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	51. 99 Accesses	Brief reports WebGimm: An integrated web-based platform for cluster analysis, functional analysis, and interactive visualization of results Vineet K Joshi, Johannes M Freudenberg, Zhen Hu, Mario Medvedovic Source Code for Biology and Medicine 2011, 6:3 (17 January 2011) Abstract \| Full text \| PDF \| PubMed
	52. 99 Accesses	Brief reports KBWS: an EMBOSS associated package for accessing bioinformatics web services Kazuki Oshita, Kazuharu Arakawa, Masaru Tomita Source Code for Biology and Medicine 2011, 6:8 (29 April 2011) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	53. 96 Accesses	Software review Creating web applications for spatial epidemiological analysis and mapping in R using Rwui Richard Newton, Andrew Deonarine, Lorenz Wernisch Source Code for Biology and Medicine 2011, 6:6 (1 April 2011) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	54. 96 Accesses	Software review A Perl toolkit for LIMS development James A Morris, Simon A Gayther, Ian J Jacobs, Christopher Jones Source Code for Biology and Medicine 2008, 3:4 (19 March 2008) Abstract \| Full text \| PDF \| PubMed
	55. 94 Accesses	Brief reports Parallel biocomputing Kenneth S Kompass, Thomas J Hoffmann, John S Witte Source Code for Biology and Medicine 2011, 6:4 (18 March 2011) Abstract \| Full text \| PDF \| PubMed
	56. 92 Accesses	Brief reports DOG-SPOT database for comprehensive management of dog genetic research data Julie AS Powell, Jeremy Allen, Nathan B Sutter Source Code for Biology and Medicine 2010, 5:10 (15 December 2010) Abstract \| Full text \| PDF \| PubMed
	57. 91 Accesses	Editorial Welcome to Source Code for Biology and Medicine Leif E Peterson, Emmanuel C Ifeachor Source Code for Biology and Medicine 2006, 1:1 (12 October 2006) Abstract \| Full text \| PDF
	58. 91 Accesses	Methodology CRANKITE: A fast polypeptide backbone conformation sampler Alexei A Podtelezhnikov, David L Wild Source Code for Biology and Medicine 2008, 3:12 (24 June 2008) Abstract \| Full text \| PDF \| PubMed
	59. 91 Accesses	Software review Open source tool for prediction of genome wide protein-protein interaction network based on ortholog information Chandra Sekhar Pedamallu, Janos Posfai Source Code for Biology and Medicine 2010, 5:8 (4 August 2010) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	60. 90 Accesses	Methodology EST-PAC a web package for EST annotation and protein sequence prediction Yvan Strahm, David Powell, Christophe Lefèvre Source Code for Biology and Medicine 2006, 1:2 (12 October 2006) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	61. 90 Accesses	Research Bioinformatics process management: information flow via a computational journal Lance Feagan, Justin Rohrer, Alexander Garrett, Heather Amthauer, Ed Komp, David Johnson, Adam Hock, Terry Clark, Gerald Lushington, Gary Minden, Victor Frost Source Code for Biology and Medicine 2007, 2:9 (3 December 2007) Abstract \| Full text \| PDF \| PubMed
	62. 88 Accesses	Brief reports OCPAT: an online codon-preserved alignment tool for evolutionary genomic analysis of protein coding sequences Guozhen Liu, Monica Uddin, Munirul Islam, Morris Goodman, Lawrence I Grossman, Roberto Romero, Derek E Wildman Source Code for Biology and Medicine 2007, 2:5 (18 September 2007) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	63. 88 Accesses	Software review Nephele: genotyping via complete composition vectors and MapReduce Marc E Colosimo, Matthew W Peterson, Scott Mardis, Lynette Hirschman Source Code for Biology and Medicine 2011, 6:13 (18 August 2011) Abstract \| Full text \| PDF \| PubMed
	64. 87 Accesses	Brief reports FASH: A web application for nucleotides sequence search Isana Veksler-Lublinksy, Danny Barash, Chai Avisar, Einav Troim, Paul Chew, Klara Kedem Source Code for Biology and Medicine 2008, 3:9 (27 May 2008) Abstract \| Full text \| PDF \| PubMed
