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Bioinformatics, ISSN 1367-4803, 07/2013, Volume 29, Issue 14, pp. 1830 - 1831
Pathview is a novel tool set for pathway-based data integration and visualization. It maps and renders user data on relevant pathway graphs. Users only need to... 
KEGG | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | BIOCHEMICAL RESEARCH METHODS | MATHEMATICAL & COMPUTATIONAL BIOLOGY | BIOCONDUCTOR | Computer Graphics | Gene Expression | Software | Metabolic Networks and Pathways | Signal Transduction | Systems Integration | Applications Notes
Journal Article
Bioinformatics, ISSN 1367-4803, 04/2014, Volume 30, Issue 7, pp. 923 - 930
Journal Article
Bioinformatics, ISSN 1367-4803, 02/2017, Volume 33, Issue 4, pp. 558 - 560
The minfi package is widely used for analyzing Illumina DNA methylation array data. Here we describe modifications to the minfi package required to support the... 
CELLULAR HETEROGENEITY | DNA METHYLATION | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | BIOCHEMICAL RESEARCH METHODS | MATHEMATICAL & COMPUTATIONAL BIOLOGY | BIOCONDUCTOR | DNA Methylation | Software | Epigenomics - methods | Oligonucleotide Array Sequence Analysis - methods | Sequence Analysis, DNA - methods | Humans | Applications Notes
Journal Article
Briefings in bioinformatics, ISSN 1477-4054, 2019, Volume 20, Issue 6, pp. 2044 - 2054
Differential gene expression (DGE) analysis is one of the most common applications of RNA-sequencing (RNA-seq) data. This process allows for the elucidation of... 
TRANSCRIPTOME | bioinformatics tools | BIOCHEMICAL RESEARCH METHODS | differentially expressed genes | STRINGTIE | R/Bioconductor package | TOPHAT | PACKAGE | SEQUENCE | MATHEMATICAL & COMPUTATIONAL BIOLOGY | visualization and interpretation | HISAT | differential gene expression analysis
Journal Article
PLoS computational biology, ISSN 1553-7358, 2013, Volume 9, Issue 8, p. e1003118
Journal Article
by Smedley, Damian and Haider, Syed and Durinck, Steffen and Pandini, Luca and Provero, Paolo and Allen, James and Arnaiz, Olivier and Awedh, Mohammad Hamza and Baldock, Richard and Barbiera, Giulia and Bardou, Philippe and Beck, Tim and Blake, Andrew and Bonierbale, Merideth and Brookes, Anthony J and Bucci, Gabriele and Buetti, Iwan and Burge, Sarah and Cabau, Cédric and Carlson, Joseph W and Chelala, Claude and Chrysostomou, Charalambos and Cittaro, Davide and Collin, Olivier and Cordova, Raul and Cutts, Rosalind J and Dassi, Erik and Genova, Alex Di and Djari, Anis and Esposito, Anthony and Estrella, Heather and Eyras, Eduardo and Fernandez-Banet, Julio and Forbes, Simon and Free, Robert C and Fujisawa, Takatomo and Gadaleta, Emanuela and Garcia-Manteiga, Jose M and Goodstein, David and Gray, Kristian and Guerra-Assunção, José Afonso and Haggarty, Bernard and Han, Dong-Jin and Han, Byung Woo and Harris, Todd and Harshbarger, Jayson and Hastings, Robert K and Hayes, Richard D and Hoede, Claire and Hu, Shen and Hu, Zhi-Liang and Hutchins, Lucie and Kan, Zhengyan and Kawaji, Hideya and Keliet, Aminah and Kerhornou, Arnaud and Kim, Sunghoon and Kinsella, Rhoda and Klopp, Christophe and Kong, Lei and Lawson, Daniel and Lazarevic, Dejan and Lee, Ji-Hyun and Letellier, Thomas and Li, Chuan-Yun and Lio, Pietro and Liu, Chu-Jun and Luo, Jie and Maass, Alejandro and Mariette, Jerome and Maurel, Thomas and Merella, Stefania and Mohamed, Azza Mostafa and Moreews, Francois and Nabihoudine, Ibounyamine and Ndegwa, Nelson and Noirot, Céline and Perez-Llamas, Cristian and Primig, Michael and Quattrone, Alessandro and Quesneville, Hadi and Rambaldi, Davide and Reecy, James and Riba, Michela and Rosanoff, Steven and Saddiq, Amna Ali and Salas, Elisa and Sallou, Olivier and Shepherd, Rebecca and Simon, Reinhard and Sperling, Linda and Spooner, William and Staines, Daniel M and Steinbach, Delphine and Stone, Kevin and Stupka, Elia and Teague, Jon W and Dayem Ullah, Abu Z and Wang, Jun and Ware, Doreen and ...
Nucleic acids research, ISSN 1362-4962, 2015, Volume 43, Issue W1, pp. W589 - W598
The BioMart Community Portal (www.biomart.org) is a community-driven effort to provide a unified interface to biomedical databases that are distributed... 
PLATFORM | BIOINFORMATICS | BIOCHEMISTRY & MOLECULAR BIOLOGY | ACCESS | BIOCONDUCTOR | RESOURCE | Internet | Neoplasms - genetics | Database Management Systems | Genomics | Humans | Proteomics | Life Sciences | Web Server issue
Journal Article
Nucleic acids research, ISSN 1362-4962, 2009, Volume 37, Issue Web Server, pp. W652 - W660
Metabolomics is a newly emerging field of 'omics' research that is concerned with characterizing large numbers of metabolites using NMR, chromatography and... 
NMR | BIOCHEMISTRY & MOLECULAR BIOLOGY | CLASSIFICATION | IDENTIFICATION | MASS-SPECTROMETRY | MICROARRAY DATA | BIOCONDUCTOR | Metabolomics | User-Computer Interface | Mass Spectrometry | Nuclear Magnetic Resonance, Biomolecular | Software | Internet | Cluster Analysis
Journal Article
Journal Article
Nature protocols, ISSN 1750-2799, 2009, Volume 4, Issue 8, pp. 1184 - 1191
Genomic experiments produce multiple views of biological systems, among them are DNA sequence and copy number variation, and mRNA and protein abundance.... 
DATABASE | BIOCHEMICAL RESEARCH METHODS | BIOCONDUCTOR | Cell Line | Humans | Databases, Genetic | Chromosome Mapping | Software | Genomics - methods | RNA, Messenger - metabolism | Cluster Analysis | Public software | Mapping | Bioconductor | Ensembl | Identifiers | BioMart | Data Integration
Journal Article