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Protocols

TIS Miner specifications

Information


Unique identifier OMICS_09986
Name TIS Miner
Interface Web user interface
Restrictions to use None
Input data Sequence
Input format FASTA, raw
Computer skills Basic
Stability Stable
Maintained Yes

Publication for TIS Miner

TIS Miner citations

 (5)
library_books

Dystrophin Dp116: A Yet to Be Investigated Product of the Duchenne Muscular Dystrophy Gene

2017
Genes
PMCID: 5664101
PMID: 28974057
DOI: 10.3390/genes8100251

[…] ). Dp116 has the sequence TGAAAATGT, whereas Dp118 has the sequence TTGCTATGC (underlined: matched sequence), indicating that Dp118 had a greater similarity to the Kozak consensus sequence. Using DNA TIS miner [], which can recognize translation initiation sites in DNA sequences [], the scores for Dp118 and Dp116 were found to be 0.094 and 0.005, respectively. Because higher scores indicate a grea […]

library_books

Transductive learning as an alternative to translation initiation site identification

2017
BMC Bioinformatics
PMCID: 5290616
PMID: 28152994
DOI: 10.1186/s12859-017-1502-6

[…] 6 molecules), Homo sapiens (113 molecules), Drosophila melanogaster (106 molecules) and Arabidopsis thaliana (15 molecules).The considered programs in this evaluation are the following: TISHunter [], TIS Miner [], NetStart [] and TransduTIS, developed for this work, which implements the inductive (TransduTIS-I) and transductive (TransduTIS-T) approaches.We developed a python script8 to automate th […]

call_split

A Central Nervous System Dependent Intron Embedded Gene Encodes a Novel Murine Fyn Binding Protein

2016
PLoS One
PMCID: 4762778
PMID: 26901312
DOI: 10.1371/journal.pone.0149612
call_split See protocol

[…] t [] from the NCBI database. The Artemis [] software available from the Wellcome Trust Sanger Institute website was used to visualize and annotate sequences. Regulatory elements were analyzed via the TIS Miner servers. […]

library_books

Disrupted auto regulation of the spliceosomal gene SNRPB causes cerebro–costo–mandibular syndrome

2014
Nat Commun
PMCID: 4109005
PMID: 25047197
DOI: 10.1038/ncomms5483

[…] n the 1,000 genomes or NHLBI exome data sets, and manually reviewed remaining candidates. For family D a de novo 5′ UTR variant was seen that introduced a potential out-of-frame TIS in SNRPB. We used TIS miner ( http://dnafsminer.bic.nus.edu.sg/Tis.html) to predict the effect of this variant. […]

library_books

Improvement in the prediction of the translation initiation site through balancing methods, inclusion of acquired knowledge and addition of features to sequences of mRNA

2011
BMC Genomics
PMCID: 3287592
PMID: 22369295
DOI: 10.1186/1471-2164-12-S4-S9

[…] The methodology used in this study is compared with the First-ATG [], NetStart [] (available at http://www.cbs.dtu.dk/services/NetStart/), TIS Miner [] (available at http://dnafsminer.bic.nus.edu.sg/Tis.html), and ATGpr (available at http://flj.hinv.jp/ATGpr/atgpr/index.html) programs.The First-ATG method, proposed by Kozak (1984), propo […]

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TIS Miner institution(s)
Institute for Infocomm Research, 21 Heng Mui Keng Terrace, Singapore, Singapore

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