	65. 87 Accesses	Brief reports WordCloud: a Cytoscape plugin to create a visual semantic summary of networks Layla Oesper, Daniele Merico, Ruth Isserlin, Gary D Bader Source Code for Biology and Medicine 2011, 6:7 (7 April 2011) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	66. 86 Accesses	Research A CellML simulation compiler and code generator using ODE solving schemes Florencio Rusty Punzalan, Yoshiharu Yamashita, Naoki Soejima, Masanari Kawabata, Takao Shimayoshi, Hiroaki Kuwabara, Yoshitoshi Kunieda, Akira Amano Source Code for Biology and Medicine 2012, 7:11 (19 October 2012) Abstract \| Full text \| PDF \| ePUB \| PubMed
	67. 85 Accesses	Software review Microbial Diagnostic Array Workstation (MDAW): a web server for diagnostic array data storage, sharing and analysis Joy Scaria, Aswathy Sreedharan, Yung-Fu Chang Source Code for Biology and Medicine 2008, 3:14 (23 September 2008) Abstract \| Full text \| PDF \| PubMed
	68. 85 Accesses	Brief reports GTC: A web server for integrating systems biology data with web tools and desktop applications Dan Tenenbaum, J Christopher Bare, Nitin S Baliga Source Code for Biology and Medicine 2010, 5:7 (13 July 2010) Abstract \| Full text \| PDF \| PubMed
	69. 85 Accesses	Software review A proof of the DBRF-MEGN method, an algorithm for deducing minimum equivalent gene networks Koji Kyoda, Kotaro Baba, Hiroaki Kitano, Shuichi Onami Source Code for Biology and Medicine 2011, 6:12 (24 June 2011) Abstract \| Full text \| PDF \| PubMed
	70. 81 Accesses	Software review MADAM - An open source meta-analysis toolbox for R and Bioconductor Karl G Kugler, Laurin AJ Mueller, Armin Graber Source Code for Biology and Medicine 2010, 5:3 (1 March 2010) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	71. 81 Accesses	Software review Sig2BioPAX: Java tool for converting flat files to BioPAX Level 3 format Ryan L Webb, Avi Ma'ayan Source Code for Biology and Medicine 2011, 6:5 (21 March 2011) Abstract \| Full text \| PDF \| PubMed
	72. 80 Accesses	Methodology DADOS-Prospective: an open source application for Web-based prospective data collection Lam Nguyen, Anand Shah, Matthew Harker, Henrique Martins, Mariana McCready, Andreia Menezes, Danny O Jacobs, Ricardo Pietrobon Source Code for Biology and Medicine 2006, 1:7 (13 November 2006) Abstract \| Full text \| PDF \| PubMed
	73. 80 Accesses	Research Genome display tool: visualizing features in complex data sets Lalitha Viswanath, Yue Lu, George E Fox Source Code for Biology and Medicine 2007, 2:1 (14 February 2007) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	74. 78 Accesses	Software review Gbrowse Moby: a Web-based browser for BioMoby Services Mark Wilkinson Source Code for Biology and Medicine 2006, 1:4 (24 October 2006) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	75. 79 Accesses	Research BISON: bio-interface for the semi-global analysis of network patterns Christopher Besemann, Anne Denton, Nathan J Carr, Birgit M Prüβ Source Code for Biology and Medicine 2006, 1:8 (29 November 2006) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	76. 78 Accesses	Research Epigrass: a tool to study disease spread in complex networks Flávio C Coelho, Oswaldo G Cruz, Cláudia T Codeço Source Code for Biology and Medicine 2008, 3:3 (26 February 2008) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	77. 74 Accesses	Brief reports A web server for interactive and zoomable Chaos Game Representation images Kazuharu Arakawa, Kazuki Oshita, Masaru Tomita Source Code for Biology and Medicine 2009, 4:6 (17 September 2009) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	78. 73 Accesses	Methodology GRIP: A web-based system for constructing Gold Standard datasets for protein-protein interaction prediction Fiona Browne, Haiying Wang, Huiru Zheng, Francisco Azuaje Source Code for Biology and Medicine 2009, 4:2 (26 January 2009) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary The web-based system GRIP (Gold Reference dataset constructor from Information on Protein complexes) enables researchers to simply and quickly create and search reference datasets for protein-protein interaction predictions in Saccharomyces cerevisiae.
