Sébastien Moretti

Publications | Phd and Masters theses

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31 publications

2024 | 2022 | 2021 | 2019 | 2017 | 2016 | 2014 | 2013 | 2012 | 2011 | 2010 | 2009 | 2008 | 2007 | 2006 | 2005 |
2024
 
The SIB Swiss Institute of Bioinformatics Semantic Web of data.
SIB Swiss Institute of Bioinformatics RDF Group Members, Mendes de Farias T., 2024/01/05. Nucleic acids research, 52 (D1) pp. D44-D51. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_A29FECE3B301]
2022
Ni<sup>2+</sup>-Assisted Hydrolysis May Affect the Human Proteome; Filaggrin Degradation Ex Vivo as an Example of Possible Consequences.
Podobas E.I., Gutowska-Owsiak D., Moretti S., Poznański J., Kulińczak M., Grynberg M., Gruca A., Bonna A., Płonka D., Ogg G. et al., 2022. Frontiers in molecular biosciences, 9 p. 828674. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_EACE2D906304]
Systems Biology in ELIXIR: modelling in the spotlight.
Martins Dos Santos V., Anton M., Szomolay B., Ostaszewski M., Arts I., Benfeitas R., Dominguez Del Angel V., Ferk P., Fey D., Goble C. et al., 2022. F1000Research, 11. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_B81ECA82C7F7]
2021
 
MetaNetX/MNXref: unified namespace for metabolites and biochemical reactions in the context of metabolic models
Moretti Sébastien, Tran Van Du T, Mehl Florence, Ibberson Mark, Pagni Marco, 2021/01/08. Nucleic Acids Research, 49 (D1) pp. D570-D574.
[DOI][WoS][Pmid][serval:BIB_F967CC226F37]
The Bgee suite: integrated curated expression atlas and comparative transcriptomics in animals.
Bastian F.B., Roux J., Niknejad A., Comte A., Fonseca Costa S.S., de Farias T.M., Moretti S., Parmentier G., Rech de Laval V., Rosikiewicz M. et al., 2021/01/08. Nucleic acids research, 49 (D1) pp. D831-D847. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_FD0CF4F734E7]
2019
Condition-specific series of metabolic sub-networks and its application for gene set enrichment analysis.
Tran VDT, Moretti S., Coste A.T., Amorim-Vaz S., Sanglard D., Pagni M., 2019/07/01. Bioinformatics, 35 (13) pp. 2258-2266. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_3E96F1A1B541]
2017
Taxon sampling unequally affects individual nodes in a phylogenetic tree: consequences for model gene tree construction in SwissTree
Boeckmann Brigitte, Dylus David, Moretti Sebastien, Altenhoff Adrian, Train Clement-Marie, Kriventseva Evgenia, Bougueleret Lydie, Xenarios Ioannis, Privman Eyal, Gabaldon Toni et al., 2017/09/05..
[URN][DOI][serval:BIB_7579ACF1CAEA]
Updates in Rhea - an expert curated resource of biochemical reactions.
Morgat A., Lombardot T., Axelsen K.B., Aimo L., Niknejad A., Hyka-Nouspikel N., Coudert E., Pozzato M., Pagni M., Moretti S. et al., 2017/01/04. Nucleic acids research, 45 (D1) pp. D415-D418. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_D4F55C24D893]
Detection of Pathways Affected by Positive Selection in Primate Lineages Ancestral to Humans.
Daub J.T., Moretti S., Davydov I.I., Excoffier L., Robinson-Rechavi M., 2017. Molecular Biology and Evolution, 34 (6) pp. 1391-1402. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_E977192342AB]
2016
The SIB Swiss Institute of Bioinformatics' resources: focus on curated databases.
SIB Swiss Institute of Bioinformatics Members, Bultet L.A., 2016/01/04. Nucleic acids research, 44 (D1) pp. D27-37. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_71EF45D9A3D9]
MetaNetX/MNXref - reconciliation of metabolites and biochemical reactions to bring together genome-scale metabolic networks.
Moretti S., Martin O., Van Du Tran T., Bridge A., Morgat A., Pagni M., 2016. Nucleic Acids Research, 44 (D1) pp. D523-D526.
[URN][DOI][WoS][Pmid][serval:BIB_58AEB83D57CC]
Tools and data services registry: a community effort to document bioinformatics resources.
Ison J., Rapacki K., Ménager H., Kalaš M., Rydza E., Chmura P., Anthon C., Beard N., Berka K., Bolser D. et al., 2016. Nucleic Acids Research, 44 (D1) pp. D38-D47.
[URN][DOI][WoS][Pmid][serval:BIB_B3F966DA99C6]
2014
Patterns of positive selection in seven ant genomes.
Roux J., Privman E., Moretti S., Daub J.T., Robinson-Rechavi M., Keller L., 2014. Molecular Biology and Evolution, 31 (7) pp. 1661-1685. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_95722591AAD3]
Reconciliation of metabolites and biochemical reactions for metabolic networks.
Bernard T., Bridge A., Morgat A., Moretti S., Xenarios I., Pagni M., 2014. Briefings in Bioinformatics, 15 (1) pp. 123-135.
[URN][DOI][WoS][Pmid][serval:BIB_6FC073DA2CF5]
Selectome update: quality control and computational improvements to a database of positive selection.
Moretti S., Laurenczy B., Gharib W.H., Castella B., Kuzniar A., Schabauer H., Studer R.A., Valle M., Salamin N., Stockinger H. et al., 2014. Nucleic Acids Research, 42 (1) pp. D917-D921. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_BD16E97A0D18]
2013
Developmental and Environmental Regulation of Aquaporin Gene Expression across Populus Species: Divergence or Redundancy?
Cohen D., Bogeat-Triboulot M.B., Vialet-Chabrand S., Merret R., Courty P.E., Moretti S., Bizet F., Guilliot A., Hummel I., 2013. PLoS One, 8 (2) pp. e55506. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_87FBFC197FE8]
MetaNetX.org: a website and repository for accessing, analysing and manipulating metabolic networks.
Ganter M., Bernard T., Moretti S., Stelling J., Pagni M., 2013. Bioinformatics, 29 (6) pp. 815-816. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_364863E29541]
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., 2013. Plos Genetics, 9 (4) pp. e1003476. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_B03DCB0498A7]
2012
ExPASy: SIB bioinformatics resource portal.
Artimo P., Jonnalagedda M., Arnold K., Baratin D., Csardi G., de Castro E., Duvaud S., Flegel V., Fortier A., Gasteiger E. et al., 2012. Nucleic Acids Research, 40 pp. W597-W603.
[URN][DOI][WoS][Pmid][serval:BIB_60D126CF045C]
gcodeml: A Grid-enabled Tool for Detecting Positive Selection in Biological Evolution
Moretti S., Murri R., Maffioletti S., Kuzniar A., Castella B, Salamin N., Robinson-Rechavi M., Stockinger H., 2012. pp. 59-68 dans Glatard T, Silverstein J (eds.) HealthGrid Applications and Technologies Meet Science Gateways for Life Sciences, IOS Press.
[URN][DOI][Pmid][serval:BIB_542C5BE6E2B7]
2011
T-Coffee: a web server for the multiple sequence alignment of protein and RNA sequences using structural information and homology extension.
Di Tommaso P., Moretti S., Xenarios I., Orobitg M., Montanyola A., Chang J.M., Taly J.F., Notredame C., 2011. Nucleic Acids Research, 39 (Web Server issue) pp. W13-W17.
[URN][DOI][Pmid][serval:BIB_EE8EDC0ACBE8]
2010
 
