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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
110
total RNA-seq
97
ChIP-seq
74
ATAC-seq
74
single cell RNA-seq
47
WGBS
6
MeRIP-seq
5
Hi-C
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
Assay category
184
Transcription
97
DNA binding
75
DNA accessibility
47
DNA methylation
5
3D chromatin structure
Target of assay
76
histone
76
histone modification
39
narrow histone mark
37
broad histone mark
23
control
3
nucleotide modification
1
RNA binding protein
1
transcription factor
Date released
80
May, 2022
72
September, 2018
41
August, 2017
38
February, 2023
37
July, 2018
33
April, 2018
32
February, 2021
May, 2021
19
September, 2020
16
November, 2019
15
October, 2019
7
August, 2020
6
November, 2020
5
March, 2020
5
September, 2017
3
August, 2018
3
October, 2022
2
August, 2021
2
October, 2018
1
June, 2018
Available data
258
fastq
252
bam
243
bigWig
138
tsv
88
bed narrowPeak
80
zippedFastqFolder
29
bigBed narrowPeak
4
bedpe bed3+
4
hic
3
cool
2
bed bed3+
1
bed broadPeak
1
bigBed broadPeak
1
hdf5
Organism
416
Homo sapiens
Biosample type
tissue
346
primary cell
71
cell line
Organ
483
epithelium
430
liver
417
pancreas
135
connective tissue
103
vasculature
97
blood vessel
79
heart
69
blood
69
bodily fluid
68
artery
55
kidney
35
embryo
22
vein
brain
14
musculature of body
5
eye
3
adipose tissue
1
mammary gland
1
pericardium
Project
262
AMP
152
HPAP
3
T1D
Genome assembly (visualization)
242
GRCh38
238
hg19
Lab
259
AMP-T2D consortium
152
Klaus Kaestner, Upenn
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
60
inconsistent ontology term
3
audit script error
Audit category:
44
missing controlled_by
Audit category:
4
inconsistent control read length
1
inconsistent assembly
biosample_type!
tissue
organ_slims!
brain
month_released!
May, 2021
BIOSAMPLE
ASSAY
417 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
WGBS
MeRIP-seq
Hi-C
Capture-C
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
primary cell
pancreatic alpha cell
52
13
35
12
31
1
pancreatic beta cell
21
13
23
12
16
1
pancreatic acinar cell
4
8
9
12
1
pancreatic ductal cell
4
13
4
10
pancreatic endocrine cell
23
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cell line
EndoC_BH1
29
14
3
6
1
2
1
Panc1
13
1
1
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