Detecting overlapping protein complexes in protein-protein interaction networks von Nepusz, Tamás, Yu, Haiyuan, Paccanaro, Alberto

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Predicting the frequencies of drug side effects von Galeano, Diego, Li, Shantao, Gerstein, Mark, Paccanaro, Alberto

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Disease gene prediction for molecularly uncharacterized diseases von Cáceres, Juan J, Paccanaro, Alberto

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SCPS: a fast implementation of a spectral method for detecting protein families on a genome-wide scale von Nepusz, Tamás, Sasidharan, Rajkumar, Paccanaro, Alberto

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Protein function prediction for newly sequenced organisms von Torres, Mateo, Yang, Haixuan, Romero, Alfonso E., Paccanaro, Alberto

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The corrected gene proximity map for analyzing the 3D genome organization using Hi-C data von Ye, Cheng, Paccanaro, Alberto, Gerstein, Mark, Yan, Koon-Kiu

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Predicting interactions in protein networks by completing defective cliques von Yu, Haiyuan, Paccanaro, Alberto, Trifonov, Valery, Gerstein, Mark

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Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins von Hu, Pingzhao, Janga, Sarath Chandra, Babu, Mohan, Díaz-Mejía, J Javier, Butland, Gareth, Yang, Wenhong, Pogoutse, Oxana, Guo, Xinghua, Phanse, Sadhna, Wong, Peter, Chandran, Shamanta, Christopoulos, Constantine, Nazarians-Armavil, Anaies, Nasseri, Negin Karimi, Musso, Gabriel, Ali, Mehrab, Nazemof, Nazila, Eroukova, Veronika, Golshani, Ashkan, Paccanaro, Alberto, Greenblatt, Jack F, Moreno-Hagelsieb, Gabriel, Emili, Andrew

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Quantifying environmental adaptation of metabolic pathways in metagenomics von Gianoulis, Tara A, Raes, Jeroen, Patel, Prianka V, Bjornson, Robert, Korbel, Jan O, Letunic, Ivica, Yamada, Takuji, Paccanaro, Alberto, Jensen, Lars J, Snyder, Michael, Bork, Peer, Gerstein, Mark B

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Author Correction: Subclonal mutation selection in mouse lymphomagenesis identifies known cancer loci and suggests novel candidates von Webster, Philip, Dawes, Joanna C., Dewchand, Hamlata, Takacs, Katalin, Iadarola, Barbara, Bolt, Bruce J., Caceres, Juan J., Kaczor, Jakub, Dharmalingam, Gopuraja, Dore, Marian, Game, Laurence, Adejumo, Thomas, Elliott, James, Naresh, Kikkeri, Karimi, Mohammad, Rekopoulou, Katerina, Tan, Ge, Paccanaro, Alberto, Uren, Anthony G.

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Network modeling of patients' biomolecular profiles for clinical phenotype/outcome prediction von Gliozzo, Jessica, Perlasca, Paolo, Mesiti, Marco, Casiraghi, Elena, Vallacchi, Viviana, Vergani, Elisabetta, Frasca, Marco, Grossi, Giuliano, Petrini, Alessandro, Re, Matteo, Paccanaro, Alberto, Valentini, Giorgio

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Assessing the limits of genomic data integration for predicting protein networks von Lu, Long J, Xia, Yu, Paccanaro, Alberto, Yu, Haiyuan, Gerstein, Mark

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Clustering of Pseudomonas aeruginosa transcriptomes from planktonic cultures, developing and mature biofilms reveals distinct expression profiles von Waite, Richard D, Paccanaro, Alberto, Papakonstantinopoulou, Anastasia, Hurst, Jacob M, Saqi, Mansoor, Littler, Eddie, Curtis, Michael A

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OsWRKY22, a monocot WRKY gene, plays a role in the resistance response to blast von ABBRUSCATO, PAMELA, NEPUSZ, TAMÁS, MIZZI, LUCA, DEL CORVO, MARCELLO, MORANDINI, PIERO, FUMASONI, IRENE, MICHEL, CORINNE, PACCANARO, ALBERTO, GUIDERDONI, EMMANUEL, SCHAFFRATH, ULRICH, MOREL, JEAN-BENOÎT, PIFFANELLI, PIETRO, FAIVRE-RAMPANT, ODILE

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Subclonal mutation selection in mouse lymphomagenesis identifies known cancer loci and suggests novel candidates von Webster, Philip, Dawes, Joanna C., Dewchand, Hamlata, Takacs, Katalin, Iadarola, Barbara, Bolt, Bruce J., Caceres, Juan J., Kaczor, Jakub, Dharmalingam, Gopuraja, Dore, Marian, Game, Laurence, Adejumo, Thomas, Elliott, James, Naresh, Kikkeri, Karimi, Mohammad, Rekopoulou, Katerina, Tan, Ge, Paccanaro, Alberto, Uren, Anthony G.

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Machine learning prediction of side effects for drugs in clinical trials von Galeano, Diego, Paccanaro, Alberto

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Computational selection of transcriptomics experiments improves Guilt-by-Association analyses von Bhat, Prajwal, Yang, Haixuan, Bögre, László, Devoto, Alessandra, Paccanaro, Alberto

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LUMI-PCR: an Illumina platform ligation-mediated PCR protocol for integration site cloning, provides molecular quantitation of integration sites von Dawes, Joanna C., Webster, Philip, Iadarola, Barbara, Garcia-Diaz, Claudia, Dore, Marian, Bolt, Bruce J., Dewchand, Hamlata, Dharmalingam, Gopuraja, McLatchie, Alex P., Kaczor, Jakub, Caceres, Juan J., Paccanaro, Alberto, Game, Laurence, Parrinello, Simona, Uren, Anthony G.

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Improving GO semantic similarity measures by exploring the ontology beneath the terms and modelling uncertainty von HAIXUAN YANG, NEPUSZ, Tamás, PACCANARO, Alberto

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LanDis: the disease landscape explorer von Caniza, Horacio, Cáceres, Juan J, Torres, Mateo, Paccanaro, Alberto

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