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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
450
ChIP-seq
28
total RNA-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
ATAC-seq
2
Hi-C
2
HiChIP
1
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
450
DNA binding
30
Transcription
3
DNA accessibility
2
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
356
transcription factor
89
recombinant protein
70
control
64
RNA binding protein
30
chromatin remodeller
19
histone
19
histone modification
10
narrow histone mark
9
broad histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
61
November, 2018
42
August, 2021
28
December, 2018
23
January, 2019
15
October, 2019
6
March, 2020
5
February, 2023
4
February, 2021
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
453
bam
427
fastq
410
bigWig
371
bed narrowPeak
348
bigBed narrowPeak
58
bed broadPeak
58
bigBed broadPeak
33
tsv
14
tagAlign
3
tar
1
bed bed3
1
bed bed3+
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hic
1
txt
1
vcf
Organism
501
Homo sapiens
Biosample type
1959
tissue
729
primary cell
504
cell line
390
in vitro differentiated cells
10
stem cell
Organ
401
liver
pancreas
79
epithelium
66
artery
66
blood vessel
heart
66
vasculature
61
blood
61
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
497
AMP
5
T1D
2
community
Genome assembly (visualization)
408
hg19
345
GRCh38
Lab
463
AMP-T2D consortium
34
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
16
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
organ_slims!
heart
pancreas
BIOSAMPLE
ASSAY
504 results
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Clear Filters
ChIP-seq
total RNA-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
ATAC-seq
Hi-C
HiChIP
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
2
2
1
2
1
1
GM12878
60
1
H1-hESC
8
EndoC_BH1
3
2
RCC 7860 HIF1a re-expression
4
1
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