LASAGNA-Search 2.0: Searching for transcription factor binding sites (TFBSs)
Search for TFBSs
Useful links
Contact us
Downloads
Citations
TF Model Input
Matrix-Derived Models:
Enter matrix
Use TRANSFAC Matrices
Use JASPAR CORE Matrices
Use UniPROBE Matrices
LASAGNA-Aligned Models:
Enter known TFBSs
Use TRANSFAC TFBSs
Use ORegAnno TFBSs
Use PAZAR TFBSs
Search
Show
Remove All
TF Name:
Load Sample
Expand Left
Trim Left
Trim Right
Expand Right
Edit TFBSs
Proceed to Search
Promoter Sequence Input
Promoter sequences in FASTA:
Load Sample
Retrieve promoter sequence:
Exact match?
Search
Sample
random promoters in
Choose Species
Homo sapiens
Mus musculus
Rattus norvegicus
Drosophila melanogaster
Saccharomyces cerevisiae
Caenorhabditis elegans
Caenorhabditis briggsae
Gallus gallus
Canis lupus familiaris
Ovis aries
Bos taurus
Sus scrofa
Danio rerio
Felis catus
Xenopus (Silurana) tropicalis
Go
Show
Remove All
More than one gene found:
Result Filtering
Cutoff p-value:
Report top-
scoring sites per promoter for each TF
Restore Defaults
Start Searching
Check/uncheck to add/remove TF models
Species:
ALL
Collection
Species
Name
DEL
Search
Check/uncheck to add/remove TF models
Collection
Species
Name
Check/uncheck to add/remove promoters
Region (relative to TSS):
-450 to +50
-500 to 0
-200 to +50
-950 to +50
-1000 to 0
-2000 to 0
-5000 to 0
-1000 to +200
-2000 to +400
-5000 to +1000
Exact match?
Search
Filter by species:
Species
Chr
Strand
Symbol
mRNA
Species
Chr
Strand
Symbol
mRNA
Range
DEL
Check/uncheck to add/remove promoters
Region (relative to TSS):
-450 to +50
-500 to 0
-200 to +50
-950 to +50
-1000 to 0
-2000 to 0
-5000 to 0
-1000 to +200
-2000 to +400
-5000 to +1000
Species
Chr
Strand
Symbol
mRNA
Sources of TFBSs
TRANSFAC
ORegAnno: Open Regulatory Annotation
RegulonDB
The JASPAR database
The PAZAR database
Gene ID Conversion
DAVID Bioinformatics Resources
chihlee0214@gmail.com
chunhsi.huang@uconn.edu
Python Scripts for Offline Scanning
Click to Download
Python implementation of the LASAGNA algorithm
Click to Download
LASAGNA-Search: an integrated web tool for transcription factor binding site search and visualization
Chih Lee, and Chun-Hsi Huang
BioTechniques, Vol. 54, No. 3, March 2013, pp. 141–153
doi 10.2144/000113999
[
BibTeX
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