AIMC Journal:
Nucleic acids research
Showing 211 to 220 of 228 articles
WEGO 2.0: a web tool for analyzing and plotting GO annotations, 2018 update.
Nucleic acids research
Jul 2, 2018
WEGO (Web Gene Ontology Annotation Plot), created in 2006, is a simple but useful tool for visualizing, comparing and plotting GO (Gene Ontology) annotation results. Owing largely to the rapid development of high-throughput sequencing and the increas...
PANNZER2: a rapid functional annotation web server.
Nucleic acids research
Jul 2, 2018
The unprecedented growth of high-throughput sequencing has led to an ever-widening annotation gap in protein databases. While computational prediction methods are available to make up the shortfall, a majority of public web servers are hindered by pr...
DeFine: deep convolutional neural networks accurately quantify intensities of transcription factor-DNA binding and facilitate evaluation of functional non-coding variants.
Nucleic acids research
Jun 20, 2018
The complex system of gene expression is regulated by the cell type-specific binding of transcription factors (TFs) to regulatory elements. Identifying variants that disrupt TF binding and lead to human diseases remains a great challenge. To address ...
BioMuta and BioXpress: mutation and expression knowledgebases for cancer biomarker discovery.
Nucleic acids research
Jan 4, 2018
Single-nucleotide variation and gene expression of disease samples represent important resources for biomarker discovery. Many databases have been built to host and make available such data to the community, but these databases are frequently limited...
Gramene 2018: unifying comparative genomics and pathway resources for plant research.
Nucleic acids research
Jan 4, 2018
Gramene (http://www.gramene.org) is a knowledgebase for comparative functional analysis in major crops and model plant species. The current release, #54, includes over 1.7 million genes from 44 reference genomes, most of which were organized into 62,...
The Reactome Pathway Knowledgebase.
Nucleic acids research
Jan 4, 2018
The Reactome Knowledgebase (https://reactome.org) provides molecular details of signal transduction, transport, DNA replication, metabolism, and other cellular processes as an ordered network of molecular transformations-an extended version of a clas...
iPTMnet: an integrated resource for protein post-translational modification network discovery.
Nucleic acids research
Jan 4, 2018
Protein post-translational modifications (PTMs) play a pivotal role in numerous biological processes by modulating regulation of protein function. We have developed iPTMnet (http://proteininformationresource.org/iPTMnet) for PTM knowledge discovery, ...
SuperDRUG2: a one stop resource for approved/marketed drugs.
Nucleic acids research
Jan 4, 2018
Regular monitoring of drug regulatory agency web sites and similar resources for information on new drug approvals and changes to legal status of marketed drugs is impractical. It requires navigation through several resources to find complete informa...
ICG: a wiki-driven knowledgebase of internal control genes for RT-qPCR normalization.
Nucleic acids research
Jan 4, 2018
Real-time quantitative PCR (RT-qPCR) has become a widely used method for accurate expression profiling of targeted mRNA and ncRNA. Selection of appropriate internal control genes for RT-qPCR normalization is an elementary prerequisite for reliable ex...
miRandola 2017: a curated knowledge base of non-invasive biomarkers.
Nucleic acids research
Jan 4, 2018
miRandola (http://mirandola.iit.cnr.it/) is a database of extracellular non-coding RNAs (ncRNAs) that was initially published in 2012, foreseeing the relevance of ncRNAs as non-invasive biomarkers. An increasing amount of experimental evidence shows ...
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