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All Stories

  1. standard-GEM: standardization of open-source genome-scale metabolic models

    Article • March 2023, Cold Spring Harbor Laboratory Press

    Dr John M Hancock

  2. Systems Biology in ELIXIR: modelling in the spotlight

    Article • F1000Research, November 2022, Faculty of 1000, Ltd.

    Dr John M Hancock

  3. The future of food and nutrition in ELIXIR

    Article • F1000Research, August 2022, Faculty of 1000, Ltd.

    Matúš Kalaš, Dr John M Hancock

  4. Matching mouse models to specific human liver disease states by comparative functional genomics of mouse and human datasets

    Article • Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms, January 2022, Elsevier

    Dr John M Hancock

  5. ELIXIR and Toxicology: a community in development

    Article • F1000Research, November 2021, Faculty of 1000, Ltd.

    Dr Antony John Williams, Dr John M Hancock, Prof. Iseult Lynch

  6. ELIXIR‐EXCELERATE: establishing Europe's data infrastructure for the life science research of the future

    Article • The EMBO Journal, February 2021, EMBO

    Dr John M Hancock

  7. The ELIXIR Human Copy Number Variations Community: building bioinformatics infrastructure for research

    Article • F1000Research, October 2020, Faculty of 1000, Ltd.

    Krzysztof Poterlowicz, Dr John M Hancock

  8. PlaToLoCo: the first web meta-server for visualization and annotation of low complexity regions in proteins

    Article • Nucleic Acids Research, May 2020, Oxford University Press (OUP)

    Dr John M Hancock, Lisanna Paladin

  9. A community proposal to integrate structural bioinformatics activities in ELIXIR (3D-Bioinfo Community)

    Article • F1000Research, April 2020, Faculty of 1000, Ltd.

    Dr. Alexandre M.J.J. Bonvin, Dr Anastassis Perrakis, rik wierenga, Dr Bohdan Schneider, Dr John M Hancock

  10. Studies on the Mechanism of Chromosome Banding

    Article • February 2020, Center for Open Science

    Dr John M Hancock

  11. Community curation of bioinformatics software and data resources

    Article • Briefings in Bioinformatics, October 2019, Oxford University Press (OUP)

    Dr John M Hancock, Matúš Kalaš

  12. An intrinsically disordered proteins community for ELIXIR

    Article • F1000Research, October 2019, Faculty of 1000, Ltd.

    Cy Jeffries, Wim Vranken, Richard Edwards, Dr Vasilis J Promponas, Roberta Pierattelli, Dr John M Hancock

  13. Disentangling the complexity of low complexity proteins

    Article • Briefings in Bioinformatics, January 2019, Oxford University Press (OUP)

    Dr John M Hancock, Lisanna Paladin

  14. Introducing the Brassica Information Portal: Towards integrating genotypic and phenotypic Brassica crop data

    Article • F1000Research, November 2017, Faculty of 1000, Ltd.

    Dr John M Hancock

  15. PIsCO: A Performance indicators framework for collection of bioinformatics resource metrics

    Article • July 2017, PeerJ

    Ms Haydee H Artaza, Dr John M Hancock

  16. PIsCO: A Performance indicators framework for collection of bioinformatics resource metrics

    Article • July 2017, PeerJ

    Ms Haydee H Artaza, Dr John M Hancock, Mr Rafael C Jimenez

  17. Developing a strategy for computational lab skills training through Software and Data Carpentry: Experiences from the ELIXIR Pilot action

    Article • F1000Research, July 2017, Faculty of 1000, Ltd.

    Prof Carole A Goble, Dr John M Hancock

  18. ELIXIR-UK role in bioinformatics training at the national level and across ELIXIR

    Article • F1000Research, June 2017, Faculty of 1000, Ltd.

    Prof Teresa K Attwood, Prof Carole A Goble, Bert Overduin, Dr John M Hancock

  19. BioCIDER: a Contextualisation InDEx for biological Resources discovery

    Article • Bioinformatics, April 2017, Oxford University Press (OUP)

    Dr John M Hancock, Mr Rafael C Jimenez

  20. An open and transparent process to select ELIXIR Node Services as implemented by ELIXIR-UK

    Article • F1000Research, December 2016, Faculty of 1000, Ltd.