Phylogenetic Code in the Cloud - Can it Meet the Expectations?
Kraut A., Moretti S., Robinson-Rechavi M., Stockinger H., Flanders D., 2010. pp. 55-63 dans Healthgrid Applications and Core Technologies, IOS Press.
[DOI][Pmid][serval:BIB_1F5A96C03D27]
2009
Selectome: a database of positive selection.
Proux E., Studer R.A., Moretti S., Robinson-Rechavi M., 2009. Nucleic Acids Research, 37 (Database issue) pp. D404-D407. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_92B1AFBBA077]
2008
Bgee: integrating and comparing heterogeneous transcriptome data among species
Bastian F., Parmentier G., Roux J., Moretti S., Laudet V., Robinson-Rechavi M., 2008. pp. 124-131 dans Istrail S., Pevzner P., Waterman M. (eds.) Data Integration in Life Sciences, Lecture Notes in Computer Science. Peer-reviewed, Springer.
[URN][DOI][serval:BIB_5A6F9D63F92D]
R-Coffee: a web server for accurately aligning noncoding RNA sequences.
Moretti S., Wilm A., Higgins D.G., Xenarios I., Notredame C., 2008. Nucleic Acids Research, 36 (Web Server issue) pp. W10-W13.
[URN][DOI][WoS][Pmid][serval:BIB_D39CC5C415A8]
2007
The M-Coffee web server: a meta-method for computing multiple sequence alignments by combining alternative alignment methods.
Moretti S., Armougom F., Wallace I.M., Higgins D.G., Jongeneel C.V., Notredame C., 2007. Nucleic Acids Research, 35 (Web Server issue) pp. W645-8. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_E1EA981E1A22]
2006
 
APDB: a web server to evaluate the accuracy of Multiple Sequence Alignment using Structural Information.
Armougom F Poirot O Moretti S Higgins DB Bucher P Keduas V Notredame C., 2006/10. Bioinformatics, 22 (19) pp. 2439-40.
[Pmid][serval:BIB_61C22E0F3DA5]
 
Expresso: automatic incorporation of structural information in multiple sequence alignments using 3D-Coffee.
Armougom F., Moretti S., Poirot O., Audic S., Dumas P., Schaeli B., Keduas V., Notredame C., 2006/07. Nucleic Acids Research, 34 (Web Server issue) pp. W604-W608.
[DOI][Pmid][serval:BIB_34F5DCB86E0F]
 
iRMSD, a local measure of sequence alignment accuracy using structural information.
Armougom F Moretti S Keduas V Notredame C., 2006/07. ISMB 2006 - Proceedings. Fourteenth International Conference on Intelligent Systems for Molecular Biology / Bioinformatics, 22 (14) pp. e35-9.
[Pmid][serval:BIB_6708DD575B2F]
 
PROTOGENE: turning amino acid alignments into bona fide CDS nucleotide alignments.
Moretti S., Reinier F., Poirot O., Armougom F., Audic S., Keduas V., Notredame C., 2006/07. Nucleic Acids Research, 34 (Web Server issue) pp. W600-W603.
[DOI][Pmid][serval:BIB_F1F82A40F52D]
2005
 
Comparative analysis of early embryonic sunflower cDNA libraries.
Ben C Hewezi T Jardinaud M-F Bena F Ladouce N Moretti S Tamborindeguy C Liboz T Petitprez M, Gentzbittel L., 2005/01. Plant Mol Biol., 57 (2) pp. 255-70.
[Pmid][serval:BIB_FF4809ACAF0E]
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