| 451 | -- | 452 | Julia Hoeng, Manuel C. Peitsch, Pablo Meyer, Igor Jurisica. Where are we at regarding species translation? A review of the sbv IMPROVER challenge |
| 453 | -- | 461 | Michael Biehl, Peter Sadowski, Gyan Bhanot, Erhan Bilal, Adel Dayarian, Pablo Meyer, Raquel Norel, Kahn Rhrissorrakrai, Michael D. Zeller, Sahand Hormoz. Inter-species prediction of protein phosphorylation in the sbv IMPROVER species translation challenge |
| 462 | -- | 470 | Adel Dayarian, Roberto Romero, Zhiming Wang, Michael Biehl, Erhan Bilal, Sahand Hormoz, Pablo Meyer, Raquel Norel, Kahn Rhrissorrakrai, Gyan Bhanot, Feng Luo, Adi L. Tarca. Predicting protein phosphorylation from gene expression: top methods from the IMPROVER Species Translation Challenge |
| 471 | -- | 483 | Kahn Rhrissorrakrai, Vincenzo Belcastro, Erhan Bilal, Raquel Norel, Carine Poussin, Carole Mathis, Rémi H. J. Dulize, Nikolai V. Ivanov, Leonidas G. Alexopoulos, John Jeremy Rice, Manuel C. Peitsch, Gustavo Stolovitzky, Pablo Meyer, Julia Hoeng. Understanding the limits of animal models as predictors of human biology: lessons learned from the sbv IMPROVER Species Translation Challenge |
| 484 | -- | 491 | Erhan Bilal, Theodore Sakellaropoulos, Challenge Participants, Ioannis N. Melas, Dimitris E. Messinis, Vincenzo Belcastro, Kahn Rhrissorrakrai, Pablo Meyer, Raquel Norel, Anita Iskandar, Elise Blaese, John Jeremy Rice, Manuel C. Peitsch, Julia Hoeng, Gustavo Stolovitzky, Leonidas G. Alexopoulos, Carine Poussin. A crowd-sourcing approach for the construction of species-specific cell signaling networks |
| 492 | -- | 500 | Sahand Hormoz, Gyan Bhanot, Michael Biehl, Erhan Bilal, Pablo Meyer, Raquel Norel, Kahn Rhrissorrakrai, Adel Dayarian. Inter-species inference of gene set enrichment in lung epithelial cells from proteomic and large transcriptomic datasets |
| 501 | -- | 508 | Christoph Hafemeister, Roberto Romero, Erhan Bilal, Pablo Meyer, Raquel Norel, Kahn Rhrissorrakrai, Richard Bonneau, Adi L. Tarca. Inter-species pathway perturbation prediction via data-driven detection of functional homology |
| 509 | -- | 514 | Nilesh Khiste, Lucian Ilie. E-MEM: efficient computation of maximal exact matches for very large genomes |
| 515 | -- | 522 | Chang-Chang Cao, Xiao Sun. Accurate estimation of haplotype frequency from pooled sequencing data and cost-effective identification of rare haplotype carriers by overlapping pool sequencing |
| 523 | -- | 531 | Yi-Fei Huang, Geoffrey Brian Golding. FuncPatch: a web server for the fast Bayesian inference of conserved functional patches in protein 3D structures |
| 532 | -- | 538 | Fei Deng, Lusheng Wang, Xiaowen Liu. An efficient algorithm for the blocked pattern matching problem |
| 539 | -- | 544 | Ambrish Roy, Jeffrey Skolnick. LIGSIFT: an open-source tool for ligand structural alignment and virtual screening |
| 545 | -- | 554 | Neo Christopher Chung, John D. Storey. Statistical significance of variables driving systematic variation in high-dimensional data |
| 555 | -- | 562 | Johan Teleman, Hannes L. Röst, George Rosenberger, Uwe Schmitt, Lars Malmström, Johan Malmström, Fredrik Levander. DIANA - algorithmic improvements for analysis of data-independent acquisition MS data |
| 563 | -- | 571 | Shining Ma, Tao Jiang, Rui Jiang. Differential regulation enrichment analysis via the integration of transcriptional regulatory network and gene expression data |
