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on page 4 showing 20 out of 2,523 results

    AllSeq

Cite this (AllSeq, RRID:SCR_010053)

URL: http://www.allseq.com/default.aspx

Resource Type: Resource, service resource

Free online tools to find the best Sequencing Service provider for your project.

  • From Current Category

Cite this (Alta-Cyclic, RRID:SCR_013373)

URL: http://hannonlab.cshl.edu/Alta-Cyclic/main.html

Resource Type: Resource, software resource

An Illumina Genome-Analyzer (Solexa) base caller.

  • From Current Category

Cite this (AltAnalyze - Alternative Splicing Analysis Tool, RRID:SCR_002951)

URL: http://www.altanalyze.org/

Resource Type: Resource, software resource, software application

Software application for microarry, RNA-Seq and metabolomics analysis. For splicing sensitive platforms (RNA-Seq or Affymetrix Exon, Gene and Junction arrays), it will assess alternative exon (known and novel) expression along protein isoforms, domain composition and microRNA targeting. In addition to splicing-sensitive platforms, it provides comprehensive methods for the analysis of other data (RMA summarization, batch-effect removal, QC, statistics, annotation, clustering, network creation, lineage characterization, alternative exon visualization, gene-set enrichement and more). AltAnalyze can be run through an intuitive graphical user interface or command-line and requires no advanced knowledge of bioinformatics programs or scripting. Alternative regulated exons can be subsequently visualized in the context of proteins, domains and microRNA binding sites with the Cytoscape Plugin DomainGraph.

  • From Current Category

Cite this (Alt Event Finder, RRID:SCR_001846)

URL: http://compbio.iupui.edu/group/6/pages/alteventfinder

Resource Type: Resource, software resource

Software tool for deriving data-driven alternative splicing (AS) events from RNA-seq data. It analyses the transcripts built by Cufflinks or Scripture and outputs AS event annotations which is compatible with MISO. It can be used for annotating novel AS events from a well-annotated species such as human. It can also be used for species of which known AS event annotation is not available. The current release (v0.1) supports skipped exon events only.

  • From Current Category

Cite this (Amazon Web Services, RRID:SCR_012854)

URL: http://aws.amazon.com/

Resource Type: Resource, service resource, computational hosting

IT infrastructure services for businesses in the form of web services, now commonly known as cloud computing. This highly reliable, scalable, low-cost infrastructure platform in the cloud powers hundreds of thousands of businesses. With data center locations in the U.S., Europe, Singapore, and Japan, customers across all industries are taking advantage of the following benefits: * Low cost * Agility and Instant Elasticity * Open and Flexible * Secure

  • From Current Category

Cite this (American College of Medical Genetics and Genomics, RRID:SCR_005769)

URL: http://www.acmg.net

Resource Type: Resource, organization portal, portal, data or information resource

An organization composed of biochemical, clinical, cytogenetic, medical and molecular geneticists, genetic counselors and other health care professionals committed to the practice of medical genetics to Improve Health Through Medical Genetics. The American College of Medical Genetics and Genomics will: * Define and promote excellence in the practice of medical genetics and genomics in the integration of translational research into practice; * Promote and provide medical genetics and genomics education; * Increase access to medical genetics and genomics services and integrate them into patient care; * Advocate for and represent providers of medical genetics and genomics services and their patients; and * Maintain structure and integrity of ACMG and its value to members and the public.

  • From Current Category

    AMOS

Cite this (AMOS, RRID:SCR_013067)

URL: http://sourceforge.net/projects/amos/

Resource Type: Resource, software resource

A collection of tools and class interfaces for the assembly of DNA reads.

  • From Current Category

Cite this (AmphoraNet, RRID:SCR_005009)

URL: http://amphoranet.pitgroup.org/

Resource Type: Resource, analysis service resource, data analysis service, service resource, production service resource

Webserver implementation of the AMPHORA2 workflow for phylogenetic analysis of metagenomic shotgun sequencing data. It is capable of assigning a probability-weighted taxonomic group for each phylogenetic marker gene found in the input metagenomic sample.

  • From Current Category

Cite this (AmpliconNoise, RRID:SCR_007814)

URL: https://code.google.com/p/ampliconnoise/

Resource Type: Resource, software resource

A collection of programs for the removal of noise from 454 sequenced PCR amplicons. This project also includes the Perseus algorithm for chimera removal.

