Sfoglia per Autore
BUSCA: An integrative web server to predict subcellular localization of proteins
2018 Savojardo, Castrense; Martelli, Pier Luigi*; Fariselli, Piero; Profiti, Giuseppe; Casadio, Rita
DeepSig: deep learning improves signal peptide detection in proteins
2018 Savojardo, Castrense; Martelli, Pier Luigi; Fariselli, Piero; Casadio, Rita
Integrating ELIXIR Italy with ELIXIR Interoperability platform activities
2018 Martelli PL, Profiti G, Casadio R, Savojardo C
BUSCA is a web server for predicting subcellular localization of proteins
2018 Savojardo, Castrense; Martelli, Pier Luigi; Fariselli, Piero; Profiti, Giuseppe; Casadio, Rita
DeepSig is a software package and web server to predict signal peptides in proteins
2018 Savojardo, Castrense; Martelli, Pier Luigi; Fariselli, Piero; Casadio, Rita
Transmembrane Domain Prediction
2018 Pier Luigi Martelli, Castrense Savojardo, Giuseppe Profiti, Rita Casadio
Assessing predictions of the impact of variants on splicing in CAGI5
2019 Mount S.M.; Avsec Z.; Carmel L.; Casadio R.; Celik M.H.; Chen K.; Cheng J.; Cohen N.E.; Fairbrother W.G.; Fenesh T.; Gagneur J.; Gotea V.; Holzer T.; Lin C.-F.; Martelli P.L.; Naito T.; Nguyen T.Y.D.; Savojardo C.; Unger R.; Wang R.; Yang Y.; Zhao H.
The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens
2019 Zhou N.; Jiang Y.; Bergquist T.R.; Lee A.J.; Kacsoh B.Z.; Crocker A.W.; Lewis K.A.; Georghiou G.; Nguyen H.N.; Hamid M.N.; Davis L.; Dogan T.; Atalay V.; Rifaioglu A.S.; Dalklran A.; Cetin Atalay R.; Zhang C.; Hurto R.L.; Freddolino P.L.; Zhang Y.; Bhat P.; Supek F.; Fernandez J.M.; Gemovic B.; Perovic V.R.; Davidovic R.S.; Sumonja N.; Veljkovic N.; Asgari E.; Mofrad M.R.K.; Profiti G.; Savojardo C.; Martelli P.L.; Casadio R.; Boecker F.; Schoof H.; Kahanda I.; Thurlby N.; McHardy A.C.; Renaux A.; Saidi R.; Gough J.; Freitas A.A.; Antczak M.; Fabris F.; Wass M.N.; Hou J.; Cheng J.; Wang Z.; Romero A.E.; Paccanaro A.; Yang H.; Goldberg T.; Zhao C.; Holm L.; Toronen P.; Medlar A.J.; Zosa E.; Borukhov I.; Novikov I.; Wilkins A.; Lichtarge O.; Chi P.-H.; Tseng W.-C.; Linial M.; Rose P.W.; Dessimoz C.; Vidulin V.; Dzeroski S.; Sillitoe I.; Das S.; Lees J.G.; Jones D.T.; Wan C.; Cozzetto D.; Fa R.; Torres M.; Warwick Vesztrocy A.; Rodriguez J.M.; Tress M.L.; Frasca M.; Notaro M.; Grossi G.; Petrini A.; Re M.; Valentini G.; Mesiti M.; Roche D.B.; Reeb J.; Ritchie D.W.; Aridhi S.; Alborzi S.Z.; Devignes M.-D.; Koo D.C.E.; Bonneau R.; Gligorijevic V.; Barot M.; Fang H.; Toppo S.; Lavezzo E.; Falda M.; Berselli M.; Tosatto S.C.E.; Carraro M.; Piovesan D.; Ur Rehman H.; Mao Q.; Zhang S.; Vucetic S.; Black G.S.; Jo D.; Suh E.; Dayton J.B.; Larsen D.J.; Omdahl A.R.; McGuffin L.J.; Brackenridge D.A.; Babbitt P.C.; Yunes J.M.; Fontana P.; Zhang F.; Zhu S.; You R.; Zhang Z.; Dai S.; Yao S.; Tian W.; Cao R.; Chandler C.; Amezola M.; Johnson D.; Chang J.-M.; Liao W.-H.; Liu Y.-W.; Pascarelli S.; Frank Y.; Hoehndorf R.; Kulmanov M.; Boudellioua I.; Politano G.; Di Carlo S.; Benso A.; Hakala K.; Ginter F.; Mehryary F.; Kaewphan S.; Bjorne J.; Moen H.; Tolvanen M.E.E.; Salakoski T.; Kihara D.; Jain A.; Smuc T.; Altenhoff A.; Ben-Hur A.; Rost B.; Brenner S.E.; Orengo C.A.; Jeffery C.J.; Bosco G.; Hogan D.A.; Martin M.J.; O'Donovan C.; Mooney S.D.; Greene C.S.; Radivojac P.; Friedberg I.
