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Schema
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1451
total RNA-seq
546
ChIP-seq
323
single cell RNA-seq
241
ATAC-seq
87
RNA microarray
75
WGBS
57
pCHi-C
48
snATAC-seq
34
Hi-C
21
RRBS
18
small RNA-seq
10
MeRIP-seq
5
GRO-seq
5
STARR-seq
4
Capture-C
3
CRISPR genome editing followed by DNA sequencing
3
DNase-seq
3
snDrop-seq
2
HiChIP
1
CRISPR RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
CRISPRi RNA-seq
1
DNAme array
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
1796
Transcription
546
DNA binding
292
DNA accessibility
97
DNA methylation
34
3D chromatin structure
1
DNA sequencing
Target of assay
343
control
166
histone
166
histone modification
85
narrow histone mark
81
broad histone mark
45
transcription factor
9
RNA binding protein
5
nucleotide modification
1
recombinant protein
Date released
664
February, 2021
314
May, 2020
269
August, 2017
266
May, 2021
213
August, 2021
168
July, 2018
125
October, 2019
101
July, 2019
96
May, 2022
93
November, 2017
64
February, 2023
61
March, 2020
58
September, 2020
49
April, 2018
47
September, 2023
31
October, 2018
27
September, 2018
25
February, 2020
24
November, 2019
23
February, 2018
23
May, 2019
22
December, 2017
19
April, 2020
16
January, 2021
15
April, 2019
15
May, 2023
15
November, 2018
14
November, 2020
11
October, 2017
10
December, 2019
9
January, 2019
8
January, 2018
8
June, 2019
7
August, 2020
6
September, 2017
5
December, 2018
5
March, 2019
5
March, 2023
4
August, 2018
4
October, 2022
3
June, 2018
1
August, 2022
1
July, 2025
Available data
3392
bam
3169
bigWig
bed narrowPeak
1601
tsv
1247
fastq
1042
bigBed narrowPeak
398
tagAlign
322
bed broadPeak
285
bigBed broadPeak
274
bed bed3+
161
txt
64
xls
46
zippedFastqFolder
36
bed bedMethyl
36
bigBed bedMethyl
23
bedpe bed3+
23
hic
12
bed bed3
8
csv
7
bed bedgraph
5
hdf5
4
tar
3
cool
2
ibed
1
bedpe
1
tagAlign bed3+
1
tbi
1
vcf
Organism
2934
Homo sapiens
Biosample type
1794
tissue
622
primary cell
262
in vitro differentiated cells
258
cell line
8
stem cell
Organ
683
pancreas
609
connective tissue
478
adipose tissue
350
liver
277
epithelium
202
heart
171
kidney
151
bone element
103
vasculature
101
blood vessel
83
brain
67
artery
37
musculature of body
30
limb
28
eye
23
embryo
20
lung
16
nerve
15
blood
15
bodily fluid
11
spleen
9
vein
8
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2564
AMP
156
T1D
153
HPAP
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
1615
hg19
1496
GRCh38
5
hg18
Lab
2369
AMP-T2D consortium
211
Kyle Gaulton, UCSD
153
Klaus Kaestner, Upenn
78
Katalin Susztak, Upenn
47
KPMP
24
Bing Ren, UCSD
20
Karen Mohlke, UNC
19
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
4
Anna Gloyn, Oxford
3
Struan F.A. Grant, CHOP
2
Mark McCarthy, Oxford
2
Stephen Parker, UMich
1
ITG
1
Maike Sander, UCSD
Audit category:
290
inconsistent ontology term
26
audit script error
Audit category:
41
missing controlled_by
Audit category:
2
inconsistent control read length
1
inconsistent assembly
files.file_type!
bed narrowPeak
files.platform.term_name!
Illumina NovaSeq 6000
BIOSAMPLE
ASSAY
2944 results
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Clear Filters
total RNA-seq
ChIP-seq
single cell RNA-seq
ATAC-seq
RNA microarray
WGBS
pCHi-C
snATAC-seq
Hi-C
RRBS
small RNA-seq
MeRIP-seq
GRO-seq
STARR-seq
Capture-C
CRISPR genome editing followed by DNA sequencing
DNase-seq
snDrop-seq
HiChIP
CRISPR RNA-seq
...and 7 more
tissue
islet of Langerhans
292
51
6
31
4
7
3
1
4
adipose tissue
382
1
2
3
1
liver
167
63
1
3
1
1
1
1
kidney
49
7
64
11