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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
746
ChIP-seq
total RNA-seq
229
ATAC-seq
187
single cell RNA-seq
56
snATAC-seq
48
WGBS
31
DNase-seq
23
pCHi-C
12
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
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
746
DNA binding
316
DNA accessibility
191
Transcription
59
DNA methylation
12
3D chromatin structure
1
DNA sequencing
Target of assay
371
transcription factor
260
histone
260
histone modification
132
broad histone mark
128
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
168
May, 2021
134
May, 2022
101
May, 2020
65
February, 2021
62
November, 2018
59
August, 2017
55
June, 2019
48
July, 2018
47
September, 2018
43
April, 2018
43
September, 2020
37
October, 2019
31
August, 2021
28
December, 2018
18
February, 2023
18
January, 2019
18
July, 2019
15
November, 2019
8
January, 2021
8
November, 2020
7
August, 2020
7
March, 2020
5
May, 2019
5
September, 2017
4
October, 2022
3
August, 2018
3
June, 2018
3
March, 2023
1
January, 2018
Available data
917
bam
864
bigWig
711
fastq
686
bed narrowPeak
451
bigBed narrowPeak
153
zippedFastqFolder
126
tsv
120
tagAlign
104
bed broadPeak
104
bigBed broadPeak
36
bed bed3+
11
bed bedMethyl
11
bigBed bedMethyl
6
hic
5
bedpe bed3+
5
hdf5
3
cool
3
tar
2
bed bed3
2
csv
1
txt
1
vcf
Organism
1364
Homo sapiens
Biosample type
1746
tissue
819
primary cell
549
cell line
258
in vitro differentiated cells
10
stem cell
Organ
396
liver
358
epithelium
324
pancreas
69
blood
69
bodily fluid
49
vasculature
45
kidney
43
blood vessel
29
connective tissue
23
heart
vein
21
brain
14
artery
13
musculature of body
5
eye
1
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
Project
1018
AMP
232
HPAP
115
T1D
2
community
1
ITG
Genome assembly (visualization)
885
hg19
734
GRCh38
Lab
956
AMP-T2D consortium
232
Klaus Kaestner, Upenn
146
Kyle Gaulton, UCSD
25
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
1
ITG
Audit category:
106
inconsistent ontology term
30
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
assay_title!
total RNA-seq
organ_slims!
vein
BIOSAMPLE
ASSAY
1368 results
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Clear Filters
ChIP-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
MPRA
shRNA RNA-seq
siRNA RNA-seq
...and 1 more
primary cell
Langerhans cell
85
48
monocyte
85
15
1
1
pancreatic alpha cell
13
35
12
31
1
pancreatic beta cell
13
23
12
16
1
CD8-positive, alpha-beta T cell
33
2
1
+ See 85 more…
cell line
HepG2
378
1
1
2
2
2
GM12878
60
1
EndoC_BH1
15
19
1
6
3
2
2
1
Panc1
13
1
1
smooth muscle cell of the coronary artery
6
8
+ See 12 more…
See all biosamples
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