    Prof Carole A Goble, Dr John M Hancock

  21. Analysis of mammalian gene function through broad-based phenotypic screens across a consortium of mouse clinics

    Article • Nature Genetics, July 2015, Nature

    Professor Werner Muller, Dr John M Hancock

  22. Circles within circles: commentary on Ghosal et al. (2013) “Circ2Traits: a comprehensive database for circular RNA potentially associated with disease and traits”

    Article • Frontiers in Genetics, January 2015, Frontiers

    Dr John M Hancock

  23. Commentary on Shimoyama et al. (2012): three ontologies to define phenotype measurement data

    Article • Frontiers in Genetics, April 2014, Frontiers

    Dr John M Hancock

  24. Phenomics

    Article • January 2014, Taylor & Francis

    Dr John M Hancock

  25. Phenomics of the Laboratory Mouse

    Article • January 2014, Taylor & Francis

    Dr John M Hancock

  26. Editorial: biological ontologies and semantic biology

    Article • Frontiers in Genetics, January 2014, Frontiers

    Dr John M Hancock

  27. Biological Ontologies and Semantic Biology

    Article • January 2014, Frontiers

    Dr John M Hancock

  28. Analyzing gene expression data in mice with the Neuro Behavior Ontology

    Article • Mammalian Genome, November 2013, Springer Science + Business Media

    Dr John M Hancock

  29. Mouse Genetic and Phenotypic Resources as Tools for Human Genetics

    Article • September 2013, Wiley

    Dr John M Hancock

  30. A tale of two drug targets: the evolutionary history of BACE1 and BACE2

    Article • Frontiers in Genetics, January 2013, Frontiers

    Dr Christopher Southan, Dr John M Hancock

  31. A comparative phenotypic and genomic analysis of C57BL/6J and C57BL/6N mouse strains

    Article • Genome Biology, January 2013, Springer Science + Business Media

    Professor Werner Muller, Dr John M Hancock

  32. Functional modelling of planar cell polarity: an approach for identifying molecular function

    Article • BMC Developmental Biology, January 2013, Springer Science + Business Media

    Dr John M Hancock

  33. Low microsatellite frequencies in neuron and brain expressed microRNAs

    Article • Gene, October 2012, Elsevier

    Dr John M Hancock

  34. Integration of global resources for human genetic variation and disease

    Article • Human Mutation, April 2012, Wiley

    Dr John M Hancock

  35. CASIMIR & ENFIN

    Article • Nature Reports Climate Change, July 2011, Nature

    Dr John M Hancock

  36. Protein coalitions in a core mammalian biochemical network linked by rapidly evolving proteins

    Article • BMC Evolutionary Biology, May 2011, Springer Science + Business Media

    Dr John M Hancock

  37. A Gene-Phenotype Network for the Laboratory Mouse and Its Implications for Systematic Phenotyping

    Article • PLoS ONE, May 2011, PLOS

    Dr John M Hancock

  38. Towards BioDBcore: a community-defined information specification for biological databases

    Article • Nucleic Acids Research, November 2010, Oxford University Press (OUP)

    Dr Christopher Southan, Dr John M Hancock

  39. Sustaining the Data and Bioresource Commons

    Article • Science, October 2010, American Association for the Advancement of Science

    Dr John M Hancock

  40. Identification of a Z-band associated protein complex involving KY, FLNC and IGFN1

    Article • Experimental Cell Research, July 2010, Elsevier

    Dr John M Hancock

  41. Phenotype ontologies for mouse and man: bridging the semantic gap

    Article • Disease Models & Mechanisms, April 2010, The Company of Biologists

    Dr John M Hancock

  42. XGAP: a uniform and extensible data model and software platform for genotype and phenotype experiments

    Article • Genome Biology, January 2010, Springer Science + Business Media

    Dr John M Hancock

  43. The Functional Annotation of Mammalian Genomes: The Challenge of Phenotyping

    Article • Annual Review of Genetics, December 2009, Annual Reviews

    Dr John M Hancock

  44. EuroPhenome: a repository for high-throughput mouse phenotyping data

    Article • Nucleic Acids Research, November 2009, Oxford University Press (OUP)

    Professor Werner Muller, Dr John M Hancock

  45. MouseBook: an integrated portal of mouse resources

    Article • Nucleic Acids Research, October 2009, Oxford University Press (OUP)

    Dr John M Hancock

  46. Post-publication sharing of data and tools

    Article • Nature, September 2009, Nature

    Dr John M Hancock

  47. Entity/quality-based logical definitions for the human skeletal phenome using PATO

    Article • September 2009, Institute of Electrical & Electronics Engineers (IEEE)

    Dr John M Hancock, Chris Mungall

  48. Mouse, man, and meaning: bridging the semantics of mouse phenotype and human disease

    Article • Mammalian Genome, August 2009, Springer Science + Business Media

    Dr John M Hancock, Chris Mungall

  49. Planning the Human Variome Project: The Spain report

    Article • Human Mutation, January 2009, Wiley

    Dr John M Hancock

  50. Practical application of ontologies to annotate and analyse large scale raw mouse phenotype data

    Article • BMC Bioinformatics, January 2009, Springer Science + Business Media

    Dr John M Hancock

  51. Tandem and cryptic amino acid repeats accumulate in disordered regions of proteins

    Article • Genome Biology, January 2009, Springer Science + Business Media

    Dr John M Hancock

  52. Phylogenetic inference under recombination using Bayesian stochastic topology selection

    Article • Bioinformatics, November 2008, Oxford University Press (OUP)

    Dr John M Hancock

  53. CASIMIR: Coordination and Sustainability of International Mouse Informatics Resources

    Article • October 2008, Institute of Electrical & Electronics Engineers (IEEE)

