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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
463
ChIP-seq
58
total RNA-seq
20
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
3
Hi-C
2
Capture-C
2
DNase-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
WGBS
1
whole genome sequencing assay
Assay category
463
DNA binding
58
Transcription
22
DNA accessibility
3
3D chromatin structure
1
DNA sequencing
Target of assay
356
transcription factor
89
recombinant protein
79
control
64
RNA binding protein
30
chromatin remodeller
26
histone
26
histone modification
13
broad histone mark
13
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
60
November, 2018
44
August, 2021
30
February, 2021
30
October, 2019
28
December, 2018
23
January, 2019
20
May, 2021
November, 2019
8
March, 2020
6
November, 2020
1
February, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
496
bam
449
bigWig
426
fastq
378
bed narrowPeak
355
bigBed narrowPeak
64
tsv
59
bed broadPeak
59
bigBed broadPeak
14
tagAlign
3
bed bed3+
3
tar
1
bed bed3
1
bedpe bed3+
1
hdf5
1
hic
1
txt
1
vcf
Organism
566
Homo sapiens
Biosample type
2482
tissue
568
cell line
522
primary cell
389
in vitro differentiated cells
8
stem cell
Organ
400
liver
72
pancreas
66
artery
66
blood vessel
66
heart
vasculature
61
blood
61
bodily fluid
59
epithelium
19
kidney
8
embryo
1
mammary gland
Project
568
AMP
9
T1D
2
community
Genome assembly (visualization)
448
hg19
382
GRCh38
Lab
528
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
72
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
assay_title!
WGBS
month_released!
November, 2019
organ_slims!
vasculature
BIOSAMPLE
ASSAY
568 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
Hi-C
Capture-C
DNase-seq
CRISPR genome editing followed by sgRNA sequencing
MPRA
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
2
1
GM12878
60
1
EndoC_BH1
30
18
6
2
1
Panc1
13
1
1
H1-hESC
8
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