Predicting venous thromboembolism risk from exomes in the Critical Assessment of Genome Interpretation (CAGI) challenges
2019 McInnes, Gregory; Daneshjou, Roxana; Katsonis, Panagiostis; Lichtarge, Olivier; Srinivasan, Raj G; Rana, Sadhna; Radivojac, Predrag; Mooney, Sean D; Pagel, Kymberleigh A; Stamboulian, Moses; Jiang, Yuxiang; Capriotti, Emidio; Wang, Yanran; Bromberg, Yana; Bovo, Samuele; Savojardo, Castrense; Martelli, Pier Luigi; Casadio, Rita; Pal, Lipika R; Moult, John; Brenner, Steven; Altman, Russ
Assessment of blind predictions of the clinical significance of BRCA1 and BRCA2 variants
2019 Melissa S. Cline,Giulia Babbi,Sandra Bonache,Yue Cao,Rita Casadio,Xavier de la Cruz,Orland Díez,Sara Gutiérrez‐Enríquez,Panagiotis Katsonis,Carmen Lai,Olivier Lichtarge,Pier L. Martelli,Gilad Mishne,Alejandro Moles‐Fernández,Gemma Montalban,Sean D. Mooney,Robert O'Conner,Lars Ootes,Selen Özkan,Natalia Padilla,Kymberleigh A. Pagel,Vikas Pejaver,Predrag Radivojac,Casandra Riera,Castrense Savojardo,Yang Shen,Yuanfei Sun,Scott Topper,Michael T. Parsons,Amanda B. Spurdle,David E. Goldgar,The ENIGMA Consortium
Assessing the performance of in silico methods for predicting the pathogenicity of variants in the gene CHEK2, among Hispanic females with breast cancer
2019 Voskanian A.; Katsonis P.; Lichtarge O.; Pejaver V.; Radivojac P.; Mooney S.D.; Capriotti E.; Bromberg Y.; Wang Y.; Miller M.; Martelli P.L.; Savojardo C.; Babbi G.; Casadio R.; Cao Y.; Sun Y.; Shen Y.; Garg A.; Pal D.; Yu Y.; Huff C.D.; Tavtigian S.V.; Young E.; Neuhausen S.L.; Ziv E.; Pal L.R.; Andreoletti G.; Brenner S.E.; Kann M.G.
Performance of computational methods for the evaluation of pericentriolar material 1 missense variants in CAGI-5
2019 Monzon A.M.; Carraro M.; Chiricosta L.; Reggiani F.; Han J.; Ozturk K.; Wang Y.; Miller M.; Bromberg Y.; Capriotti E.; Savojardo C.; Babbi G.; Martelli P.L.; Casadio R.; Katsonis P.; Lichtarge O.; Carter H.; Kousi M.; Katsanis N.; Andreoletti G.; Moult J.; Brenner S.E.; Ferrari C.; Leonardi E.; Tosatto S.C.E.
Evaluating the predictions of the protein stability change upon single amino acid substitutions for the FXN CAGI5 challenge
2019 Savojardo C.; Petrosino M.; Babbi G.; Bovo S.; Corbi-Verge C.; Casadio R.; Fariselli P.; Folkman L.; Garg A.; Karimi M.; Katsonis P.; Kim P.M.; Lichtarge O.; Martelli P.L.; Pasquo A.; Pal D.; Shen Y.; Strokach A.V.; Turina P.; Zhou Y.; Andreoletti G.; Brenner S.E.; Chiaraluce R.; Consalvi V.; Capriotti E.
