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Schema
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1861
ChIP-seq
1328
total RNA-seq
531
ATAC-seq
369
single cell RNA-seq
211
DNase-seq
87
RNA microarray
85
snATAC-seq
74
WGBS
57
pCHi-C
34
Hi-C
21
RRBS
18
small RNA-seq
10
MeRIP-seq
5
FAIRE-seq
5
GRO-seq
5
STARR-seq
4
Capture-C
3
CRISPR genome editing followed by DNA sequencing
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
1861
DNA binding
1719
Transcription
832
DNA accessibility
96
DNA methylation
34
3D chromatin structure
1
DNA sequencing
Target of assay
1017
histone modification
1016
histone
514
narrow histone mark
504
transcription factor
501
broad histone mark
343
control
113
RNA binding protein
89
recombinant protein
36
chromatin remodeller
5
nucleotide modification
5
other context
5
other post-translational modification
Date released
715
February, 2021
404
November, 2017
399
May, 2021
341
May, 2020
319
August, 2021
318
August, 2017
314
October, 2019
218
June, 2019
200
May, 2022
168
July, 2018
129
February, 2023
120
May, 2019
108
July, 2019
94
December, 2017
83
November, 2018
80
April, 2019
74
October, 2018
64
March, 2020
61
November, 2019
59
September, 2020
49
April, 2018
47
September, 2018
47
September, 2023
40
May, 2024
34
December, 2018
33
February, 2018
30
January, 2019
25
February, 2020
23
October, 2017
19
April, 2020
16
January, 2021
16
November, 2020
15
May, 2023
11
September, 2017
10
December, 2019
8
January, 2018
7
August, 2020
5
March, 2019
5
March, 2023
4
August, 2018
4
October, 2022
3
June, 2018
1
August, 2022
1
July, 2025
Available data
3257
bam
3034
bigWig
1809
bed narrowPeak
1478
tsv
1141
fastq
1034
bigBed narrowPeak
398
tagAlign
321
bed broadPeak
284
bigBed broadPeak
274
bed bed3+
161
txt
112
zippedFastqFolder
64
xls
35
bed bedMethyl
35
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
4705
Homo sapiens
Biosample type
2685
tissue
983
primary cell
655
cell line
388
in vitro differentiated cells
10
stem cell
Organ
791
pancreas
788
liver
681
connective tissue
488
adipose tissue
412
epithelium
393
heart
354
kidney
286
brain
236
vasculature
230
blood vessel
159
bone element
141
artery
122
limb
97
musculature of body
65
blood
65
bodily fluid
61
eye
43
nerve
36
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
4158
AMP
248
HPAP
244
T1D
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
3079
hg19
2994
GRCh38
5
hg18
Lab
3777
AMP-T2D consortium
343
Kyle Gaulton, UCSD
248
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
28
inconsistent control
1
inconsistent replicate
Audit category:
86
missing controlled_by
Audit category:
56
inconsistent control read length
9
inconsistent control run_type
4
inconsistent assembly
files.file_type!!
bigBed bedMethyl
files.read_length!
101
BIOSAMPLE
ASSAY
4721 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
Hi-C
RRBS
small RNA-seq
MeRIP-seq
FAIRE-seq
GRO-seq
STARR-seq
Capture-C
CRISPR genome editing followed by DNA sequencing
snDrop-seq
HiChIP
...and 8 more
tissue
adipose tissue
2
382