    Dr John M Hancock

  54. Digital preservation - financial sustainability of biological data and material resources

    Article • October 2008, Institute of Electrical & Electronics Engineers (IEEE)

    Dr John M Hancock

  55. The Mouse Resource Browser (MRB) - A near-complete registry of mouse resources

    Article • October 2008, Institute of Electrical & Electronics Engineers (IEEE)

    Dr John M Hancock

  56. Promoting coherent minimum reporting guidelines for biological and biomedical investigations: the MIBBI project

    Article • Nature Biotechnology, August 2008, Springer Science + Business Media

    Dr John M Hancock

  57. Solutions for data integration in functional genomics: a critical assessment and case study

    Article • Briefings in Bioinformatics, July 2008, Oxford University Press (OUP)

    Dr John M Hancock

  58. Phenobabelomics--mouse phenotype data resources

    Article • Briefings in Functional Genomics and Proteomics, January 2008, Oxford University Press (OUP)

    Dr John M Hancock

  59. EuroPhenome and EMPReSS: online mouse phenotyping resource

    Article • Nucleic Acids Research, December 2007, Oxford University Press (OUP)

    Dr John M Hancock

  60. Integration of mouse phenome data resources

    Article • Mammalian Genome, August 2007, Springer Science + Business Media

    Dr John M Hancock

  61. Phenostat: visualization and statistical tool for analysis of phenotyping data

    Article • Mammalian Genome, August 2007, Springer Science + Business Media

    Dr John M Hancock

  62. A kinetic core model of the glucose-stimulated insulin secretion network of pancreatic β cells

    Article • Mammalian Genome, May 2007, Springer Science + Business Media

    Dr John M Hancock

  63. Integration of mouse phenome data resources

    Article • Mammalian Genome, April 2007, Springer Science + Business Media

    Professor Werner Muller, Dr John M Hancock

  64. Understanding Mammalian Genetic Systems: The Challenge of Phenotyping in the Mouse

    Article • PLoS Genetics, January 2006, PLOS

    Dr John M Hancock

  65. Gene factories, microfunctionalization and the evolution of gene families

    Article • Trends in Genetics, November 2005, Elsevier

    Dr John M Hancock

  66. EMPReSS: European Mouse Phenotyping Resource for Standardized Screens

    Article • Bioinformatics, April 2005, Oxford University Press (OUP)

    Dr John M Hancock

  67. Simple sequence repeats in proteins and their significance for network evolution

    Article • Gene, January 2005, Elsevier

    Dr John M Hancock

  68. CRAVE: a database, middleware and visualization system for phenotype ontologies

    Article • Bioinformatics, November 2004, Oxford University Press (OUP)

    Dr John M Hancock

  69. B ayesian Analysis ( B ayes' Theorem)

    Article • October 2004, Wiley

    Dr John M Hancock

  70. Bioinformatics.org

    Article • October 2004, Wiley

    Dr John M Hancock

  71. CINEMA

    Article • October 2004, Wiley

    Dr John M Hancock

  72. Cons I nspector

    Article • October 2004, Wiley

    Dr John M Hancock

  73. DALI

    Article • October 2004, Wiley

    Dr John M Hancock

  74. DNA Replication

    Article • October 2004, Wiley

    Dr John M Hancock

  75. Decision Tree

    Article • October 2004, Wiley

    Dr John M Hancock

  76. BLAT (BLAST-like Alignment Tool)

    Article • October 2004, Wiley

    Dr John M Hancock

  77. Bioinformatics (Computational Biology)

    Article • October 2004, Wiley

    Dr John M Hancock

  78. Complement

    Article • October 2004, Wiley

    Dr John M Hancock

  79. DNA Sequence

    Article • October 2004, Wiley

    Dr John M Hancock

  80. Organization and Evolution of a Gene-Rich Region of the Mouse Genome: A 12.7-Mb Region Deleted in the Del(13)Svea36H Mouse

    Article • Genome Research, September 2004, Cold Spring Harbor Laboratory Press

    Dr John M Hancock

  81. Dictionary of Bioinformatics and Computational Biology

    Article • July 2004, Wiley

    Dr John M Hancock

  82. A bigger mouse? The rat genome unveiled

    Article • BioEssays, January 2004, Wiley

    Dr John M Hancock

  83. Ontologies for the Description of Mouse Phenotypes

    Article • Comparative and Functional Genomics, January 2004, Hindawi Publishing Corporation

    Dr John M Hancock

  84. A phylogenetic approach to assessing the significance of missense mutations in disease genes

    Article • Human Mutation, June 2003, Wiley

    Dr John M Hancock

  85. PlantProm: a database of plant promoter sequences

    Article • Nucleic Acids Research, January 2003, Oxford University Press (OUP)

    Dr John M Hancock

  86. Article • Genetica, January 2002, Springer Science + Business Media

    Dr John M Hancock

  87. