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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
461
ChIP-seq
27
total RNA-seq
5
STARR-seq
5
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
HiChIP
1
ATAC-seq
1
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
461
DNA binding
29
Transcription
3
3D chromatin structure
2
DNA accessibility
1
DNA methylation
1
DNA sequencing
Target of assay
355
transcription factor
89
recombinant protein
75
control
64
RNA binding protein
30
chromatin remodeller
26
histone
26
histone modification
13
broad histone mark
13
narrow histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
February, 2021
61
November, 2018
42
August, 2021
28
December, 2018
28
October, 2019
23
January, 2019
6
March, 2020
5
February, 2023
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
462
bam
427
fastq
415
bigWig
375
bed narrowPeak
354
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
32
tsv
12
tagAlign
3
tar
2
bed bed3+
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
1
vcf
Organism
510
Homo sapiens
Biosample type
2177
tissue
640
primary cell
513
cell line
344
in vitro differentiated cells
10
stem cell
Organ
399
liver
66
pancreas
61
blood
61
bodily fluid
epithelium
19
kidney
8
embryo
1
mammary gland
Project
506
AMP
5
T1D
2
community
Genome assembly (visualization)
411
hg19
349
GRCh38
Lab
472
AMP-T2D consortium
34
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
16
inconsistent ontology term
1
inconsistent control
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
organ_slims!
epithelium
month_released!
February, 2021
BIOSAMPLE
ASSAY
513 results
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Clear Filters
ChIP-seq
total RNA-seq
STARR-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
HiChIP
ATAC-seq
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
2
1
2
1
1
GM12878
60
1
Panc1
13
1
1
H1-hESC
8
EndoC_BH1
3
2
RCC 7860 HIF1a re-expression
4
1
RCC 7860 vector
3
1
1
RCC 7860 HIF2a over-expression
3
1
EndoC-BH1
1
1
HEK293T
2
early embryonic cell
2
MCF-7
1
MIN6
1
RCC 7860 VHL
1
Synthesized DNA
1
fibroblast cell line
1
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