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Schema
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
256
total RNA-seq
152
single cell RNA-seq
137
ATAC-seq
106
ChIP-seq
82
snATAC-seq
47
WGBS
17
pCHi-C
8
Hi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
HiChIP
1
CRISPR RNA-seq
1
CRISPRi RNA-seq
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
412
Transcription
219
DNA accessibility
106
DNA binding
47
DNA methylation
8
3D chromatin structure
1
DNA sequencing
Target of assay
91
histone
91
histone modification
46
narrow histone mark
45
broad histone mark
11
transcription factor
4
control
1
RNA binding protein
Date released
164
August, 2021
153
May, 2021
134
May, 2022
99
February, 2023
59
September, 2020
47
September, 2023
45
February, 2021
45
May, 2020
19
April, 2020
16
January, 2021
14
May, 2023
7
August, 2020
7
March, 2020
5
March, 2023
3
October, 2022
2
March, 2019
1
October, 2017
Available data
211
bigWig
186
bam
170
fastq
166
bed narrowPeak
153
zippedFastqFolder
114
tsv
84
tagAlign
64
xls
57
txt
7
hic
5
bedpe bed3+
3
cool
1
bed broadPeak
1
bedpe
1
vcf
Organism
815
Homo sapiens
Biosample type
529
primary cell
244
tissue
45
cell line
in vitro differentiated cells
2
stem cell
Organ
191
kidney
191
pancreas
156
epithelium
31
liver
19
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
324
HPAP
244
T1D
181
AMP
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
274
GRCh38
208
hg19
Lab
324
Klaus Kaestner, Upenn
236
Kyle Gaulton, UCSD
142
Katalin Susztak, Upenn
47
KPMP
38
Bing Ren, UCSD
19
Xin Sun, UCSD
8
AMP-T2D consortium
4
Anna Gloyn, Oxford
1
ITG
1
Stephen Parker, UMich
Audit category:
30
audit script error
10
inconsistent ontology term
award.rfa!
AMP
biosample_type!
in vitro differentiated cells
BIOSAMPLE
ASSAY
820 results
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total RNA-seq
single cell RNA-seq
ATAC-seq
ChIP-seq
snATAC-seq
WGBS
pCHi-C
Hi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
HiChIP
CRISPR RNA-seq
CRISPRi RNA-seq
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
primary cell
monocyte
53
84
1
Langerhans cell
85
48
pancreatic alpha cell
42
29
31
1
pancreatic beta cell
11
16
16
1
exocrine cell
39
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tissue
kidney
49
58
75
6
1
islet of Langerhans
8
13
2
6
2
lung
9
10
pancreas
4
thymus
1
cell line
HepG2
9
18
1
2
1
EndoC_BH1
2
2
3
2
EndoC-BH1
1
1
HEK293T
2
Synthesized DNA
1
stem cell
SB Ad3.1
1
1
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