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Items: 1 to 20 of 83


State aggregation for fast likelihood computations in molecular evolution.

Davydov II, Robinson-Rechavi M, Salamin N.

Bioinformatics. 2016 Oct 2. pii: btw632.


IQRray, a new method for Affymetrix microarray quality control, and the homologous organ conservation score, a new benchmark method for quality control metrics.

Rosikiewicz M, Robinson-Rechavi M.

Bioinformatics. 2016 Aug 15;32(16):2565. doi: 10.1093/bioinformatics/btw374. Epub 2016 Jul 3. No abstract available.


A benchmark of gene expression tissue-specificity metrics.

Kryuchkova-Mostacci N, Robinson-Rechavi M.

Brief Bioinform. 2016 Feb 18. pii: bbw008. [Epub ahead of print]


Detecting patterns of species diversification in the presence of both rate shifts and mass extinctions.

Laurent S, Robinson-Rechavi M, Salamin N.

BMC Evol Biol. 2015 Aug 11;15:157. doi: 10.1186/s12862-015-0432-z.


Tissue-Specific Evolution of Protein Coding Genes in Human and Mouse.

Kryuchkova-Mostacci N, Robinson-Rechavi M.

PLoS One. 2015 Jun 29;10(6):e0131673. doi: 10.1371/journal.pone.0131673. eCollection 2015.


Genomics is changing Evo-Devo.

Robinson-Rechavi M.

J Exp Zool B Mol Dev Evol. 2015 Jun;324(4):315. doi: 10.1002/jez.b.22633. No abstract available.


Inference of Evolutionary Forces Acting on Human Biological Pathways.

Daub JT, Dupanloup I, Robinson-Rechavi M, Excoffier L.

Genome Biol Evol. 2015 May 13;7(6):1546-58. doi: 10.1093/gbe/evv083.


The Confidence Information Ontology: a step towards a standard for asserting confidence in annotations.

Bastian FB, Chibucos MC, Gaudet P, Giglio M, Holliday GL, Huang H, Lewis SE, Niknejad A, Orchard S, Poux S, Skunca N, Robinson-Rechavi M.

Database (Oxford). 2015 May 9;2015:bav043. doi: 10.1093/database/bav043. Print 2015.


What to compare and how: Comparative transcriptomics for Evo-Devo.

Roux J, Rosikiewicz M, Robinson-Rechavi M.

J Exp Zool B Mol Dev Evol. 2015 Jun;324(4):372-82. doi: 10.1002/jez.b.22618. Epub 2015 Apr 10. Review.


Sequencing and characterizing the genome of Estrella lausannensis as an undergraduate project: training students and biological insights.

Bertelli C, Aeby S, Chassot B, Clulow J, Hilfiker O, Rappo S, Ritzmann S, Schumacher P, Terrettaz C, Benaglio P, Falquet L, Farinelli L, Gharib WH, Goesmann A, Harshman K, Linke B, Miyazaki R, Rivolta C, Robinson-Rechavi M, van der Meer JR, Greub G.

Front Microbiol. 2015 Feb 19;6:101. doi: 10.3389/fmicb.2015.00101. eCollection 2015.


Big data and other challenges in the quest for orthologs.

Sonnhammer EL, Gabaldón T, Sousa da Silva AW, Martin M, Robinson-Rechavi M, Boeckmann B, Thomas PD, Dessimoz C; Quest for Orthologs consortium.

Bioinformatics. 2014 Nov 1;30(21):2993-8. doi: 10.1093/bioinformatics/btu492. Epub 2014 Jul 26.


Unification of multi-species vertebrate anatomy ontologies for comparative biology in Uberon.

Haendel MA, Balhoff JP, Bastian FB, Blackburn DC, Blake JA, Bradford Y, Comte A, Dahdul WM, Dececchi TA, Druzinsky RE, Hayamizu TF, Ibrahim N, Lewis SE, Mabee PM, Niknejad A, Robinson-Rechavi M, Sereno PC, Mungall CJ.

J Biomed Semantics. 2014 May 19;5:21. doi: 10.1186/2041-1480-5-21. eCollection 2014.


Comparative genome analysis of Pseudomonas knackmussii B13, the first bacterium known to degrade chloroaromatic compounds.

Miyazaki R, Bertelli C, Benaglio P, Canton J, De Coi N, Gharib WH, Gjoksi B, Goesmann A, Greub G, Harshman K, Linke B, Mikulic J, Mueller L, Nicolas D, Robinson-Rechavi M, Rivolta C, Roggo C, Roy S, Sentchilo V, Siebenthal AV, Falquet L, van der Meer JR.

Environ Microbiol. 2015 Jan;17(1):91-104. doi: 10.1111/1462-2920.12498. Epub 2014 May 28.


Patterns of positive selection in seven ant genomes.

Roux J, Privman E, Moretti S, Daub JT, Robinson-Rechavi M, Keller L.

Mol Biol Evol. 2014 Jul;31(7):1661-85. doi: 10.1093/molbev/msu141. Epub 2014 Apr 29.


IQRray, a new method for Affymetrix microarray quality control, and the homologous organ conservation score, a new benchmark method for quality control metrics.

Rosikiewicz M, Robinson-Rechavi M.

Bioinformatics. 2014 May 15;30(10):1392-9. doi: 10.1093/bioinformatics/btu027. Epub 2014 Jan 21. Erratum in: Bioinformatics. 2016 Aug 15;32(16):2565.


Optimization strategies for fast detection of positive selection on phylogenetic trees.

Valle M, Schabauer H, Pacher C, Stockinger H, Stamatakis A, Robinson-Rechavi M, Salamin N.

Bioinformatics. 2014 Jan 23. [Epub ahead of print]


DATABASE, The Journal of Biological Databases and Curation, is now the official journal of the International Society for Biocuration.

Gaudet P, Munoz-Torres M, Robinson-Rechavi M, Attwood T, Bateman A, Cherry JM, Kania R, O'Donovan C, Yamasaki C.

Database (Oxford). 2013 Dec 6;2013:bat077. doi: 10.1093/database/bat077. Print 2013. No abstract available.


Selectome update: quality control and computational improvements to a database of positive selection.

Moretti S, Laurenczy B, Gharib WH, Castella B, Kuzniar A, Schabauer H, Studer RA, Valle M, Salamin N, Stockinger H, Robinson-Rechavi M.

Nucleic Acids Res. 2014 Jan;42(Database issue):D917-21. doi: 10.1093/nar/gkt1065. Epub 2013 Nov 12.


The hourglass and the early conservation models--co-existing patterns of developmental constraints in vertebrates.

Piasecka B, Lichocki P, Moretti S, Bergmann S, Robinson-Rechavi M.

PLoS Genet. 2013 Apr;9(4):e1003476. doi: 10.1371/journal.pgen.1003476. Epub 2013 Apr 25.


Evidence for polygenic adaptation to pathogens in the human genome.

Daub JT, Hofer T, Cutivet E, Dupanloup I, Quintana-Murci L, Robinson-Rechavi M, Excoffier L.

Mol Biol Evol. 2013 Jul;30(7):1544-58. doi: 10.1093/molbev/mst080. Epub 2013 Apr 26.

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