Toggle navigation
Home
About
Project overview
Policies
News
Contact
Data
Experiments
Annotations
Single Cell Embeddings
Statistical Models
Gene Perturbations
Data Standards & QC
Pipelines
Consortia
Publications
Tools
Single Cell Browser
Help
Getting started
Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
458
ChIP-seq
113
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
458
DNA binding
115
Transcription
4
3D chromatin structure
2
DNA accessibility
1
DNA methylation
1
DNA sequencing
Target of assay
346
transcription factor
88
recombinant protein
83
control
59
RNA binding protein
27
histone
27
histone modification
19
chromatin remodeller
14
narrow histone mark
13
broad histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
294
November, 2017
87
February, 2021
56
November, 2018
44
August, 2021
30
October, 2019
28
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
546
bam
493
bigWig
401
fastq
370
bed narrowPeak
331
bigBed narrowPeak
118
tsv
46
bed broadPeak
46
bigBed broadPeak
9
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
603
Homo sapiens
Biosample type
2482
tissue
827
primary cell
607
cell line
335
in vitro differentiated cells
8
stem cell
Organ
374
liver
73
pancreas
60
blood
60
bodily fluid
60
epithelium
58
artery
58
blood vessel
58
heart
58
vasculature
19
kidney
8
embryo
1
mammary gland
Project
596
AMP
9
T1D
2
community
Genome assembly (visualization)
491
hg19
432
GRCh38
Lab
560
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
1
inconsistent control
Audit category:
8
missing controlled_by
Audit category:
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
assay_title!
ATAC-seq
snATAC-seq
audit.WARNING.category!
inconsistent control read length
organ_slims!
spinal cord
BIOSAMPLE
ASSAY
607 results
search-icon
table-tab-icon
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
352
14
2
2
2
1
1
EndoC_BH1
15
33
6
1
3
2
2
1
GM12878
60
smooth muscle cell of the coronary artery
6
52
Panc1
13
1
1
+ See 14 more…
See all biosamples
Download