Draft genomes and genomic divergence of two Lepidurus tadpole shrimp species (Crustacea, Branchiopoda, Notostraca)
2019 Savojardo, Castrense; Luchetti, Andrea*; Martelli, Pier Luigi; Casadio, Rita; Mantovani, Barbara
Are machine learning based methods suited to address complex biological problems? Lessons from CAGI-5 challenges
2019 Savojardo, Castrense; Babbi, Giulia; Bovo, Samuele; Capriotti, Emidio; Martelli, Pier Luigi; Casadio, Rita
Functional and Structural Features of Disease-Related Protein Variants
2019 Savojardo, Castrense; Babbi, Giulia; Martelli, Pier Luigi; Casadio, Rita
Assessment of methods for predicting the effects of PTEN and TPMT protein variants
2019 Pejaver V.; Babbi G.; Casadio R.; Folkman L.; Katsonis P.; Kundu K.; Lichtarge O.; Martelli P.L.; Miller M.; Moult J.; Pal L.R.; Savojardo C.; Yin Y.; Zhou Y.; Radivojac P.; Bromberg Y.
Assessment of predicted enzymatic activity of α-N-acetylglucosaminidase variants of unknown significance for CAGI 2016
2019 Clark W.T.; Kasak L.; Bakolitsa C.; Hu Z.; Andreoletti G.; Babbi G.; Bromberg Y.; Casadio R.; Dunbrack R.; Folkman L.; Ford C.T.; Jones D.; Katsonis P.; Kundu K.; Lichtarge O.; Martelli P.L.; Mooney S.D.; Nodzak C.; Pal L.R.; Radivojac P.; Savojardo C.; Shi X.; Zhou Y.; Uppal A.; Xu Q.; Yin Y.; Pejaver V.; Wang M.; Wei L.; Moult J.; Yu G.K.; Brenner S.E.; LeBowitz J.H.
Assessing predictions on fitness effects of missense variants in calmodulin
2019 Zhang J.; Kinch L.N.; Cong Q.; Katsonis P.; Lichtarge O.; Savojardo C.; Babbi G.; Martelli P.L.; Capriotti E.; Casadio R.; Garg A.; Pal D.; Weile J.; Sun S.; Verby M.; Roth F.P.; Grishin N.V.
Assessing computational predictions of the phenotypic effect of cystathionine-beta-synthase variants
2019 Kasak L.; Bakolitsa C.; Hu Z.; Yu C.; Rine J.; Dimster-Denk D.F.; Pandey G.; De Baets G.; Bromberg Y.; Cao C.; Capriotti E.; Casadio R.; Van Durme J.; Giollo M.; Karchin R.; Katsonis P.; Leonardi E.; Lichtarge O.; Martelli P.L.; Masica D.; Mooney S.D.; Olatubosun A.; Radivojac P.; Rousseau F.; Pal L.R.; Savojardo C.; Schymkowitz J.; Thusberg J.; Tosatto S.C.E.; Vihinen M.; Valiaho J.; Repo S.; Moult J.; Brenner S.E.; Friedberg I.