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    Amplicon

Cite this (Amplicon, RRID:SCR_003294)

URL: http://sourceforge.net/projects/amplicon/

Resource Type: Resource, software resource

Software tool for designing PCR primers on aligned groups of DNA sequences. The most important application is the design of "group-specific" PCR primer sets that amplify a DNA region from a given taxonomic group but do not amplify orthologous regions from other taxonomic groups. It is written in Python 2.3 and Tkinter 8.4. The current script was created for Windows and an executable is available. Future versions of the script should be able to run on Linux and Mac

  • From Current Category

    AMS

Cite this (AMS, RRID:SCR_012140)

URL: https://code.google.com/p/automotifserver/

Resource Type: Resource, software resource

Software that predicts the wide selection of 88 different types of the single amino acid post-translational modifications (PTM) in protein sequences. The source code and precompiled binaries of brainstorming tool are available under Apache licensing.

  • From Current Category

Cite this (AnalyzeReplication, RRID:SCR_012030)

URL: http://home.uchicago.edu/~jiezhou/replication/

Resource Type: Resource, software resource

Source code providing a cost-effectiveness metric for guiding the design of large-scale RNA-seq differentially expressed (DE) studies.

  • From Current Category

Cite this (Anchored Assembly, RRID:SCR_001188)

URL: http://www.spiralgenetics.com/products/

Resource Type: Resource, software resource, commercial organization

Analysis pipeline that accurately detects and maps variations that are often missed by standard analysis algorithms. It uses direct de novo read overlap assembly to accurately detect and characterize SNPs (single nucleotide polymorphisms), indels, and SVs (structural variations). The pipeline uses existing Illumina HiSeq data and does not require additional library preparation. The algorithm is optimized for projects with at least 20x coverage per chromosome set (i.e. 40x for diploid).

  • From Current Category

    ANDES

Cite this (ANDES, RRID:SCR_002791)

URL: http://andestools.sourceforge.net/

Resource Type: Resource, software resource, software application, data analysis software, data processing software, software toolkit

Software library and a suite of applications, written in Perl and R, for deep sequencing statistical analyses.

  • From Current Category

Cite this (AnimalTFDB, RRID:SCR_001624)

URL: http://www.bioguo.org/AnimalTFDB/

Resource Type: Resource, data or information resource, database

A comprehensive transcription factor (TF) database in which they identified and classified all the genome-wide TFs in 50 sequenced animal genomes (Ensembl release version 60). In addition to TFs, it also collects transcription co-factors and chromatin remodeling factors of those genomes, which play regulatory roles in transcription. Here they defined the TFs as proteins containing a sequence-specific DNA-binding domain (DBD) and regulating target gene expression. Currently, the AnimalTFDB classifies all the animal TFs into 72 families according to their conserved DBDs. Gene lists of transcription factors, transcription co-factors and chromatin remodeling factors of each species are available for downloading.

  • From Current Category

Cite this (Anne O'Tate, RRID:SCR_005340)

URL: http://arrowsmith.psych.uic.edu/cgi-bin/arrowsmith_uic/AnneOTate.cgi

Resource Type: Resource, service resource

A web based search tool to help you gain an overview of the set of articles (up to 25,000 most recent articles) retrieved by a PubMed query. Once you enter a query, you can select different types of summary information to view: Important words, Topics, Authors, Affiliations, Journals, Year, Clustered by topic.

  • From Current Category

    Annmap

Cite this (Annmap, RRID:SCR_011783)

URL: http://annmap.picr.man.ac.uk/

Resource Type: Resource, software resource, data or information resource, database

A genome browser that includes mappings between genomic features and Affymetrix microarrays. Associated with annmap is: * a Bioconductor package, annmap that provides programmatic access to the underlying MySQL database tables (which are freely available for download on this site) * xmapbridge, a Bioconductor package that outputs numeric data in a form suitable for presentation in the browser. This is supported by XMapBridge, a Java client that sits on the local desktop and performs the graph rendering for the browser.

  • From Current Category

    Anno-J

Cite this (Anno-J, RRID:SCR_008192)

URL: http://www.annoj.org/

Resource Type: Resource, web service, software resource, data access protocol, source code

A REST-based web application designed for visualizing deep sequencing data and other genome annotation data.

  • From Current Category

    Annotare

Cite this (Annotare, RRID:SCR_000319)

URL: http://code.google.com/p/annotare/

Resource Type: Resource, software resource, software application, standalone software

A software tool for annotating biomedical investigations and the resulting data, then producing a MAGE-TAB file. This software is a standalone desktop which features: an editor function, an annotation modifier, incorporation of terms from biomedical ontologies, standard templates for common experiment types, a design aid to help create a new document, and a validator that checks for syntactic and semantic violations.

  • From Current Category

Cite this (Annotation-Modules, RRID:SCR_008025)

URL: http://web.bioinformatics.cicbiogune.es/AM/AnnotationModules.php

Resource Type: Resource, software resource

A tool for finding significant combinations of multisource annotations in gene lists.

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