| 2959 | -- | 2963 | Mark Howison, Felipe Zapata, Casey W. Dunn. de novo sequence assembly |
| 2964 | -- | 2970 | Gary K. Chen, Xiao Chang, Christina Curtis, Kai Wang. Precise inference of copy number alterations in tumor samples from SNP arrays |
| 2971 | -- | 2978 | Jikun Wu, Wenqian Zhang, Songbo Huang, Zengquan He, Yanbing Cheng, Jun Wang, Tak Wah Lam, Zhiyu Peng, Siu-Ming Yiu. SOAPfusion: a robust and effective computational fusion discovery tool for RNA-seq reads |
| 2979 | -- | 2986 | Haitham Ashoor, Aurélie Hérault, Aurélie Kamoun, François Radvanyi, Vladimir B. Bajic, Emmanuel Barillot, Valentina Boeva. HMCan: a method for detecting chromatin modifications in cancer samples using ChIP-seq data |
| 2987 | -- | 2994 | Ashok Rajaraman, Eric Tannier, Cedric Chauve. FPSAC: fast phylogenetic scaffolding of ancient contigs |
| 2995 | -- | 3002 | Adam B. Olshen, Andrew C. Hsieh, Craig R. Stumpf, Richard A. Olshen, Davide Ruggero, Barry S. Taylor. Assessing gene-level translational control from ribosome profiling |
| 3003 | -- | 3006 | Brent S. Pedersen, Ivana V. Yang, Subhajyoti De. CruzDB: software for annotation of genomic intervals with UCSC genome-browser database |
| 3007 | -- | 3013 | Lauren J. Mills, William R. Pearson. Adjusting scoring matrices to correct overextended alignments |
| 3014 | -- | 3019 | Henrik Nordberg, Karan Bhatia, Kai Wang, Zhong Wang. BioPig: a Hadoop-based analytic toolkit for large-scale sequence data |
| 3020 | -- | 3028 | Miguel Arenas, Helena G. Dos Santos, David Posada, Ugo Bastolla. Protein evolution along phylogenetic histories under structurally constrained substitution models |
| 3029 | -- | 3035 | Jan-Oliver Janda, Andreas Meier, Rainer Merkl. CLIPS-4D: a classifier that distinguishes structurally and functionally important residue-positions based on sequence and 3D data |
| 3036 | -- | 3044 | Young-Suk Lee, Arjun Krishnan, Qian Zhu, Olga G. Troyanskaya. Ontology-aware classification of tissue and cell-type signals in gene expression profiles across platforms and technologies |
| 3045 | -- | 3052 | Naama Tepper, Tomer Shlomi. An integrated computational approach for metabolic flux analysis coupled with inference of tandem-MS collisional fragments |
| 3053 | -- | 3059 | David duVerle, Ichiro Takeuchi, Yuko Murakami-Tonami, Kenji Kadomatsu, Koji Tsuda. Discovering combinatorial interactions in survival data |
| 3060 | -- | 3066 | Yawwani Gunawardana, Mahesan Niranjan. Bridging the gap between transcriptome and proteome measurements identifies post-translationally regulated genes |
| 3067 | -- | 3072 | Carl Murie, Caroline Barette, Laurence Lafanechère, Robert Nadon. Single assay-wide variance experimental (SAVE) design for high-throughput screening |
| 3073 | -- | 3079 | David Gfeller, Olivier Michielin, Vincent Zoete. Shaping the interaction landscape of bioactive molecules |
| 3080 | -- | 3086 | Johan Nyström-Persson, Yoshinobu Igarashi, Maori Ito, Mizuki Morita, Noriyuki Nakatsu, Hiroshi Yamada, Kenji Mizuguchi. Toxygates: interactive toxicity analysis on a hybrid microarray and linked data platform |
| 3087 | -- | 3093 | Cemal Cagatay Bilgin, Sun Kim, Elle Leung, Hang Chang, Bahram Parvin. Integrated profiling of three dimensional cell culture models and 3D microscopy |
| 3094 | -- | 3096 | Thérèse A. Holton, Gianluca Pollastri, Denis C. Shields, Catherine Mooney. CPPpred: prediction of cell penetrating peptides |
| 3097 | -- | 3099 | Weichun Huang, Rasiah Loganantharaj, Bryce Schroeder, David Fargo, Leping Li. PAVIS: a tool for Peak Annotation and Visualization |
| 3100 | -- | 3101 | Charles E. Robertson, J. Kirk Harris, Brandie D. Wagner, David Granger, Kathy Browne, Beth Tatem, Leah M. Feazel, Kristin Park, Norman R. Pace, Daniel N. Frank. Explicet: graphical user interface software for metadata-driven management, analysis and visualization of microbiome data |
| 3102 | -- | 3104 | Thomas Schnattinger, Uwe Schöning, Anita Marchfelder, Hans A. Kestler. RNA-Pareto: interactive analysis of Pareto-optimal RNA sequence-structure alignments |
| 3105 | -- | 3106 | Oksana Sorokina, Anatoly A. Sorokin, J. Douglas Armstrong, Vincent Danos. A simulator for spatially extended kappa models |