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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
463
ChIP-seq
27
ATAC-seq
6
MeRIP-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
pCHi-C
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
463
DNA binding
29
DNA accessibility
4
3D chromatin structure
2
Transcription
1
DNA methylation
1
DNA sequencing
Target of assay
356
transcription factor
89
recombinant protein
79
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
61
November, 2018
28
December, 2018
27
August, 2021
26
October, 2019
18
January, 2019
17
May, 2021
15
November, 2019
10
February, 2021
6
February, 2023
6
November, 2020
March, 2020
2
March, 2023
1
January, 2018
1
October, 2022
Available data
577
bam
515
bigWig
427
fastq
403
bed narrowPeak
355
bigBed narrowPeak
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
517
Homo sapiens
Biosample type
1451
tissue
717
primary cell
521
cell line
219
in vitro differentiated cells
6
stem cell
Organ
374
liver
61
blood
61
bodily fluid
56
pancreas
42
epithelium
13
kidney
8
artery
8
blood vessel
8
heart
8
vasculature
Project
513
AMP
6
T1D
2
community
Genome assembly (visualization)
406
hg19
345
GRCh38
Lab
483
AMP-T2D consortium
25
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
51
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!
tsv
tagAlign
month_released!
March, 2020
BIOSAMPLE
ASSAY
521 results
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Clear Filters
ChIP-seq
ATAC-seq
MeRIP-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
pCHi-C
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
366
1
2
2
1
1
1
GM12878
60
1
EndoC_BH1
14
17
6
1
3
2
2
1
Panc1
13
1
1
smooth muscle cell of the coronary artery
8
RCC 7860 HIF1a re-expression
4
RCC 7860 HIF2a over-expression
3
RCC 7860 vector
3
EndoC-BH1
1
1
HEK293T
2
MIN6
1
Synthesized DNA
1
glomerular visceral epithelial cell
1
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