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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
453
ChIP-seq
105
total RNA-seq
13
ATAC-seq
6
MeRIP-seq
4
Hi-C
4
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
STARR-seq
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
453
DNA binding
107
Transcription
14
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
349
transcription factor
82
recombinant protein
76
control
65
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
303
November, 2017
88
February, 2021
61
November, 2018
42
August, 2021
28
December, 2018
23
January, 2019
May, 2021
16
November, 2019
15
October, 2019
9
March, 2020
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
562
bam
505
bigWig
427
fastq
395
bed narrowPeak
354
bigBed narrowPeak
109
tsv
59
bed broadPeak
59
bigBed broadPeak
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
598
Homo sapiens
Biosample type
2200
tissue
830
primary cell
602
cell line
228
in vitro differentiated cells
10
stem cell
Organ
389
liver
71
pancreas
61
blood
61
bodily fluid
60
artery
60
blood vessel
60
heart
60
vasculature
58
epithelium
kidney
8
embryo
1
mammary gland
Project
592
AMP
8
T1D
2
community
Genome assembly (visualization)
496
hg19
433
GRCh38
Lab
557
AMP-T2D consortium
32
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
56
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
15
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
files.file_type!
tagAlign
organ_slims!
kidney
month_released!
May, 2021
BIOSAMPLE
ASSAY
602 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
Hi-C
pCHi-C
CRISPR genome editing followed by DNA sequencing
STARR-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
366
14
1
2
2
2
1
1
EndoC_BH1
14
29
3
6
1
3
2
2
1
GM12878
60
1
smooth muscle cell of the coronary artery
52
8
Panc1
13
1
1
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