| 2325 | -- | 2329 | Adam Roberts, Harold Pimentel, Cole Trapnell, Lior Pachter. Identification of novel transcripts in annotated genomes using RNA-Seq |
| 2330 | -- | 2337 | Fabian Menges, Giuseppe Narzisi, Bud Mishra. TotalReCaller: improved accuracy and performance via integrated alignment and base-calling |
| 2338 | -- | 2345 | Catherine Stamoulis, Rebecca A. Betensky. A novel signal processing approach for the detection of copy number variations in the human genome |
| 2346 | -- | 2353 | Hisanori Kiryu. Sufficient statistics and expectation maximization algorithms in phylogenetic tree models |
| 2354 | -- | 2360 | Robert C. McLeay, Chris J. Leat, Timothy L. Bailey. Tissue-specific prediction of directly regulated genes |
| 2361 | -- | 2367 | Peter Huggins, Shan Zhong, Idit Shiff, Rachel Beckerman, Oleg Laptenko, Carol Prives, Marcel H. Schulz, Itamar Simon, Ziv Bar-Joseph. DECOD: fast and accurate discriminative DNA motif finding |
| 2368 | -- | 2375 | Alexander Goncearenco, Igor N. Berezovsky. Computational reconstruction of primordial prototypes of elementary functional loops in modern proteins |
| 2376 | -- | 2383 | Miguel Rojas-Chertó, Piotr T. Kasper, Egon L. Willighagen, Rob J. Vreeken, Thomas Hankemeier, Theo H. Reijmers. Elemental composition determination based on MS:::::::n::::::: |
| 2384 | -- | 2390 | Ivano Bertini, David A. Case, Lucio Ferella, Andrea Giachetti, Antonio Rosato. A Grid-enabled web portal for NMR structure refinement with AMBER |
| 2391 | -- | 2398 | Mikhail Jiline, Stan Matwin, Marcel Turcotte. Annotation concept synthesis and enrichment analysis: a logic-based approach to the interpretation of high-throughput experiments |
| 2399 | -- | 2405 | Yuichi Shiraishi, Mariko Okada-Hatakeyama, Satoru Miyano. A rank-based statistical test for measuring synergistic effects between two gene sets |
| 2406 | -- | 2413 | Yiming Lu, Yang Zhou, Wubin Qu, Minghua Deng, Chenggang Zhang. A Lasso regression model for the construction of microRNA-target regulatory networks |
| 2414 | -- | 2421 | Tiago J. S. Lopes, Martin Schaefer, Jason Shoemaker, Yukiko Matsuoka, Jean-Fred Fontaine, Gabriele Neumann, Miguel A. Andrade-Navarro, Yoshihiro Kawaoka, Hiroaki Kitano. Tissue-specific subnetworks and characteristics of publicly available human protein interaction databases |
| 2422 | -- | 2425 | Alan Tan, Ben W. Tripp, Denise Daley. BRISK - research-oriented storage kit for biology-related data |
| 2426 | -- | 2428 | Daniel Blankenberg, James Taylor, Anton Nekrutenko, The Galaxy Team. Making whole genome multiple alignments usable for biologists |
| 2429 | -- | 2430 | Mitchell J. Brittnacher, Christine Fong, H. S. Hayden, M. A. Jacobs, Matthew Radey, Laurence Rohmer. PGAT: a multistrain analysis resource for microbial genomes |
| 2431 | -- | 2432 | Matthew Z. DeMaere, Federico M. Lauro, Torsten Thomas, Sheree Yau, Ricardo Cavicchioli. Simple high-throughput annotation pipeline (SHAP) |
| 2433 | -- | 2434 | Lucian Ilie, Silvana Ilie, Anahita Mansouri Bigvand. SpEED: fast computation of sensitive spaced seeds |
| 2435 | -- | 2436 | Brent Pedersen, Tzung-Fu Hsieh, Christian Ibarra, Robert L. Fischer. MethylCoder: software pipeline for bisulfite-treated sequences |
| 2437 | -- | 2438 | Jonathan M. Eastman, C. E. Timothy Paine, Olivier J. Hardy. spacodiR: structuring of phylogenetic diversity in ecological communities |
| 2439 | -- | 2440 | Martin Ryberg, R. Henrik Nilsson, P. Brandon Matheny. DivBayes and SubT: exploring species diversification using Bayesian statistics |
| 2441 | -- | 2442 | Magdalena Rother, Kaja Milanowska, Tomasz Puton, Jaroslaw Jeleniewicz, Kristian Rother, Janusz M. Bujnicki. ModeRNA server: an online tool for modeling RNA 3D structures |
| 2443 | -- | 2445 | J. Y. Semegni, M. Wamalwa, R. Gaujoux, G. W. Harkins, A. Gray, D. P. Martin. NASP: a parallel program for identifying evolutionarily conserved nucleic acid secondary structures from nucleotide sequence alignments |
| 2446 | -- | 2447 | Francesco Ferrari, Aldo Solari, Cristina Battaglia, Silvio Bicciato. ::::PREDA::::: an R-package to identify regional variations in genomic data |
| 2448 | -- | 2450 | Asif Javed, Marc Pybus, Marta Melé, Filippo Utro, Jaume Bertranpetit, Francesc Calafell, Laxmi Parida. IRiS: Construction of ARG networks at genomic scales |
| 2451 | -- | 2452 | Jan Bot, Marcel J. T. Reinders. CytoscapeRPC: a plugin to create, modify and query Cytoscape networks from scripting languages |
| 2453 | -- | 2454 | Mark Longair, Dean A. Baker, J. Douglas Armstrong. Simple Neurite Tracer: open source software for reconstruction, visualization and analysis of neuronal processes |
| 2455 | -- | 2456 | Jianguo Xia, Igor Sinelnikov, David S. Wishart. MetATT: a web-based metabolomics tool for analyzing time-series and two-factor datasets |
| 2457 | -- | 2458 | Kevin R. Sanft, Sheng Wu, Min Roh, Jin Fu, Rone Kwei Lim, Linda R. Petzold. StochKit2: software for discrete stochastic simulation of biochemical systems with events |
| 2459 | -- | 2462 | Andrea Pinna, Nicola Soranzo, Ina Hoeschele, Alberto de la Fuente. Simulating systems genetics data with SysGenSIM |
| 2463 | -- | 2464 | Ulrich Bodenhofer, Andreas Kothmeier, Sepp Hochreiter. APCluster: an R package for affinity propagation clustering |
| 2465 | -- | 2467 | Qian-Nan Hu, Zhe Deng, Huanan Hu, Dong-Sheng Cao, Yi-Zeng Liang. RxnFinder: biochemical reaction search engines using molecular structures, molecular fragments and reaction similarity |
| 2468 | -- | 2470 | Natalja Kurbatova, Tomasz Adamusiak, Pavel Kurnosov, Morris A. Swertz, Misha Kapushesky. ontoCAT: an R package for ontology traversal and search |
| 2471 | -- | 2472 | Euna Jeong, Masao Nagasaki, Emi Ikeda, Yayoi Sekiya, Ayumu Saito, Satoru Miyano. CSO validator: improving manual curation workflow for biological pathways |