| # | Title | Journal | Year | Citations |
|---|
| 1 | The MEME Suite | Nucleic Acids Research | 2015 | 2,537 |
| 2 | Semi-supervised learning for peptide identification from shotgun proteomics datasets | Nature Methods | 2007 | 2,010 |
| 3 | XORs in the Air: Practical Wireless Network Coding | IEEE/ACM Transactions on Networking | 2008 | 1,723 |
| 4 | Markov logic networks | Machine Learning | 2006 | 1,700 |
| 5 | Mining high-speed data streams | Machine Learning | 2000 | 1,394 |
| 6 | Robust Monte Carlo localization for mobile robots | Artificial Intelligence | 2001 | 1,359 |
| 7 | Machine learning applications in genetics and genomics | Nature Reviews Genetics | 2015 | 1,334 |
| 8 | A network of protein–protein interactions in yeast | Nature Biotechnology | 2000 | 1,281 |
| 9 | Assessing computational tools for the discovery of transcription factor binding sites | Nature Biotechnology | 2005 | 1,121 |
| 10 | Predicting protein structures with a multiplayer online game | Nature | 2010 | 1,062 |
| 11 | Answering queries using views: A survey | VLDB Journal | 2001 | 981 |
| 12 | RGB-D mapping: Using Kinect-style depth cameras for dense 3D modeling of indoor environments | International Journal of Robotics Research | 2012 | 967 |
| 13 | Clustering Gene Expression Patterns | Journal of Computational Biology | 1999 | 959 |
| 14 | A large-scale hierarchical multi-view RGB-D object dataset | Journal of Computational Biology | 2011 | 894 |
| 15 | Improving generalization with active learning | Machine Learning | 1994 | 867 |
| 16 | Measuring ISP Topologies With Rocketfuel | IEEE/ACM Transactions on Networking | 2004 | 781 |
| 17 | Unsupervised named-entity extraction from the Web: An experimental study | Artificial Intelligence | 2005 | 726 |
| 18 | Dynamically discovering likely program invariants to support program evolution | IEEE Transactions on Software Engineering | 2001 | 724 |
| 19 | Web document clustering | IEEE Transactions on Software Engineering | 1998 | 718 |
| 20 | Simultaneous multithreading | IEEE Transactions on Software Engineering | 1995 | 706 |
| 21 | Rv3133c/dosR is a transcription factor that mediates the hypoxic response of Mycobacterium tuberculosis | Molecular Microbiology | 2003 | 674 |
| 22 | Macronuclear Genome Sequence of the Ciliate Tetrahymena thermophila, a Model Eukaryote | PLoS Biology | 2006 | 657 |
| 23 | DNA as a universal substrate for chemical kinetics | Proceedings of the National Academy of Sciences of the United States of America | 2010 | 649 |
| 24 | How does multiple testing correction work? | Nature Biotechnology | 2009 | 595 |
| 25 | Exploiting choice | Nature Biotechnology | 1996 | 547 |
| 26 | Network support for IP traceback | IEEE/ACM Transactions on Networking | 2001 | 538 |
| 27 | The MegaFace Benchmark: 1 Million Faces for Recognition at Scale | IEEE/ACM Transactions on Networking | 2016 | 538 |
| 28 | Practical network support for IP traceback | Computer Communication Review | 2000 | 526 |
| 29 | Extensibility safety and performance in the SPIN operating system | Computer Communication Review | 1995 | 523 |
| 30 | Decision-Theoretic Planning: Structural Assumptions and Computational Leverage | Journal of Artificial Intelligence Research | 0 | 485 |
| 31 | Learning and inferring transportation routines | Artificial Intelligence | 2007 | 480 |
| 32 | Grouper: a dynamic clustering interface to Web search results | Computer Networks | 1999 | 470 |
| 33 | Crystal structure of a monomeric retroviral protease solved by protein folding game players | Nature Structural and Molecular Biology | 2011 | 463 |
| 34 | Fast multiresolution image querying | Nature Structural and Molecular Biology | 1995 | 462 |
| 35 | Pacemakers and Implantable Cardiac Defibrillators: Software Radio Attacks and Zero-Power Defenses | Sp'97 | 2008 | 455 |
| 36 | Predicting poverty and wealth from mobile phone metadata | Science | 2015 | 448 |
| 37 | PathFinder | Science | 1995 | 436 |
| 38 | Piecewise smooth surface reconstruction | Science | 1994 | 422 |
| 39 | Asynchronous design methodologies: an overview | Proceedings of the IEEE | 1995 | 413 |
| 40 | Reconciling schemas of disparate data sources | Proceedings of the IEEE | 2001 | 388 |
| 41 | Unequal loss protection: graceful degradation of image quality over packet erasure channels through forward error correction | IEEE Journal on Selected Areas in Communications | 2000 | 380 |
| 42 | Competitive learning with floating-gate circuits | IEEE Transactions on Neural Networks | 2002 | 373 |
| 43 | The World-Wide Web | Communications of the ACM | 1996 | 367 |
| 44 | Finding Motifs Using Random Projections | Journal of Computational Biology | 2002 | 366 |
| 45 | Comparative analysis of metazoan chromatin organization | Nature | 2014 | 363 |
| 46 | Control of a humanoid robot by a noninvasive brain–computer interface in humans | Journal of Neural Engineering | 2008 | 356 |
| 47 | 3D Face Reconstruction from a Single Image Using a Single Reference Face Shape | IEEE Transactions on Pattern Analysis and Machine Intelligence | 2011 | 355 |
| 48 | Learning to match ontologies on the Semantic Web | VLDB Journal | 2003 | 334 |
| 49 | Predictive coding | Wiley Interdisciplinary Reviews: Cognitive Science | 2011 | 323 |
| 50 | CMfinder--a covariance model based RNA motif finding algorithm | Bioinformatics | 2006 | 316 |
