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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
468
ChIP-seq
35
total RNA-seq
20
ATAC-seq
6
MeRIP-seq
5
STARR-seq
5
pCHi-C
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
468
DNA binding
37
Transcription
22
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
348
transcription factor
89
recombinant protein
80
control
62
RNA binding protein
38
histone
38
histone modification
22
chromatin remodeller
19
broad histone mark
19
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
311
November, 2017
February, 2021
57
November, 2018
44
August, 2021
30
October, 2019
28
December, 2018
23
January, 2019
21
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
479
bam
431
bigWig
419
fastq
382
bed narrowPeak
347
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
41
tsv
12
tagAlign
3
tar
2
bed bed3+
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
554
Homo sapiens
Biosample type
2231
tissue
1039
primary cell
558
cell line
368
in vitro differentiated cells
10
stem cell
Organ
391
liver
66
pancreas
61
blood
61
bodily fluid
53
epithelium
19
kidney
8
embryo
1
mammary gland
Project
547
AMP
9
T1D
2
community
Genome assembly (visualization)
429
hg19
366
GRCh38
Lab
511
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:
66
inconsistent ontology term
1
inconsistent control
Audit category:
7
missing controlled_by
Audit category:
26
inconsistent control read length
inconsistent control run_type
1
inconsistent assembly
organ_slims!
large intestine
audit.WARNING.category!
inconsistent control run_type
month_released!
February, 2021
BIOSAMPLE
ASSAY
558 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
STARR-seq
pCHi-C
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
370
14
2
1
2
1
1
GM12878
60
1
EndoC_BH1
15
7
19
6
1
3
2
2
1
Panc1
13
1
1
H1-hESC
8
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