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	1.	Research highlight Runaway transcription Jiannan Guo, Tiandao Li, David H Price Genome Biology 2013, 14:133 (30 September 2013) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary David Price proposes that 7SK snRNA is a key barrier to runaway transcription - in contrast to the inept engineer Casey Jones
	2.	Research Comprehensive genotyping of the USA national maize inbred seed bank Maria C Romay, Mark J Millard, Jeffrey C Glaubitz, Jason A Peiffer, Kelly L Swarts, Terry M Casstevens, Robert J Elshire, Charlotte B Acharya, Sharon E Mitchell, Sherry A Flint-Garcia, Michael D McMullen, James B Holland, Edward S Buckler, Candice A Gardner Genome Biology 2013, 14:R55 (11 June 2013) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary Genotyping-by-Sequencing analysis of maize inbred accessions, identifying candidate genes for kernel color, sweet corn, and flowering time
	3.	Research Reducing assembly complexity of microbial genomes with single-molecule sequencing Sergey Koren, Gregory P Harhay, Timothy PL Smith, James L Bono, Dayna M Harhay, Scott D Mcvey, Diana Radune, Nicholas H Bergman, Adam M Phillippy Genome Biology 2013, 14:R101 (13 September 2013) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary PacBio sequencing alone is capable of generating finished bacterial genomes in the majority of cases at reasonably low cost
	4.	Research Intraspecific variation of recombination rate in maize Eva Bauer, Matthieu Falque, Hildrun Walter, Cyril Bauland, Christian Camisan, Laura Campo, Nina Meyer, Nicolas Ranc, Renaud Rincent, Wolfgang Schipprack, Thomas Altmann, Pascal Flament, Albrecht E Melchinger, Monica Menz, Jesús Moreno-González, Milena Ouzunova, Pedro Revilla, Alain Charcosset, Olivier C Martin, Chris-Carolin Schön Genome Biology 2013, 14:R103 (19 September 2013) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary A large-scale analysis of recombination rates between 22 European maize inbred lines reveals significant differences in recombination between populations
	5.	Method Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data Franck Rapaport, Raya Khanin, Yupu Liang, Mono Pirun, Azra Krek, Paul Zumbo, Christopher E Mason, Nicholas D Socci, Doron Betel Genome Biology 2013, 14:R95 (10 September 2013) Abstract \| Provisional PDF \| PubMed \| Editor’s summary An evaluation of differential gene expression analysis methods for RNA-seq data using the SEQC gold standard dataset
	6.	Review Global approaches to understanding ubiquitination Peter Kaiser, Lan Huang Genome Biology 2005, 6:233 (29 September 2005) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary The proteome-wide strategies that are being used to study aspects of ubiquitin biology are reviewed, including substrates, components of the proteasome and ubiquitin ligases, and deubiquitination.
	7.	Meeting report Cell signaling and cancer Eleni Bazigou, Charalampos Rallis Genome Biology 2007, 8:310 (23 July 2007) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary A report on the Cancer Research UK London Research Institute Special Conference 'Signal Transduction', London, UK, 14-16 May 2007.
	8.	Research The complete genome, comparative and functional analysis of Stenotrophomonas maltophilia reveals an organism heavily shielded by drug resistance determinants Lisa C Crossman, Virginia C Gould, J Maxwell Dow, Georgios S Vernikos, Aki Okazaki, Mohammed Sebaihia, David Saunders, Claire Arrowsmith, Tim Carver, Nicholas Peters, Ellen Adlem, Arnaud Kerhornou, Angela Lord, Lee Murphy, Katharine Seeger, Robert Squares, Simon Rutter, Michael A Quail, Mari-Adele Rajandream, David Harris, Carol Churcher, Stephen D Bentley, Julian Parkhill, Nicholas R Thomson, Matthew B Avison Genome Biology 2008, 9:R74 (17 April 2008) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary The complete Stenotrophomonas maltophilia genome sequence suggests that it can act as a reservoir of antibiotic resistance determinants.
	9.	Minireview Cytokinin and auxin intersection in root meristems Elisabeth J Chapman, Mark Estelle Genome Biology 2009, 10:210 (23 February 2009) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Cytokinin promotes cell differentiation in plant roots by repressing auxin transport and responses at the meristem boundary.
	10.	Research The bovine lactation genome: insights into the evolution of mammalian milk Danielle G Lemay, David J Lynn, William F Martin, Margaret C Neville, Theresa M Casey, Gonzalo Rincon, Evgenia V Kriventseva, Wesley C Barris, Angie S Hinrichs, Adrian J Molenaar, Katherine S Pollard, Nauman J Maqbool, Kuljeet Singh, Regan Murney, Evgeny M Zdobnov, Ross L Tellam, Juan F Medrano, J Bruce German, Monique Rijnkels Genome Biology 2009, 10:R43 (24 April 2009) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary Comparison of milk protein and mammary genes in the bovine genome with those from other mammals gives insights into the evolution of lactation.
	11.	Software PhenomiR: a knowledgebase for microRNA expression in diseases and biological processes Andreas Ruepp, Andreas Kowarsch, Daniel Schmidl, Felix Buggenthin, Barbara Brauner, Irmtraud Dunger, Gisela Fobo, Goar Frishman, Corinna Montrone, Fabian J Theis Genome Biology 2010, 11:R6 (20 January 2010) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary PhenomiR is a comprehensive database of 542 studies reporting deregulation of miRNAs allowing large-scale statistical analysis of miRNA expression changes.
