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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
468
ChIP-seq
57
total RNA-seq
21
ATAC-seq
6
MeRIP-seq
4
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
STARR-seq
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
468
DNA binding
59
Transcription
22
DNA accessibility
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
350
transcription factor
82
recombinant protein
78
control
65
RNA binding protein
38
histone
38
histone modification
30
chromatin remodeller
19
broad histone mark
19
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
61
November, 2018
41
August, 2021
30
February, 2021
27
December, 2018
23
January, 2019
21
May, 2021
15
November, 2019
14
October, 2019
9
March, 2020
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
501
bam
453
bigWig
426
fastq
384
bed narrowPeak
354
bigBed narrowPeak
61
tsv
59
bed broadPeak
59
bigBed broadPeak
14
tagAlign
3
tar
2
bed bed3+
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
txt
1
vcf
Organism
569
Homo sapiens
Biosample type
2331
tissue
1016
primary cell
573
cell line
390
in vitro differentiated cells
10
stem cell
Organ
399
liver
90
pancreas
78
epithelium
66
artery
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
kidney
8
embryo
1
mammary gland
Project
562
AMP
9
T1D
2
community
Genome assembly (visualization)
451
hg19
387
GRCh38
Lab
529
AMP-T2D consortium
31
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
76
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
assay_slims!
3D chromatin structure
organ_slims!
kidney
blood vessel
BIOSAMPLE
ASSAY
573 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
STARR-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
1
1
EndoC_BH1
15
33
19
6
3
2
2
1
GM12878
60
1
Panc1
13
1
H1-hESC
8
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