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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
413
ChIP-seq
61
total RNA-seq
21
ATAC-seq
6
MeRIP-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
413
DNA binding
63
Transcription
23
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
357
transcription factor
89
recombinant protein
81
control
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
281
November, 2017
43
August, 2021
40
November, 2018
30
February, 2021
30
October, 2019
26
December, 2018
21
May, 2021
17
January, 2019
15
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
452
bam
403
bigWig
364
fastq
329
bed narrowPeak
294
bigBed narrowPeak
67
tsv
55
bed broadPeak
55
bigBed broadPeak
14
tagAlign
3
bed bed3+
2
bedpe bed3+
2
hic
2
tar
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
527
Homo sapiens
Biosample type
2668
tissue
1074
primary cell
531
cell line
383
in vitro differentiated cells
10
stem cell
Organ
347
liver
91
pancreas
78
epithelium
artery
66
blood vessel
66
heart
66
vasculature
51
blood
51
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
520
AMP
9
T1D
2
community
Genome assembly (visualization)
404
hg19
342
GRCh38
Lab
485
AMP-T2D consortium
33
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
91
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
11
missing controlled_by
Audit category:
20
inconsistent control read length
5
inconsistent control run_type
1
inconsistent assembly
assay_title!
snDrop-seq
files.file_type!
csv
organ_slims!
artery
target.investigated_as!
RNA binding protein
BIOSAMPLE
ASSAY
531 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-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
324
14
1
2
2
2
1
1
EndoC_BH1
14
33
19
6
1
3
2
2
1
GM12878
50
1
Panc1
13
1
1
H1-hESC
8
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