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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
115
ATAC-seq
107
single cell RNA-seq
99
total RNA-seq
66
ChIP-seq
56
snATAC-seq
13
DNase-seq
4
RRBS
3
Hi-C
2
small RNA-seq
1
pCHi-C
Assay category
208
Transcription
184
DNA accessibility
66
DNA binding
4
DNA methylation
3
3D chromatin structure
Target of assay
53
histone
53
histone modification
28
narrow histone mark
25
broad histone mark
11
control
5
RNA binding protein
5
transcription factor
1
chromatin remodeller
Date released
May, 2021
147
May, 2020
54
May, 2022
51
February, 2023
42
February, 2021
40
September, 2020
35
June, 2019
30
August, 2017
18
July, 2019
15
July, 2018
12
September, 2018
April, 2018
8
January, 2021
6
November, 2020
3
November, 2017
2
June, 2018
1
March, 2023
1
November, 2018
1
October, 2019
Available data
208
bam
201
bigWig
162
fastq
92
tsv
73
zippedFastqFolder
62
bed narrowPeak
48
bigBed narrowPeak
27
bed broadPeak
27
bigBed broadPeak
14
bed bed3+
12
tagAlign
4
bed bedMethyl
4
bigBed bedMethyl
2
csv
2
hdf5
1
bed bed3
1
hic
Organism
466
Homo sapiens
Biosample type
2558
tissue
583
cell line
466
primary cell
243
in vitro differentiated cells
10
stem cell
Organ
epithelium
313
pancreas
37
vasculature
36
connective tissue
36
kidney
31
blood vessel
22
vein
21
brain
14
liver
14
musculature of body
13
heart
8
blood
8
bodily fluid
5
eye
2
adipose tissue
2
artery
1
pericardium
Project
240
AMP
172
HPAP
53
T1D
1
ITG
Genome assembly (visualization)
207
hg19
152
GRCh38
Lab
240
AMP-T2D consortium
172
Klaus Kaestner, Upenn
53
Kyle Gaulton, UCSD
1
ITG
Audit category:
43
inconsistent ontology term
27
audit script error
Audit category:
23
missing controlled_by
Audit category:
2
inconsistent assembly
1
inconsistent control read length
1
inconsistent control run_type
month_released!
April, 2018
May, 2021
organ_slims!
bone element
epithelium
BIOSAMPLE
ASSAY
466 results
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ATAC-seq
single cell RNA-seq
total RNA-seq
ChIP-seq
snATAC-seq
DNase-seq
RRBS
Hi-C
small RNA-seq
pCHi-C
primary cell
Langerhans cell
85
48
exocrine cell
39
naive thymus-derived CD4-positive, alpha-beta T cell
22
1
pancreatic endocrine cell
23
CD4-positive, alpha-beta memory T cell
22
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