ArticleNucleic acids research2006
Transterm--extended search facilities and improved integration with other databases.
Article in Nucleic acids research, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
15 citing papers in PubMed.
- Prediction and validation of novel SigB regulon members in Bacillus subtilis and regulon structure comparison to Bacillales members.BMC microbiology · 2023Article
- RBPmap: a web server for mapping binding sites of RNA-binding proteins.Nucleic acids research · 2014Article
- Article
- Detection of novel 3' untranslated region extensions with 3' expression microarrays.BMC genomics · 2010Article
- Informatic resources for identifying and annotating structural RNA motifs.Molecular biotechnology · 2009Review
- Rfam: updates to the RNA families database.Nucleic acids research · 2009Article
- Transterm: a database to aid the analysis of regulatory sequences in mRNAs.Nucleic acids research · 2009Article
- Bacteriophage 2851 is a prototype phage for dissemination of the Shiga toxin variant gene 2c in Escherichia coli O157:H7.Infection and immunity · 2008Article
- Comparative 3'UTR analysis allows identification of regulatory clusters that drive Eph/ephrin expression in cancer cell lines.PloS one · 2008Article
- Functional analysis of the interplay between translation termination, selenocysteine codon context, and selenocysteine insertion sequence-binding protein 2.The Journal of biological chemistry · 2007Article
- Identification of chromosomal alpha-proteobacterial small RNAs by comparative genome analysis and detection in Sinorhizobium meliloti strain 1021.BMC genomics · 2007Article
- HBVRegDB: annotation, comparison, detection and visualization of regulatory elements in hepatitis B virus sequences.Virology journal · 2007Article
- TISs-ST: a web server to evaluate polymorphic translation initiation sites and their reflections on the secretory targets.BMC bioinformatics · 2007Article
- Ribosomal frameshifting in decoding antizyme mRNAs from yeast and protists to humans: close to 300 cases reveal remarkable diversity despite underlying conservation.Nucleic acids research · 2007Review
- RegRNA: an integrated web server for identifying regulatory RNA motifs and elements.Nucleic acids research · 2006Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Transterm has now been publicly available for >10 years. Major changes have been made since its last description in this database issue in 2002. The current database provides data for key regions of mRNA sequences, a curated database of mRNA motifs and tools to allow users to investigate their own motifs or mRNA sequences. The key mRNA regions database is derived computationally from Genbank. It contains 3' and 5' flanking regions, the initiation and termination signal context and coding sequence for annotated CDS features from Genbank and RefSeq. The database is non-redundant, enabling summary files and statistics to be prepared for each species. Advances include providing extended search facilities, the database may now be searched by BLAST in addition to regular expressions (patterns) allowing users to search for motifs such as known miRNA sequences, and the inclusion of RefSeq data. The database contains >40 motifs or structural patterns important for translational control. In this release, patterns from UTRsite and Rfam are also incorporated with cross-referencing. Users may search their sequence data with Transterm or user-defined patterns. The system is accessible at http://uther.otago.ac.nz/Transterm.html.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.