	12.	Method MetaMerge: scaling up genome-scale metabolic reconstructions with application to Mycobacterium tuberculosis Leonid Chindelevitch, Sarah Stanley, Deborah Hung, Aviv Regev, Bonnie Berger Genome Biology 2012, 13:r6 (31 January 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary An algorithm that reconciles metabolic network reconstructions into a single model
	13.	Research Microevolutionary analysis of Clostridium difficile genomes to investigate transmission Xavier Didelot, David W Eyre, Madeleine Cule, Camilla LC Ip, M Ansari, David Griffiths, Alison Vaughan, Lily O'Connor, Tanya Golubchik, Elizabeth M Batty, Paolo Piazza, Daniel J Wilson, Rory Bowden, Peter J Donnelly, Kate E Dingle, Mark Wilcox, A Walker, Derrick W Crook, Tim E A Peto, Rosalind M Harding Genome Biology 2012, 13:R118 (21 December 2012) Abstract \| Full text \| PDF \| PubMed \| f1000 \| Editor’s summary Transmission events of Clostridium difficile are inferred from whole-genome sequencing of isolates and estimating divergence time of bacterial strains
	14.	Meeting report A Keystone for ncRNA Ezgi Hacisuleyman, Moran N Cabili, John L Rinn Genome Biology 2012, 13:315 (25 May 2012) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary John Rinn and colleagues give a report on the Keystone symposium 'Non-coding RNAs' held at Snowbird, Utah, USA, 31 March to 5 April 2012.
	15.	Research Modeling gene expression using chromatin features in various cellular contexts Xianjun Dong, Melissa C Greven, Anshul Kundaje, Sarah Djebali, James B Brown, Chao Cheng, Thomas R Gingeras, Mark Gerstein, Roderic Guigó, Ewan Birney, Zhiping Weng Genome Biology 2012, 13:R53 (5 September 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary Models for linking gene expression with chromatin features vary according to cellular context and RNA measurement method
	16.	Method SOAPfuse: an algorithm for identifying fusion transcripts from paired-end RNA-Seq data Wenlong Jia, Kunlong Qiu, Minghui He, Pengfei Song, Quan Zhou, Feng Zhou, Yuan Yu, Dandan Zhu, Michael L Nickerson, Shengqing Wan, Xiangke Liao, Xiaoqian Zhu, Shaoliang Peng, Yingrui Li, Jun Wang, Guangwu Guo Genome Biology 2013, 14:R12 (14 February 2013) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary SOAPfuse is a method for detecting fusion transcripts in RNA-seq data that has a high detection rate and low computational requirements
	17.	Editorial Raymond Gosling: the man who crystallized genes Naomi Attar Genome Biology 2013, 14:402 (25 April 2013) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| 1 comment \| Editor’s summary "The most wonderful thing!" - Genome Biology meets Raymond Gosling, a key player in the discovery of the double helix
	18.	Research Genome-wide analysis of functional sirtuin chromatin targets in yeast Mingguang Li, Veena Valsakumar, Kunal Poorey, Stefan Bekiranov, Jeffrey S Smith Genome Biology 2013, 14:R48 (27 May 2013) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Sirtuins regulate both glycolytic gene expression and condensin/cohesin deposition, suggesting a mechanistic link between metabolism and chromatin architecture
	19.	Opinion Open access to tree genomes: the path to a better forest David B Neale, Charles H Langley, Steven L Salzberg, Jill L Wegrzyn Genome Biology 2013, 14:120 (24 June 2013) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| 1 comment \| Editor’s summary David Neale, Steven Salzberg and colleagues share their view on the need for a better open access infrastructure in tree genomics
	20.	Comment So, you want to sequence a genome... Derek L Stemple Genome Biology 2013, 14:128 (30 July 2013) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Derek Stemple discusses lessons learned from the zebrafish genome project
	21.	Meeting report Next-generation sequencing for identifying new genes in rare genetic diseases: many challenges and a pinch of luck Amélie Bonnefond, Philippe Froguel Genome Biology 2013, 14:309 (29 July 2013) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary A report on the European Society of Human Genetics conference, held in Paris, France, June 8-11, 2013
	22.	Method A simple strategy for heritable chromosomal deletions in zebrafish via the combinatorial action of targeting nucleases Shimin Lim, Yin Wang, Xueyao Yu, Yian Huang, Mark S Featherstone, Karuna Sampath Genome Biology 2013, 14:R69 (1 July 2013) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary A method for engineering large-scale deletions enables heritable, specific removal of loci, transcripts or regulatory elements from the zebrafish genome
	23.	Research highlight Learning the language of post-transcriptional gene regulation Stefanie Gerstberger, Markus Hafner, Thomas Tuschl Genome Biology 2013, 14:130 (23 August 2013) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary RNA-binding proteins: Stefanie Gerstberger, Markus Hafner and Thomas Tuschl on the language of post-transcriptional gene regulation
	24.	Method Sustained-input switches for transcription factors and microRNAs are central building blocks of eukaryotic gene circuits Molly Megraw, Sayan Mukherjee, Uwe Ohler Genome Biology 2013, 14:R85 (23 August 2013) Abstract \| Provisional PDF \| PubMed \| Editor’s summary A new, rigorous algorithm for the generation of null models for identification of over-represented circuits in large networks
	25.	Research Genome-wide analyses of Shavenbaby target genes reveals distinct features of enhancer organization Delphine Menoret, Marc Santolini, Isabelle Fernandes, Rebecca Spokony, Jennifer Zanet, Ignacio Gonzalez, Yvan Latapie, Pierre Ferrer, Hervé Rouault, Kevin P White, Philippe Besse, Vincent Hakim, Stein Aerts, Francois Payre, Serge Plaza Genome Biology 2013, 14:R86 (23 August 2013) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Shavenbaby, which induces terminal differentiation in Drosophila, binds to a set of enhancers that exhibit remarkable functional architectures