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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
477
ChIP-seq
57
total RNA-seq
6
MeRIP-seq
6
pCHi-C
5
ATAC-seq
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
477
DNA binding
59
Transcription
7
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
357
transcription factor
89
recombinant protein
81
control
65
RNA binding protein
37
histone
37
histone modification
30
chromatin remodeller
19
broad histone mark
18
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
61
November, 2018
44
August, 2021
30
February, 2021
30
October, 2019
28
December, 2018
23
January, 2019
May, 2021
16
November, 2019
11
March, 2020
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
511
bam
461
bigWig
427
fastq
391
bed narrowPeak
355
bigBed narrowPeak
63
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
571
Homo sapiens
Biosample type
2564
tissue
845
primary cell
575
cell line
262
in vitro differentiated cells
10
stem cell
Organ
401
liver
71
pancreas
66
artery
66
blood vessel
66
heart
vasculature
61
blood
61
bodily fluid
58
epithelium
19
kidney
8
embryo
1
mammary gland
Project
565
AMP
8
T1D
2
community
Genome assembly (visualization)
461
hg19
395
GRCh38
Lab
528
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
71
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
1
inconsistent assembly
month_released!
May, 2021
organ_slims!
vasculature
BIOSAMPLE
ASSAY
575 results
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Clear Filters
ChIP-seq
total RNA-seq
MeRIP-seq
pCHi-C
ATAC-seq
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
2
1
2
2
1
1
EndoC_BH1
14
29
6
3
1
3
2
2
1
GM12878
60
1
Panc1
13
1
1
H1-hESC
8
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