	79. 71 Accesses	Software review HitKeeper, a generic software package for hit list management Jörg Hau, Michael Muller, Marco Pagni Source Code for Biology and Medicine 2007, 2:2 (28 March 2007) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	80. 71 Accesses	Research The MERG Suite: Tools for discovering competencies and associated learning resources Ravi Bhupatiraju, William R Hersh, Valerie Smothers, Michael Fordis, Peter S Greene Source Code for Biology and Medicine 2008, 3:7 (14 May 2008) Abstract \| Full text \| PDF \| PubMed
	81. 70 Accesses	Software review VersaCount: customizable manual tally software for cell counting Charles C Kim, Joseph L DeRisi Source Code for Biology and Medicine 2010, 5:1 (13 January 2010) Abstract \| Full text \| PDF \| PubMed
	82. 69 Accesses	Research A traveling salesman approach for predicting protein functions Olin Johnson, Jing Liu Source Code for Biology and Medicine 2006, 1:3 (12 October 2006) Abstract \| Full text \| PDF \| PubMed
	83. 65 Accesses	Brief reports Analysis by siRNA_profile program displays novel thermodynamic characteristics of highly functional siRNA molecules Pirkko Muhonen, Ranga N Parthasarathy, Anthony J Janckila, Kalman G Büki, H Kalervo Väänänen Source Code for Biology and Medicine 2008, 3:8 (21 May 2008) Abstract \| Full text \| PDF \| PubMed
	84. 65 Accesses	Software review Dockres: a computer program that analyzes the output of virtual screening of small molecules Mihaly Mezei, Ming-Ming Zhou Source Code for Biology and Medicine 2010, 5:2 (14 January 2010) Abstract \| Full text \| PDF \| PubMed
	85. 63 Accesses	Methodology The Shivplot: a graphical display for trend elucidation and exploratory analysis of microarray data Owen Z Woody, Robert Nadon Source Code for Biology and Medicine 2006, 1:6 (8 November 2006) Abstract \| Full text \| PDF \| PubMed
	86. 62 Accesses	Brief reports RMol: a toolset for transforming SD/Molfile structure information into R objects Martin Grabner, Kurt Varmuza, Matthias Dehmer Source Code for Biology and Medicine 2012, 7:12 (14 November 2012) Abstract \| Full text \| PDF \| PubMed
	87. 61 Accesses	Methodology NFU-Enabled FASTA: moving bioinformatics applications onto wide area networks Erich J Baker, Guan N Lin, Huadong Liu, Ravi Kosuri Source Code for Biology and Medicine 2007, 2:8 (26 November 2007) Abstract \| Full text \| PDF \| PubMed
	88. 61 Accesses	Methodology Simple tools for assembling and searching high-density picolitre pyrophosphate sequence data Nicolas J Parker, Andrew G Parker Source Code for Biology and Medicine 2008, 3:5 (18 April 2008) Abstract \| Full text \| PDF \| PubMed
	89. 50 Accesses	Software review SNIT: SNP identification for strain typing Ravi Vijaya Satya, Nela Zavaljevski, Jaques Reifman Source Code for Biology and Medicine 2011, 6:14 (8 September 2011) Abstract \| Full text \| PDF \| PubMed
	90. 44 Accesses	Methodology PatentMatrix: an automated tool to survey patents related to large sets of genes or proteins Armin Lahm, Emanuele de Rinaldis Source Code for Biology and Medicine 2007, 2:4 (6 September 2007) Abstract \| Full text \| PDF \| PubMed
	91. 40 Accesses	Research Pspace: a program that assesses protein space Mihaly Mezei, Ming-Ming Zhou Source Code for Biology and Medicine 2007, 2:6 (23 October 2007) Abstract \| Full text \| PDF \| PubMed
	92. 37 Accesses	Software review SLIMarray: Lightweight software for microarray facility management Bruz Marzolf, Pamela Troisch Source Code for Biology and Medicine 2006, 1:5 (26 October 2006) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central