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University of Manchester Set

Resources, databases and tools maintained by The University of Manchester
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ACELATool Content

http://www.nactem.ac.uk/acela/

Literature > Text Mining and Semantics

The ACELA (ACcElerated Annotation) tool aims to reduce the human effort required to produce a gold standard corpus of named entity (NE) annotations.

This content is being maintained by pthompson.

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tagsaccelerated annotation algorithms annotation tool artificial intelligence automated pattern recognition bibliographic databases named entity annotation natural language processing terminology as topic text mining
setsUniversity of Manchester

AcromineTool Content

http://www.nactem.ac.uk/software/acromine/

Literature > Text Mining and Semantics

Acromine is an tool that finds full forms of acronyms that appear in MEDLINE.

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tagsalgorithms automatic acronym expansion bibliographic databases cluster analysis computational biology dictionaries as topic medline natural language processing polymerase chain reaction reproducibility of results statistical models x-ray computed tomography
setsUniversity of Manchester

Acromine DisambiguatorTool Content

http://www.nactem.ac.uk/software/acromine_disambiguation/

Literature > Text Mining and Semantics

Given a biomedical text, Acromine Disambiguator correctly predicts expanded full forms of acronoyms appearing in the text. As acronyms appearing in biomedical texts are often ambiguous, such a disambiguation process is important to ensure the correct interpretation of the text.

This content is being maintained by pthompson.

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tagsalgorithms automatic acronym disambiguation automatic acronym expansion bibliographic databases cluster analysis computational biology dictionaries as topic medline natural language processing polymerase chain reaction reproducibility of results statistical models x-ray computed tomography
setsUniversity of Manchester

Drosophila DNase I footprint databaseDatabase Content

http://www.flyreg.org/

DNA > Structure and Sequence Feature Detection
Expression > Gene Regulation
Model Organisms > Fly

Database of transcription factor binding sites created from systematic literature curation and genome annotation of DNase I footprints for Drosophila.

This content is being maintained by caseybergman.

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tagsbinding sites dna footprinting drosophila genome annotation transcription factors
setsUniversity of Manchester

ISPIDER CentralTool Content

http://www.ispider.manchester.ac.uk/cgi-bin/ProteomicSearch.pl

Protein > Proteomics

The ISPIDER Central provides a range of services for integrative data analysis in mass spectrometry-based proteomics. It enables users to query multiple proteomic repositories and to add information to proteins retrieved from searches for integrative in silico experiments in proteomics.

NAR Web Server Issue 2008
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tagsmass spectrometry protein databases proteomics systems integration
setsUniversity of Manchester

miRBaseDatabase Content

http://www.mirbase.org/

RNA > Databases

miRBase is a repository for all microRNA sequences and annotation. miRBase has mapped reads from short RNA deep-sequencing experiments to microRNAs in miRBase and developed web interfaces to view these mappings. The user can view all read data associated with a given microRNA annotation, filter reads by experiment and count, and search for microRNAs by tissue- and stage-specific expression.

NAR Database Issue 2011
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tagsmicrornas nucleic acid databases rna sequence analysis systems integration
setsUniversity of Manchester

TavernaTool Content

http://taverna.sourceforge.net/

Computer Related > Web Services
DNA > Annotations
DNA > Gene Prediction
Human Genome > Annotations
Protein > Interactions, Pathways, Enzymes
Sequence Comparison > Similarity Searching

Taverna is a tool for creating and running bioinformatics workflows.

NAR Web Server Issue 2006
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tagscomputational biology database management systems genetic databases genomics online systems sequence analysis software design systems integration
setsUniversity of Manchester

text2genomeTool Content

http://www.text2genome.org

Human Genome > Annotations
Literature > Text Mining and Semantics

text2Genome is a hybrid text mining/genome annotation application that extracts DNA sequences from biomedical articles and automatically maps them to genomic databases.

This content is being maintained by caseybergman.

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setsUniversity of Manchester