Using bioconductor package BiGGR for metabolic flux estimation based on gene expression changes in brain.

Autor: Anand K Gavai, Farahaniza Supandi, Hannes Hettling, Paul Murrell, Jack A M Leunissen, Johannes H G M van Beek

Publikováno v: PLoS ONE, Vol 10, Iss 3, p e0119016 (2015)

Predicting the distribution of metabolic fluxes in biochemical networks is of major interest in systems biology. Several databases provide metabolic reconstructions for different organisms. Software to analyze flux distributions exists, among others

Externí odkaz: https://doaj.org/article/b2a0e450f3474a0a9df7e85fd2c62664

Gene expression in chicken reveals correlation with structural genomic features and conserved patterns of transcription in the terrestrial vertebrates.

Autor: Haisheng Nie, Richard P M A Crooijmans, Aart Lammers, Evert M van Schothorst, Jaap Keijer, Pieter B T Neerincx, Jack A M Leunissen, Hendrik-Jan Megens, Martien A M Groenen

Publikováno v: PLoS ONE, Vol 5, Iss 8, p e11990 (2010)

BACKGROUND: The chicken is an important agricultural and avian-model species. A survey of gene expression in a range of different tissues will provide a benchmark for understanding expression levels under normal physiological conditions in birds. Wit

Externí odkaz: https://doaj.org/article/15288dffda9643209e7bb9e6c494a5cb

ProGMap: an integrated annotation resource for protein orthology

Autor: Jack A. M. Leunissen, Ying He, Harm Nijveen, Ke Lin, Sándor Pongor, Arnold Kuzniar

Publikováno v: Nucleic Acids Research
Nucleic acids research 37 (2009)
Nucleic acids research, 37, W428-W434

Current protein sequence databases employ different classification schemes that often provide conflicting annotations, especially for poorly characterized proteins. ProGMap (Protein Group Mappings, http://www.bioinformatics.nl/progmap) is a web-tool

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::68c8d60820ee6af42afb945e838888e7
https://doi.org/10.1093/nar/gkp462

A Protein Classification Benchmark collection for machine learning

Autor: Mircea Pacurar, Jack A. M. Leunissen, Zoltán Gáspári, Attila Kertész-Farkas, Paolo Sonego, Somdutta Dhir, Sándor Pongor, András Kocsor

Publikováno v: Nucleic acids research 35 (2007)
Nucleic Acids Research
Nucleic acids research, 35, D232-D236

Protein classification by machine learning algorithms is now widely used in structural and functional annotation of proteins. The Protein Classification Benchmark collection (http://hydra.icgeb.trieste.it/benchmark) was created in order to provide st

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::a6fc58817ff41a810afdd09b15eeeb44
https://doi.org/10.1093/nar/gkl812

Using bioconductor package BiGGR for metabolic flux estimation based on gene expression changes in brain

Autor: Johannes H. G. M. van Beek, Farahaniza Supandi, Paul Murrell, Hannes Hettling, Jack A. M. Leunissen, Anand Gavai

Publikováno v: Gavai, A K, Supandi, F, Hettling, H, Murell, P, Leunissen, J A M & van Beek, J H G M 2015, ' Using bioconductor package BiGGR for metabolic flux estimation based on gene expression changes in brain. ', PLoS ONE, vol. 10, no. 3, e0119016 . https://doi.org/10.1371/journal.pone.0119016
PLoS ONE, Vol 10, Iss 3, p e0119016 (2015)
PLoS ONE
PLoS ONE, 10(3):e0119016. Public Library of Science
PLoS ONE 10 (2015) 3
PLoS ONE, 10(3)
Gavai, A K, Supandi, F B, Hettling, H, Murell, P, Leunissen, J A M & van Beek, J H G M 2015, ' Using bioconductor package BiGGR for metabolic flux estimation based on gene expression changes in brain. ', PLoS ONE, vol. 10, no. 3, e0119016 . https://doi.org/10.1371/journal.pone.0119016

Predicting the distribution of metabolic fluxes in biochemical networks is of major interest in systems biology. Several databases provide metabolic reconstructions for different organisms. Software to analyze flux distributions exists, among others

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::cf45ecf0131958d900ced624f7c8b4e0
https://research.vu.nl/en/publications/29d9e32d-b439-48ad-bc63-829bcd6c4e44