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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
418
ChIP-seq
61
total RNA-seq
20
ATAC-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
2
HiChIP
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
418
DNA binding
63
Transcription
22
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
306
transcription factor
89
recombinant protein
72
control
55
RNA binding protein
37
histone
37
histone modification
20
chromatin remodeller
19
broad histone mark
18
narrow histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
46
November, 2018
44
August, 2021
30
February, 2021
30
October, 2019
21
May, 2021
16
November, 2019
11
March, 2020
6
February, 2023
November, 2020
5
January, 2019
2
March, 2023
1
December, 2018
1
May, 2020
1
October, 2022
Available data
456
bam
411
bigWig
367
fastq
338
bed narrowPeak
301
bigBed narrowPeak
67
tsv
59
bed broadPeak
59
bigBed broadPeak
14
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
525
Homo sapiens
Biosample type
2640
tissue
1037
primary cell
529
cell line
394
in vitro differentiated cells
10
stem cell
Organ
401
liver
86
pancreas
73
epithelium
66
artery
66
blood vessel
66
heart
vasculature
61
blood
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
518
AMP
9
T1D
2
community
Genome assembly (visualization)
411
hg19
346
GRCh38
Lab
488
AMP-T2D consortium
34
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
86
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
month_released!
November, 2020
organ_slims!
vasculature
bodily fluid
BIOSAMPLE
ASSAY
529 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
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
2
1
1
EndoC_BH1
15
33
19
1
3
2
2
1
Panc1
13
1
1
H1-hESC
8
RCC 7860 HIF1a re-expression
4
1
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