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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
419
ChIP-seq
total RNA-seq
20
ATAC-seq
9
pCHi-C
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 RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
CRISPRi RNA-seq
1
GRO-seq
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
419
DNA binding
22
DNA accessibility
4
3D chromatin structure
4
Transcription
1
DNA sequencing
Target of assay
299
transcription factor
78
control
73
recombinant protein
44
RNA binding protein
40
histone
40
histone modification
23
chromatin remodeller
20
broad histone mark
20
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
November, 2018
28
December, 2018
27
August, 2021
26
October, 2019
February, 2021
18
January, 2019
17
May, 2021
15
November, 2019
11
March, 2020
6
February, 2023
6
November, 2020
4
March, 2023
3
December, 2017
2
January, 2018
1
May, 2020
1
October, 2022
Available data
403
bam
365
fastq
359
bigWig
336
bed narrowPeak
299
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
12
tagAlign
10
tsv
5
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
hdf5
1
txt
1
vcf
Organism
474
Homo sapiens
Biosample type
1619
tissue
793
primary cell
470
cell line
254
in vitro differentiated cells
10
stem cell
Organ
339
liver
59
pancreas
46
blood
46
bodily fluid
45
epithelium
15
kidney
1
connective tissue
1
mammary gland
Project
469
AMP
7
T1D
4
community
Genome assembly (visualization)
360
hg19
292
GRCh38
1
hg18
Lab
440
AMP-T2D consortium
25
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
4
Anna Gloyn, Oxford
Audit category:
57
inconsistent ontology term
1
inconsistent control
Audit category:
10
missing controlled_by
Audit category:
23
inconsistent control read length
4
inconsistent control run_type
1
inconsistent assembly
assay_title!
total RNA-seq
month_released!
February, 2021
November, 2018
BIOSAMPLE
ASSAY
480 results
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Clear Filters
ChIP-seq
ATAC-seq
pCHi-C
MeRIP-seq
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
CRISPR RNA-seq
CRISPR genome editing followed by sgRNA sequencing
CRISPRi RNA-seq
GRO-seq
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
333
1
2
2
1
EndoC_BH1
15
19
6
1
3
2
2
1
GM12878
45
1
Panc1
13
1
1
RCC 7860 HIF1a re-expression
4
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stem cell
hESC
3
1
SB Ad3.1
1
1
mesenchymal stem cell
1
mesendoderm
1
neural progenitor cell (neural stem cell)
1
+ See 1 more…
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