure
1
DNA sequencing
Target of assay
371
transcription factor
275
histone
275
histone modification
141
broad histone mark
134
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
324
November, 2017
227
May, 2021
148
May, 2020
99
February, 2021
73
September, 2018
64
October, 2019
62
November, 2018
59
August, 2017
55
June, 2019
48
August, 2021
July, 2018
43
April, 2018
31
July, 2019
28
December, 2018
23
January, 2019
18
February, 2023
16
November, 2019
12
March, 2020
12
November, 2020
8
January, 2021
5
December, 2019
5
May, 2019
5
September, 2017
3
August, 2018
3
June, 2018
3
March, 2023
2
October, 2018
1
January, 2018
1
October, 2022
Available data
1143
bam
1077
bigWig
699
bed narrowPeak
619
fastq
464
bigBed narrowPeak
335
tsv
120
tagAlign
108
bed broadPeak
108
bigBed broadPeak
40
bed bed3+
11
bed bedMethyl
11
bigBed bedMethyl
5
hdf5
5
hic
4
tar
3
bedpe bed3+
2
bed bed3
2
csv
1
txt
1
vcf
Organism
1374
Homo sapiens
Biosample type
2657
tissue
716
primary cell
662
cell line
394
in vitro differentiated cells
10
stem cell
Organ
415
liver
300
epithelium
249
pancreas
103
vasculature
97
blood vessel
79
heart
69
blood
69
bodily fluid
68
artery
55
kidney
37
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
1162
AMP
213
T1D
2
community
1
ITG
Genome assembly (visualization)
1107
hg19
942
GRCh38
Lab
1091
AMP-T2D consortium
Klaus Kaestner, Upenn
244
Kyle Gaulton, UCSD
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
1
ITG
Audit category:
140
inconsistent ontology term
1
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
57
missing controlled_by
Audit category:
31
inconsistent control read length
9
inconsistent control run_type
3
inconsistent assembly
lab.title!
Klaus Kaestner, Upenn
month_released!
July, 2018
September, 2020
BIOSAMPLE
ASSAY
1378 results
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table-tab-icon
Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
DNase-seq
pCHi-C
Hi-C
RRBS
snATAC-seq
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
WGBS
...and 3 more
primary cell
monocyte
85
54
15
1
1
CD8-positive, alpha-beta T cell
33
4
2
1
pancreatic alpha cell
13
10
6
5
pancreatic beta cell
13
10
7
3
pancreatic ductal cell
13
4
4
7
+ See 87 more…
cell line
HepG2
378
14
1
2
2
2
1
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…
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