| Titolo | Autore(i) | Anno | Periodico | Editore | Tipo | File |
|---|---|---|---|---|---|---|
| BUSCA: An integrative web server to predict subcellular localization of proteins | Savojardo, Castrense; Martelli, Pier Luigi*; Fariselli, Piero; Profiti, Giuseppe; Casadio, Rita | 2018-01-01 | NUCLEIC ACIDS RESEARCH | - | 1.01 Articolo in rivista | gky320.pdf; gky320_supplemental_table.docx |
| DeepSig: deep learning improves signal peptide detection in proteins | Savojardo, Castrense; Martelli, Pier Luigi; Fariselli, Piero; Casadio, Rita | 2018-01-01 | BIOINFORMATICS | - | 1.01 Articolo in rivista | btx818.pdf; btx818_supplementary.pdf |
| Integrating ELIXIR Italy with ELIXIR Interoperability platform activities | Martelli PL, Profiti G, Casadio R, Savojardo C | 2018-01-01 | - | - | 4.03 Poster | f1000research-207674.pdf |
| BUSCA is a web server for predicting subcellular localization of proteins | Savojardo, Castrense; Martelli, Pier Luigi; Fariselli, Piero; Profiti, Giuseppe; Casadio, Rita | 2018-01-01 | - | - | 7.04 Software | - |
| DeepSig is a software package and web server to predict signal peptides in proteins | Savojardo, Castrense; Martelli, Pier Luigi; Fariselli, Piero; Casadio, Rita | 2018-01-01 | - | - | 7.04 Software | - |
| Transmembrane Domain Prediction | Pier Luigi Martelli, Castrense Savojardo, Giuseppe Profiti, Rita Casadio | 2018-01-01 | - | Academic Press | 2.01 Capitolo / saggio in libro | - |
| Assessing predictions of the impact of variants on splicing in CAGI5 | Mount S.M.; Avsec Z.; Carmel L.; Casadio R.; Celik M.H.; Chen K.; Cheng J.; Cohen N.E.; Fairbroth...er W.G.; Fenesh T.; Gagneur J.; Gotea V.; Holzer T.; Lin C.-F.; Martelli P.L.; Naito T.; Nguyen T.Y.D.; Savojardo C.; Unger R.; Wang R.; Yang Y.; Zhao H. | 2019-01-01 | HUMAN MUTATION | - | 1.01 Articolo in rivista | - |
| The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens | Zhou N.; Jiang Y.; Bergquist T.R.; Lee A.J.; Kacsoh B.Z.; Crocker A.W.; Lewis K.A.; Georghiou G.;... Nguyen H.N.; Hamid M.N.; Davis L.; Dogan T.; Atalay V.; Rifaioglu A.S.; Dalklran A.; Cetin Atalay R.; Zhang C.; Hurto R.L.; Freddolino P.L.; Zhang Y.; Bhat P.; Supek F.; Fernandez J.M.; Gemovic B.; Perovic V.R.; Davidovic R.S.; Sumonja N.; Veljkovic N.; Asgari E.; Mofrad M.R.K.; Profiti G.; Savojardo C.; Martelli P.L.; Casadio R.; Boecker F.; Schoof H.; Kahanda I.; Thurlby N.; McHardy A.C.; Renaux A.; Saidi R.; Gough J.; Freitas A.A.; Antczak M.; Fabris F.; Wass M.N.; Hou J.; Cheng J.; Wang Z.; Romero A.E.; Paccanaro A.; Yang H.; Goldberg T.; Zhao C.; Holm L.; Toronen P.; Medlar A.J.; Zosa E.; Borukhov I.; Novikov I.; Wilkins A.; Lichtarge O.; Chi P.-H.; Tseng W.-C.; Linial M.; Rose P.W.; Dessimoz C.; Vidulin V.; Dzeroski S.; Sillitoe I.; Das S.; Lees J.G.; Jones D.T.; Wan C.; Cozzetto D.; Fa R.; Torres M.; Warwick Vesztrocy A.; Rodriguez J.M.; Tress M.L.; Frasca M.; Notaro M.; Grossi G.; Petrini A.; Re M.; Valentini G.; Mesiti M.; Roche D.B.; Reeb J.; Ritchie D.W.; Aridhi S.; Alborzi S.Z.; Devignes M.