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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
732
ChIP-seq
360
total RNA-seq
229
ATAC-seq
184
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
732
DNA binding
548
Transcription
319
DNA accessibility
59
DNA methylation
14
3D chromatin structure
1
DNA sequencing
Target of assay
356
transcription factor
259
histone
259
histone modification
135
broad histone mark
124
narrow histone mark
118
control
88
recombinant protein
69
RNA binding protein
20
chromatin remodeller
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
303
November, 2017
227
May, 2021
148
May, 2020
144
February, 2021
134
May, 2022
94
February, 2023
73
September, 2018
64
October, 2019
59
September, 2020
57
November, 2018
55
June, 2019
54
August, 2017
48
August, 2021
48
July, 2018
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
June, 2018
3
March, 2023
2
October, 2018
1
January, 2018
Available data
1157
bam
1101
bigWig
802
fastq
670
bed narrowPeak
439
bigBed narrowPeak
386
tsv
153
zippedFastqFolder
109
tagAlign
95
bed broadPeak
95
bigBed broadPeak
40
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
1712
Homo sapiens
Biosample type
2771
tissue
1080
primary cell
636
cell line
377
in vitro differentiated cells
8
stem cell
Organ
480
epithelium
433
pancreas
389
liver
103
vasculature
97
blood vessel
79
heart
69
blood
69
bodily fluid
68
artery
55
kidney
39
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
1176
AMP
324
HPAP
213
T1D
2
community
1
ITG
Genome assembly (visualization)
1124
hg19
970
GRCh38
Lab
1105
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:
145
inconsistent ontology term
31
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
52
missing controlled_by
Audit category:
inconsistent control read length
9
inconsistent control run_type
3
inconsistent assembly
month_released!
June, 2018
audit.WARNING.category!
inconsistent control read length
BIOSAMPLE
ASSAY
1716 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
11
52
35
12
31
1
Langerhans cell
85
48
pancreatic beta cell
11
21
23
12
16
1
CD8-positive, alpha-beta T cell
33
4
2
1
+ See 94 more…
cell line
HepG2
352
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
Panc1
13
1
1
+ See 14 more…
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