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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
154
total RNA-seq
128
ATAC-seq
117
single cell RNA-seq
91
ChIP-seq
56
snATAC-seq
17
pCHi-C
13
DNase-seq
4
RRBS
3
Hi-C
2
small RNA-seq
1
DNAme array
Assay category
273
Transcription
197
DNA accessibility
91
DNA binding
5
DNA methylation
3
3D chromatin structure
Target of assay
76
histone
76
histone modification
41
broad histone mark
35
narrow histone mark
13
control
5
RNA binding protein
5
transcription factor
1
chromatin remodeller
Date released
147
May, 2020
122
May, 2021
54
May, 2022
51
February, 2023
42
February, 2021
40
September, 2020
35
June, 2019
18
August, 2017
18
July, 2019
15
July, 2018
12
September, 2018
10
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
382
bigWig
367
bam
189
bed narrowPeak
171
fastq
154
tsv
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
586
Homo sapiens
Biosample type
2226
tissue
586
primary cell
546
cell line
333
in vitro differentiated cells
10
stem cell
Organ
epithelium
346
pancreas
39
connective tissue
37
vasculature
kidney
31
blood vessel
22
vein
21
brain
14
musculature of body
13
heart
10
liver
8
blood
8
bodily fluid
5
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
293
AMP
172
HPAP
120
T1D
1
ITG
Genome assembly (visualization)
305
hg19
216
GRCh38
Lab
258
AMP-T2D consortium
172
Klaus Kaestner, Upenn
155
Kyle Gaulton, UCSD
1
ITG
Audit category:
44
inconsistent ontology term
27
audit script error
Audit category:
23
missing controlled_by
Audit category:
1
inconsistent assembly
1
inconsistent control read length
1
inconsistent control run_type
files.file_type!
tagAlign
organ_slims!
kidney
epithelium
BIOSAMPLE
ASSAY
586 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
pCHi-C
DNase-seq
RRBS
Hi-C
small RNA-seq
DNAme array
primary cell
Langerhans cell
85
48
monocyte
54
15
1
1
1
CD8-positive, alpha-beta T cell
4
2
33
1
exocrine cell
39
naive thymus-derived CD4-positive, alpha-beta T cell
1
22
2
1
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