| 572 | -- | 580 | Hong-Qiang Wang, Chun-Hou Zheng, Xing-Ming Zhao. jNMFMA: a joint non-negative matrix factorization meta-analysis of transcriptomics data |
| 581 | -- | 586 | Vassiliki A. Gkantouna, Manousos E. Kambouris, Emmanouil Viennas, Zafeiria-Marina Ioannou, Michael Paraskevas, George Lagoumintzis, Zoi Zagoriti, George P. Patrinos, Giannis E. Tzimas, Konstantinos Poulas. Introducing dAUTObase: a first step towards the global scale geoepidemiology of autoimmune syndromes and diseases |
| 587 | -- | 589 | David Coil, Guillaume Jospin, Aaron E. Darling. A5-miseq: an updated pipeline to assemble microbial genomes from Illumina MiSeq data |
| 590 | -- | 592 | Pavel Petrenko, Andrew C. Doxey. mimicMe: a web server for prediction and analysis of host-like proteins in microbial pathogens |
| 593 | -- | 595 | Bo W. Han, Wei Wang, Phillip D. Zamore, Zhiping Weng. piPipes: a set of pipelines for piRNA and transposon analysis via small RNA-seq, RNA-seq, degradome- and CAGE-seq, ChIP-seq and genomic DNA sequencing |
| 596 | -- | 598 | Insu Jang, Hyeshik Chang, Yukyung Jun, Seong-Jin Park, Jin Ok Yang, Byungwook Lee, Wan Kyu Kim, V. Narry Kim, Sanghyuk Lee. miRseqViewer: multi-panel visualization of sequence, structure and expression for analysis of microRNA sequencing data |
| 599 | -- | 601 | Cali E. Willet, Bianca Haase, Michael A. Charleston, Claire M. Wade. Simple, rapid and accurate genotyping-by-sequencing from aligned whole genomes with ArrayMaker |
| 602 | -- | 603 | Daniel Beck, Christopher Dennis, James A. Foster. Seed: a user-friendly tool for exploring and visualizing microbial community data |
| 604 | -- | 605 | Rob Johnson, Paul D. W. Kirk, Michael P. H. Stumpf. SYSBIONS: nested sampling for systems biology |
| 606 | -- | 607 | Mehrnoush Malek, Mohammad Jafar Taghiyar, Lauren Chong, Greg Finak, Raphael Gottardo, Ryan R. Brinkman. flowDensity: reproducing manual gating of flow cytometry data by automated density-based cell population identification |
| 608 | -- | 609 | Guangchuang Yu, Li-Gen Wang, Guang-Rong Yan, Qing-Yu He. DOSE: an R/Bioconductor package for disease ontology semantic and enrichment analysis |
| 610 | -- | 611 | James J. Kelley, Anatoliy Lane, Xiaowei Li, Brahmaji Mutthoju, Shay Maor, Dennis Egen, Desmond S. Lun. MOST: a software environment for constraint-based metabolic modeling and strain design |
| 612 | -- | 613 | Teresa Juan-Blanco, Miquel Duran-Frigola, Patrick Aloy. IntSide: a web server for the chemical and biological examination of drug side effects |
| 614 | -- | 615 | Iain H. Moal, Juan Fernández-Recio. Comment on 'protein-protein binding affinity prediction from amino acid sequence' |
| 616 | -- | 617 | Peter D. Karp, Bonnie Berger, Diane E. Kovats, Thomas Lengauer, Michal Linial, Pardis Sabeti, Winston Hide, Burkhard Rost. Message from the ISCB: ISCB Ebola award for important future research on the computational biology of Ebola virus |
| 618 | -- | 0 | Yi Li, Xiaohui Xie. Deconvolving tumor purity and ploidy by integrating copy number alterations and loss of heterozygosity |
| 619 | -- | 0 | Gerard Wong, Jeffrey Chan, Bronwyn A. Kingwell, Christopher Leckie, Peter J. Meikle. LICRE: unsupervised feature correlation reduction for lipidomics |