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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
187
ChIP-seq
116
ATAC-seq
115
single cell RNA-seq
115
total RNA-seq
56
snATAC-seq
17
pCHi-C
13
DNase-seq
4
RRBS
3
Hi-C
2
small RNA-seq
1
DNAme array
Assay category
232
Transcription
187
DNA binding
185
DNA accessibility
5
DNA methylation
3
3D chromatin structure
Target of assay
171
histone
171
histone modification
91
broad histone mark
80
narrow histone mark
14
control
5
RNA binding protein
5
transcription factor
1
chromatin remodeller
Date released
206
May, 2021
147
May, 2020
54
May, 2022
February, 2023
42
February, 2021
40
September, 2020
35
June, 2019
30
August, 2017
18
July, 2019
15
July, 2018
12
September, 2018
10
April, 2018
8
January, 2021
6
November, 2020
3
November, 2017
June, 2018
1
March, 2023
1
November, 2018
1
October, 2019
Available data
380
bigWig
365
bam
189
bed narrowPeak
140
tsv
130
fastq
96
tagAlign
73
zippedFastqFolder
48
bigBed narrowPeak
27
bed broadPeak
27
bigBed broadPeak
16
bed bed3+
4
bed bedMethyl
4
bigBed bedMethyl
2
csv
2
hdf5
1
bed bed3
1
hic
Organism
629
Homo sapiens
Biosample type
2681
tissue
629
primary cell
577
cell line
354
in vitro differentiated cells
10
stem cell
Organ
epithelium
308
pancreas
39
connective tissue
37
vasculature
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
bone element
1
bone marrow
1
pericardium
Project
291
AMP
204
T1D
133
HPAP
1
ITG
Genome assembly (visualization)
399
hg19
309
GRCh38
Lab
256
AMP-T2D consortium
239
Kyle Gaulton, UCSD
133
Klaus Kaestner, Upenn
1
ITG
Audit category:
37
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
audit.ERROR.category!
inconsistent replicate
month_released!
February, 2023
June, 2018
organ_slims!
epithelium
BIOSAMPLE
ASSAY
629 results
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ChIP-seq
ATAC-seq
single cell RNA-seq
total RNA-seq
snATAC-seq
pCHi-C
DNase-seq
RRBS
Hi-C
small RNA-seq
DNAme array
primary cell
monocyte
85
15
54
1
1
Langerhans cell
85
48
CD8-positive, alpha-beta T cell
33
2
4
1
naive thymus-derived CD4-positive, alpha-beta T cell
2
22
1
1
pancreatic endocrine cell
23
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