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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
456
ChIP-seq
109
total RNA-seq
13
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
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
456
DNA binding
111
Transcription
15
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
336
transcription factor
89
recombinant protein
83
control
63
RNA binding protein
37
histone
37
histone modification
28
chromatin remodeller
19
broad histone mark
18
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
96
February, 2021
61
November, 2018
44
August, 2021
30
October, 2019
December, 2018
23
January, 2019
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
550
bam
490
bigWig
399
fastq
376
bed narrowPeak
328
bigBed narrowPeak
115
tsv
59
bed broadPeak
59
bigBed broadPeak
20
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
609
Homo sapiens
Biosample type
2642
tissue
882
primary cell
613
cell line
262
in vitro differentiated cells
10
stem cell
Organ
400
liver
71
pancreas
66
artery
66
blood vessel
66
heart
66
vasculature
58
epithelium
34
blood
34
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
603
AMP
8
T1D
2
community
Genome assembly (visualization)
498
hg19
432
GRCh38
Lab
566
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:
71
inconsistent ontology term
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!
RNA microarray
month_released!
December, 2018
May, 2021
organ_slims!
urinary bladder
BIOSAMPLE
ASSAY
613 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
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
378
14
1
2
2
1
1
1
smooth muscle cell of the coronary artery
6
52
8
EndoC_BH1
14
29
3
6
3
1
2
2
1
GM12878
33
1
Panc1
13
1
1
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