-D.; Koo D.C.E.; Bonneau R.; Gligorijevic V.; Barot M.; Fang H.; Toppo S.; Lavezzo E.; Falda M.; Berselli M.; Tosatto S.C.E.; Carraro M.; Piovesan D.; Ur Rehman H.; Mao Q.; Zhang S.; Vucetic S.; Black G.S.; Jo D.; Suh E.; Dayton J.B.; Larsen D.J.; Omdahl A.R.; McGuffin L.J.; Brackenridge D.A.; Babbitt P.C.; Yunes J.M.; Fontana P.; Zhang F.; Zhu S.; You R.; Zhang Z.; Dai S.; Yao S.; Tian W.; Cao R.; Chandler C.; Amezola M.; Johnson D.; Chang J.-M.; Liao W.-H.; Liu Y.-W.; Pascarelli S.; Frank Y.; Hoehndorf R.; Kulmanov M.; Boudellioua I.; Politano G.; Di Carlo S.; Benso A.; Hakala K.; Ginter F.; Mehryary F.; Kaewphan S.; Bjorne J.; Moen H.; Tolvanen M.E.E.; Salakoski T.; Kihara D.; Jain A.; Smuc T.; Altenhoff A.; Ben-Hur A.; Rost B.; Brenner S.E.; Orengo C.A.; Jeffery C.J.; Bosco G.; Hogan D.A.; Martin M.J.; O'Donovan C.; Mooney S.D.; Greene C.S.; Radivojac P.; Friedberg I. | 2019-01-01 | GENOME BIOLOGY | - | 1.01 Articolo in rivista | s13059-019-1835-8.pdf |
| Predicting venous thromboembolism risk from exomes in the Critical Assessment of Genome Interpretation (CAGI) challenges | McInnes, Gregory; Daneshjou, Roxana; Katsonis, Panagiostis; Lichtarge, Olivier; Srinivasan, Raj G...; Rana, Sadhna; Radivojac, Predrag; Mooney, Sean D; Pagel, Kymberleigh A; Stamboulian, Moses; Jiang, Yuxiang; Capriotti, Emidio; Wang, Yanran; Bromberg, Yana; Bovo, Samuele; Savojardo, Castrense; Martelli, Pier Luigi; Casadio, Rita; Pal, Lipika R; Moult, John; Brenner, Steven; Altman, Russ | 2019-01-01 | HUMAN MUTATION | - | 1.01 Articolo in rivista | - |
| Assessment of blind predictions of the clinical significance of BRCA1 and BRCA2 variants | Melissa S. Cline,Giulia Babbi,Sandra Bonache,Yue Cao,Rita Casadio,Xavier de la Cruz,Orland Díez,S...ara Gutiérrez‐Enríquez,Panagiotis Katsonis,Carmen Lai,Olivier Lichtarge,Pier L. Martelli,Gilad Mishne,Alejandro Moles‐Fernández,Gemma Montalban,Sean D. Mooney,Robert O'Conner,Lars Ootes,Selen Özkan,Natalia Padilla,Kymberleigh A. Pagel,Vikas Pejaver,Predrag Radivojac,Casandra Riera,Castrense Savojardo,Yang Shen,Yuanfei Sun,Scott Topper,Michael T. Parsons,Amanda B. Spurdle,David E. Goldgar,The ENIGMA Consortium | 2019-01-01 | HUMAN MUTATION | - | 1.01 Articolo in rivista | - |
| Assessing the performance of in silico methods for predicting the pathogenicity of variants in the gene CHEK2, among Hispanic females with breast cancer | Voskanian A.; Katsonis P.; Lichtarge O.; Pejaver V.; Radivojac P.; Mooney S.D.; Capriotti E.; Bro...mberg Y.; Wang Y.; Miller M.; Martelli P.L.; Savojardo C.; Babbi G.; Casadio R.; Cao Y.; Sun Y.; Shen Y.; Garg A.; Pal D.; Yu Y.; Huff C.D.; Tavtigian S.V.; Young E.; Neuhausen S.L.; Ziv E.; Pal L.R.; Andreoletti G.; Brenner S.E.; Kann M.G. | 2019-01-01 | HUMAN MUTATION | - | 1.01 Articolo in rivista | - |
| Performance of computational methods for the evaluation of pericentriolar material 1 missense variants in CAGI-5 | Monzon A.M.; Carraro M.; Chiricosta L.; Reggiani F.; Han J.; Ozturk K.; Wang Y.; Miller M.; Bromb...erg Y.; Capriotti E.; Savojardo C.; Babbi G.; Martelli P.L.; Casadio R.; Katsonis P.; Lichtarge O.; Carter H.; Kousi M.; Katsanis N.; Andreoletti G.; Moult J.; Brenner S.E.; Ferrari C.; Leonardi E.; Tosatto S.C.E. | 2019-01-01 | HUMAN MUTATION | - | 1.01 Articolo in rivista | - |
