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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
684
ChIP-seq
328
total RNA-seq
213
ATAC-seq
186
single cell RNA-seq
56
snATAC-seq
48
WGBS
27
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
Assay category
684
DNA binding
518
Transcription
296
DNA accessibility
59
DNA methylation
12
3D chromatin structure
DNA sequencing
Target of assay
364
transcription factor
215
histone
215
histone modification
108
broad histone mark
107
narrow histone mark
106
control
82
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
144
February, 2021
134
May, 2022
94
February, 2023
September, 2018
October, 2019
62
November, 2018
59
August, 2017
59
September, 2020
55
June, 2019
48
July, 2018
47
August, 2021
43
April, 2018
31
July, 2019
28
December, 2018
23
January, 2019
16
November, 2019
12
March, 2020
12
November, 2020
8
January, 2021
7
August, 2020
5
December, 2019
5
May, 2019
5
September, 2017
4
October, 2022
3
August, 2018
3
June, 2018
3
March, 2023
2
October, 2018
1
January, 2018
Available data
1059
bam
1020
bigWig
763
fastq
617
bed narrowPeak
429
bigBed narrowPeak
357
tsv
153
zippedFastqFolder
120
tagAlign
103
bed broadPeak
103
bigBed broadPeak
36
bed bed3+
11
bed bedMethyl
11
bigBed bedMethyl
7
hic
6
bedpe bed3+
4
hdf5
3
cool
3
tar
2
bed bed3
1
csv
1
txt
Organism
1608
Homo sapiens
Biosample type
2535
tissue
981
primary cell
631
cell line
386
in vitro differentiated cells
10
stem cell
Organ
413
liver
389
epithelium
351
pancreas
82
vasculature
79
heart
76
blood vessel
69
blood
69
bodily fluid
68
artery
39
connective tissue
29
kidney
21
brain
14
musculature of body
8
embryo
5
eye
2
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
1
vein
Project
1072
AMP
324
HPAP
213
T1D
2
community
1
ITG
Genome assembly (visualization)
1040
hg19
886
GRCh38
Lab
1002
AMP-T2D consortium
324
Klaus Kaestner, Upenn
244
Kyle Gaulton, UCSD
33
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
1
ITG
Audit category:
131
inconsistent ontology term
30
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
25
missing controlled_by
Audit category:
31
inconsistent control read length
9
inconsistent control run_type
2
inconsistent assembly
assay_slims!
DNA sequencing
month_released!
October, 2019
September, 2018
BIOSAMPLE
ASSAY
1612 results
search-icon
table-tab-icon
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
MPRA
shRNA RNA-seq
...and 1 more
primary cell
monocyte
85
54
15
1
1
Langerhans cell
85
48
pancreatic alpha cell
13
42
32
12
31
1
pancreatic beta cell
13
11
19
12
16
1
CD8-positive, alpha-beta T cell
33
4
2
1
+ See 92 more…
cell line
HepG2
378
14
1
1
2
2
2
EndoC_BH1
15
33
19
1
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
H1-hESC
8
+ See 10 more…
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