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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
643
ChIP-seq
360
total RNA-seq
229
ATAC-seq
187
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
643
DNA binding
551
Transcription
319
DNA accessibility
59
DNA methylation
14
3D chromatin structure
1
DNA sequencing
Target of assay
366
transcription factor
166
histone
166
histone modification
112
control
89
recombinant protein
84
broad histone mark
82
narrow histone mark
75
RNA binding protein
31
chromatin remodeller
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
312
November, 2017
148
May, 2020
143
May, 2021
136
February, 2021
134
May, 2022
94
February, 2023
73
September, 2018
64
October, 2019
62
November, 2018
59
September, 2020
55
June, 2019
48
July, 2018
47
August, 2017
44
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
1191
bam
1135
bigWig
836
fastq
699
bed narrowPeak
464
bigBed narrowPeak
389
tsv
153
zippedFastqFolder
tagAlign
108
bed broadPeak
108
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
1626
Homo sapiens
Biosample type
2499
tissue
988
primary cell
642
cell line
354
in vitro differentiated cells
10
stem cell
Organ
481
epithelium
438
pancreas
399
liver
97
vasculature
91
blood vessel
73
heart
69
blood
69
bodily fluid
62
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
1174
AMP
324
HPAP
129
T1D
2
community
1
ITG
Genome assembly (visualization)
1042
hg19
888
GRCh38
Lab
1103
AMP-T2D consortium
324
Klaus Kaestner, Upenn
160
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
1
inconsistent replicate
Audit category:
57
missing controlled_by
Audit category:
20
inconsistent control read length
9
inconsistent control run_type
2
inconsistent assembly
files.file_type!
tagAlign
BIOSAMPLE
ASSAY
1630 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
pancreatic alpha cell
13
52
35
12
31
1
Langerhans cell
85
48
pancreatic beta cell
13
21
23
12
16
1
monocyte
1
54
15
1
1
CD8-positive, alpha-beta T cell
33
4
2
1
+ See 94 more…
cell line
HepG2
366
14
1
1
2
2
2
EndoC_BH1
15
33
19
1
6
3
2
2
1
GM12878
60
1
smooth muscle cell of the coronary artery
52
8
Panc1
13
1
1
+ See 13 more…
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