| Evaluating the predictions of the protein stability change upon single amino acid substitutions for the FXN CAGI5 challenge | Savojardo C.; Petrosino M.; Babbi G.; Bovo S.; Corbi-Verge C.; Casadio R.; Fariselli P.; Folkman ...L.; Garg A.; Karimi M.; Katsonis P.; Kim P.M.; Lichtarge O.; Martelli P.L.; Pasquo A.; Pal D.; Shen Y.; Strokach A.V.; Turina P.; Zhou Y.; Andreoletti G.; Brenner S.E.; Chiaraluce R.; Consalvi V.; Capriotti E. | 2019-01-01 | HUMAN MUTATION | - | 1.01 Articolo in rivista | Savojardo_et_al-2019-Human_Mutation(1).pdf |
| Draft genomes and genomic divergence of two Lepidurus tadpole shrimp species (Crustacea, Branchiopoda, Notostraca) | Savojardo, Castrense; Luchetti, Andrea*; Martelli, Pier Luigi; Casadio, Rita; Mantovani, Barbara | 2019-01-01 | MOLECULAR ECOLOGY RESOURCES | - | 1.01 Articolo in rivista | Savojardo_et_al-2019-Molecular_Ecology_Resources.pdf |
| Are machine learning based methods suited to address complex biological problems? Lessons from CAGI-5 challenges | Savojardo, Castrense; Babbi, Giulia; Bovo, Samuele; Capriotti, Emidio; Martelli, Pier Luigi; Casa...dio, Rita | 2019-01-01 | HUMAN MUTATION | - | 1.01 Articolo in rivista | - |
| Functional and Structural Features of Disease-Related Protein Variants | Savojardo, Castrense; Babbi, Giulia; Martelli, Pier Luigi; Casadio, Rita | 2019-01-01 | INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES | - | 1.01 Articolo in rivista | ijms-20-01530.pdf |
| Assessment of methods for predicting the effects of PTEN and TPMT protein variants | Pejaver V.; Babbi G.; Casadio R.; Folkman L.; Katsonis P.; Kundu K.; Lichtarge O.; Martelli P.L.;... Miller M.; Moult J.; Pal L.R.; Savojardo C.; Yin Y.; Zhou Y.; Radivojac P.; Bromberg Y. | 2019-01-01 | HUMAN MUTATION | - | 1.01 Articolo in rivista | - |
| Assessment of predicted enzymatic activity of α-N-acetylglucosaminidase variants of unknown significance for CAGI 2016 | Clark W.T.; Kasak L.; Bakolitsa C.; Hu Z.; Andreoletti G.; Babbi G.; Bromberg Y.; Casadio R.; Dun...brack R.; Folkman L.; Ford C.T.; Jones D.; Katsonis P.; Kundu K.; Lichtarge O.; Martelli P.L.; Mooney S.D.; Nodzak C.; Pal L.R.; Radivojac P.; Savojardo C.; Shi X.; Zhou Y.; Uppal A.; Xu Q.; Yin Y.; Pejaver V.; Wang M.; Wei L.; Moult J.; Yu G.K.; Brenner S.E.; LeBowitz J.H. | 2019-01-01 | HUMAN MUTATION | - | 1.01 Articolo in rivista | - |
| Assessing predictions on fitness effects of missense variants in calmodulin | Zhang J.; Kinch L.N.; Cong Q.; Katsonis P.; Lichtarge O.; Savojardo C.; Babbi G.; Martelli P.L.; ...Capriotti E.; Casadio R.; Garg A.; Pal D.; Weile J.; Sun S.; Verby M.; Roth F.P.; Grishin N.V. | 2019-01-01 | HUMAN MUTATION | - | 1.01 Articolo in rivista | - |
| Assessing computational predictions of the phenotypic effect of cystathionine-beta-synthase variants | Kasak L.; Bakolitsa C.; Hu Z.; Yu C.; Rine J.; Dimster-Denk D.F.; Pandey G.; De Baets G.; Bromber...g Y.; Cao C.; Capriotti E.; Casadio R.; Van Durme J.; Giollo M.; Karchin R.; Katsonis P.; Leonardi E.; Lichtarge O.; Martelli P.L.; Masica D.; Mooney S.D.; Olatubosun A.; Radivojac P.; Rousseau F.; Pal L.R.; Savojardo C.; Schymkowitz J.; Thusberg J.; Tosatto S.C.E.; Vihinen M.; Valiaho J.; Repo S.; Moult J.; Brenner S.E.; Friedberg I. | 2019-01-01 | HUMAN MUTATION | - | 1.01 Articolo in rivista | - |
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