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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
673
ChIP-seq
149
total RNA-seq
58
ATAC-seq
10
pCHi-C
8
Hi-C
6
MeRIP-seq
5
STARR-seq
4
Capture-C
4
GRO-seq
3
CRISPR genome editing followed by DNA sequencing
3
DNase-seq
2
HiChIP
2
single cell RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
673
DNA binding
153
Transcription
61
DNA accessibility
8
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
404
transcription factor
150
histone
150
histone modification
117
control
89
recombinant protein
76
RNA binding protein
75
broad histone mark
74
narrow histone mark
32
chromatin remodeller
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
153
May, 2021
February, 2021
86
August, 2021
68
August, 2017
61
November, 2018
43
December, 2017
39
February, 2018
38
October, 2019
27
December, 2018
23
January, 2019
22
February, 2023
21
November, 2019
19
March, 2020
6
November, 2020
5
January, 2018
2
December, 2019
2
March, 2023
1
August, 2018
1
May, 2020
1
October, 2022
Available data
755
bam
675
bigWig
567
fastq
521
bed narrowPeak
371
bigBed narrowPeak
150
tsv
60
bed broadPeak
60
bigBed broadPeak
52
tagAlign
27
bed bed3+
9
bedpe bed3+
6
hic
5
bed bed3
4
txt
3
bed bedgraph
3
tar
2
ibed
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
vcf
Organism
929
Homo sapiens
Biosample type
2205
tissue
1040
primary cell
565
cell line
368
in vitro differentiated cells
10
stem cell
Organ
414
liver
89
connective tissue
77
epithelium
69
pancreas
60
blood
60
bodily fluid
37
embryo
19
kidney
1
adipose tissue
1
heart
1
mammary gland
Project
922
AMP
9
T1D
2
community
Genome assembly (visualization)
707
hg19
614
GRCh38
4
hg18
Lab
832
AMP-T2D consortium
52
Kyle Gaulton, UCSD
34
Bing Ren, UCSD
7
Struan F.A. Grant, CHOP
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
163
inconsistent ontology term
2
audit script error
inconsistent control
Audit category:
19
missing controlled_by
Audit category:
43
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
audit.ERROR.category!
inconsistent control
month_released!
February, 2021
BIOSAMPLE
ASSAY
933 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
Hi-C
MeRIP-seq
STARR-seq
Capture-C
GRO-seq
CRISPR genome editing followed by DNA sequencing
DNase-seq
HiChIP
single cell RNA-seq
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
1
1
GM12878
59
1
EndoC_BH1
15
7
19
1
6
2
3
2
1
Panc1
13
1
1
H1-hESC
8
+ See 12 more…
in vitro differentiated cells
adipocyte
67
1
4
1
1
cardiomyocytes
3
59
embryonic stem cell
40
7
6
1
neural progenitor cell
21
7
10
pancreatic endoderm
18
4
1
+ See 31 more…
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