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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
760
ChIP-seq
360
total RNA-seq
227
ATAC-seq
187
single cell RNA-seq
56
snATAC-seq
48
WGBS
32
DNase-seq
23
pCHi-C
14
Hi-C
9
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
760
DNA binding
551
Transcription
316
DNA accessibility
58
DNA methylation
14
3D chromatin structure
1
DNA sequencing
Target of assay
370
transcription factor
274
histone
274
histone modification
141
broad histone mark
133
narrow histone mark
117
control
89
recombinant protein
74
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
142
February, 2021
134
May, 2022
94
February, 2023
73
September, 2018
64
October, 2019
62
November, 2018
59
August, 2017
59
September, 2020
51
June, 2019
48
August, 2021
48
July, 2018
43
April, 2018
30
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
1187
bam
1132
bigWig
836
fastq
696
bed narrowPeak
461
bigBed narrowPeak
389
tsv
153
zippedFastqFolder
120
tagAlign
107
bed broadPeak
107
bigBed broadPeak
39
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
8
hic
6
bedpe bed3+
5
hdf5
4
tar
3
cool
bed bed3
2
csv
1
txt
1
vcf
Organism
1739
Homo sapiens
Biosample type
2716
tissue
1082
primary cell
661
cell line
389
in vitro differentiated cells
10
stem cell
Organ
485
epithelium
438
pancreas
414
liver
103
vasculature
97
blood vessel
79
heart
69
blood
69
bodily fluid
68
artery
55
kidney
38
connective tissue
22
vein
21
brain
14
musculature of body
8
embryo
eye
2
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
1203
AMP
324
HPAP
213
T1D
2
community
1
ITG
Genome assembly (visualization)
1152
hg19
995
GRCh38
Lab
1132
AMP-T2D consortium
324
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:
146
inconsistent ontology term
31
audit script error
1
inconsistent control
Audit category:
57
missing controlled_by
Audit category:
31
inconsistent control read length
9
inconsistent control run_type
3
inconsistent assembly
files.file_type!
bed bed3
organ_slims!
eye
BIOSAMPLE
ASSAY
1743 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
monocyte
85
54
15
1
1
pancreatic alpha cell
13
52
35
12
31
1
Langerhans cell
85
48
pancreatic beta cell
13
21
23
12
16
1
CD8-positive, alpha-beta T cell
33
4
2
1
+ See 93 more…
cell line
HepG2
378
14
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
Panc1
13
1
1
+ See 14 more…
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