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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
477
ChIP-seq
61
total RNA-seq
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
477
DNA binding
63
Transcription
4
3D chromatin structure
2
DNA accessibility
1
DNA methylation
1
DNA sequencing
Target of assay
356
transcription factor
89
recombinant protein
81
control
65
RNA binding protein
38
histone
38
histone modification
29
chromatin remodeller
19
broad histone mark
19
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
61
November, 2018
44
August, 2021
30
October, 2019
29
February, 2021
27
December, 2018
23
January, 2019
15
November, 2019
9
March, 2020
6
February, 2023
6
November, 2020
5
May, 2021
2
March, 2023
1
May, 2020
1
October, 2022
Available data
513
bam
462
bigWig
426
fastq
389
bed narrowPeak
354
bigBed narrowPeak
66
tsv
59
bed broadPeak
59
bigBed broadPeak
14
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
570
Homo sapiens
Biosample type
2394
tissue
851
primary cell
574
cell line
352
in vitro differentiated cells
10
stem cell
Organ
400
liver
73
pancreas
60
epithelium
59
blood
59
bodily fluid
58
artery
58
blood vessel
58
heart
vasculature
19
kidney
8
embryo
1
mammary gland
Project
563
AMP
9
T1D
2
community
Genome assembly (visualization)
460
hg19
397
GRCh38
Lab
527
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:
73
inconsistent ontology term
inconsistent control
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
assay_title!
ATAC-seq
audit.ERROR.category!
inconsistent control
organ_slims!
pituitary gland
vasculature
BIOSAMPLE
ASSAY
574 results
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Clear Filters
ChIP-seq
total RNA-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
378
14
2
2
2
1
1
EndoC_BH1
15
33
6
1
3
2
2
1
GM12878
59
Panc1
13
1
1
H1-hESC
8
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