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Schema
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1810
ChIP-seq
1527
total RNA-seq
530
ATAC-seq
369
single cell RNA-seq
212
DNase-seq
87
RNA microarray
77
snATAC-seq
75
WGBS
57
pCHi-C
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
FAIRE-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
1918
Transcription
1810
DNA binding
822
DNA accessibility
97
DNA methylation
34
3D chromatin structure
1
DNA sequencing
Target of assay
1015
histone modification
1014
histone
512
narrow histone mark
501
broad histone mark
463
transcription factor
337
control
104
RNA binding protein
89
recombinant protein
26
chromatin remodeller
5
nucleotide modification
5
other context
5
other post-translational modification
Date released
715
February, 2021
410
August, 2017
405
November, 2017
399
May, 2021
341
May, 2020
319
August, 2021
314
October, 2019
218
June, 2019
205
February, 2023
200
May, 2022
168
July, 2018
120
May, 2019
108
July, 2019
94
December, 2017
80
April, 2019
76
October, 2018
73
September, 2018
72
November, 2018
64
March, 2020
61
November, 2019
59
September, 2020
49
April, 2018
47
September, 2023
40
May, 2024
39
February, 2018
25
February, 2020
23
October, 2017
19
April, 2020
16
November, 2020
15
May, 2023
12
January, 2019
11
September, 2017
10
December, 2019
8
December, 2018
8
January, 2021
7
August, 2020
7
January, 2018
5
March, 2019
5
March, 2023
4
August, 2018
4
October, 2022
3
June, 2018
1
August, 2022
1
July, 2025
Available data
3329
bam
3111
bigWig
1760
bed narrowPeak
1601
tsv
1295
fastq
985
bigBed narrowPeak
398
tagAlign
321
bed broadPeak
284
bigBed broadPeak
274
bed bed3+
161
txt
153
zippedFastqFolder
64
xls
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
4844
Homo sapiens
Biosample type
2776
tissue
1080
primary cell
600
cell line
394
in vitro differentiated cells
10
stem cell
Organ
944
pancreas
790
liver
684
connective tissue
524
epithelium
491
adipose tissue
393
heart
354
kidney
286
brain
236
vasculature
230
blood vessel
159
bone element
141
artery
122
limb
97
musculature of body
69
blood
bodily fluid
61
eye
43
nerve
37
embryo
25
spleen
22
vein
20
lung
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
4229
AMP
324
HPAP
236
T1D
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
3155
hg19
3073
GRCh38
5
hg18
Lab
3848
AMP-T2D consortium
335
Kyle Gaulton, UCSD
324
Klaus Kaestner, Upenn
142
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
38
Bing Ren, UCSD
19
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
7
Struan F.A. Grant, CHOP
4
Anna Gloyn, Oxford
2
Mark McCarthy, Oxford
2
Stephen Parker, UMich
1
ITG
1
Maike Sander, UCSD
Audit category:
353
inconsistent ontology term
42
audit script error
27
inconsistent control
1
inconsistent replicate
Audit category:
89
missing controlled_by
Audit category:
56
inconsistent control read length
9
inconsistent control run_type
4
inconsistent assembly
files.platform.term_name!
Illumina Genome Analyzer I
organ_slims!
bodily fluid
BIOSAMPLE
ASSAY
4860 results
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CRISPR RNA-seq
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cell line
EndoC-BH1
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stem cell
SB Ad3.1
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