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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
221
total RNA-seq
102
single cell RNA-seq
80
ATAC-seq
22
pCHi-C
11
Hi-C
10
RRBS
8
snATAC-seq
6
MeRIP-seq
5
STARR-seq
4
DNase-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
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
684
DNA binding
327
Transcription
93
DNA accessibility
12
DNA methylation
11
3D chromatin structure
1
DNA sequencing
Target of assay
322
transcription factor
245
histone
245
histone modification
125
broad histone mark
120
narrow histone mark
118
control
89
recombinant protein
66
RNA binding protein
26
chromatin remodeller
3
nucleotide modification
1
other context
1
other post-translational modification
Date released
260
November, 2017
227
May, 2021
May, 2020
99
February, 2021
73
September, 2018
62
November, 2018
59
October, 2019
48
August, 2021
48
July, 2018
45
August, 2017
43
April, 2018
31
July, 2019
31
June, 2019
28
December, 2018
23
January, 2019
18
February, 2023
16
November, 2019
12
March, 2020
11
November, 2020
8
January, 2021
5
December, 2019
5
May, 2019
5
September, 2017
3
August, 2018
3
June, 2018
3
March, 2023
2
October, 2018
1
January, 2018
1
October, 2022
Available data
1101
bam
1035
bigWig
699
bed narrowPeak
667
fastq
464
bigBed narrowPeak
337
tsv
120
tagAlign
bed broadPeak
108
bigBed broadPeak
40
bed bed3+
11
bed bedMethyl
11
bigBed bedMethyl
5
hdf5
5
hic
4
tar
3
bedpe bed3+
2
bed bed3
2
csv
1
txt
1
vcf
Organism
1166
Homo sapiens
Biosample type
2371
tissue
602
cell line
568
primary cell
393
in vitro differentiated cells
10
stem cell
Organ
354
liver
311
epithelium
285
pancreas
91
vasculature
89
blood vessel
76
heart
69
blood
69
bodily fluid
68
artery
45
kidney
33
connective tissue
18
vein
13
musculature of body
10
brain
8
embryo
4
eye
2
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
999
AMP
HPAP
168
T1D
2
community
1
ITG
Genome assembly (visualization)
964
hg19
855
GRCh38
Lab
928
AMP-T2D consortium
199
Kyle Gaulton, UCSD
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
1
ITG
Audit category:
135
inconsistent ontology term
1
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
57
missing controlled_by
Audit category:
18
inconsistent control read length
9
inconsistent control run_type
2
inconsistent assembly
award.project!
HPAP
files.file_type!
bed broadPeak
month_released!
May, 2020
BIOSAMPLE
ASSAY
1170 results
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Clear Filters
ChIP-seq
total RNA-seq
single cell RNA-seq
ATAC-seq
pCHi-C
Hi-C
RRBS
snATAC-seq
MeRIP-seq
STARR-seq
DNase-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
WGBS
...and 3 more
cell line
HepG2
320
14
1
1
2
2
1
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
+ See 14 more…
primary cell
monocyte
85
52
13
1
1
pancreatic beta cell
13
10
12
7
pancreatic alpha cell
13
10
12
6
CD8-positive, alpha-beta T cell
33
2
1
pancreatic ductal cell
13
4
10
4
+ See 66 more…
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