Theoretical and Applied Genetics
February 2013, DOI: 10.1007/s00122-013-2052-6
Structure, transcription and post-transcriptional regulation of the bread wheat orthologs of the barley cleistogamy gene Cly1
Ning et al.,
1. Plant Genome Research Unit, National Institute of Agrobiological Sciences (NIAS), 2-1-2 Kannondai, Tsukuba, Ibaraki, 305-8602, Japan
2. Graduate school of Horticulture, Chiba University, 648 Matsudo, Matsudo, Chiba, 271-8510, Japan
... cgi). Softberry Bacterial Genome Explorer (http://www.linux1.softberry.com/berry.
phtml) software was then used to allow the simultaneous comparison of distinct
annotated genomes. Phylogenetic analysis. Protein sequence ...
Nature
425, 209-215 (11 September 2003) | doi:10.1038/425209a
Bioinformatics: Programmed for success
Steve Buckingham
... Three-way synteny from Softberry. Fast searching is also a
feature of Genome Explorer
from Softberry in Mount Kisco, New York, which uses the FMAP algorithm. ...
European Journal of Human Genetics
12 Nov 2008, doi: 10.1038/ejhg.2008.21
Noncanonical and canonical splice sites: a novel mutation at the rare noncanonical splice-donor cut
site (IVS4+1A>G) of SEDL causes variable splicing isoforms in X-linked spondyloepiphyseal dysplasia tarda
Feng Xiong et al.,
1 Children's Hospital of Chongqing Medical University, Central District, Chongqing, PR China
2 Bio-X Center, Shanghai Jiao Tong University, Shanghai, China
... 9 Exons 3, 4, 5 and 6 (containing the ... canonical and noncanonical mammalian splice
sites (SpliceDB) was used ... and SPL platforms (http://www.softberry.com/) were ...
JOURNAL OF COMPUTATIONAL BIOLOGY
Volume 12, Number 6, 2005 Pp. 894-906
Finding short DNA motifs using permuted markov models
X Zhao, H Huang, TP Speed
... The data are human donor sequences from SpliceDB[9], a recently developed database
of known mammalian splice site sequences (http://www.softberry.com/spldb ...
Current Opinion in Structural Biology
2004, 14:273-282
The evolving roles of alternative splicing
Liana F Lareau1, Richard E Green1, Rajiv S Bhatnagar2,3 and Steven E Brenner1,2_
Departments of 1Molecular and Cell Biology, and 2Plant and Microbial
Biology, University of California, Berkeley, California 94720, USA
3Department of Dermatology, University of California, San Francisco,
California 94143, USA
... [79] SpliceDBhttp://www.softberry.com/berry.phtml?topic?SpliceDBDatabase and
composition statistics for mammalian splice sites inferred from ESTs [80] ...
Yearbook of Medical Informatics.
Review Paper. 2004 121-136
Curated databases and their role in clinical bioinformatics
CC Englbrecht, M Han, MT Mader, A Osanger KFX Mayer
MIPS, Institute for Bioinformatics
...SpliceDB
http://www.softberry.com/spldb/SpliceDB.html
Canonical and non-canonical mammalian splice sites [122]
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Nucleic Acids Research,
2001, Vol. 29, No. 1 255-259
SpliceDB: database of canonical and non-canonical mammalian splice sites
M. Burset, I. A. Seledtsov1 and V. V. Solovyev*
The Sanger Centre, Hinxton, Cambridge CB10 1SA, UK and 1Softberry Inc., 108 Corporate Park Drive, Suite 120, White Plains, NY 10604, USA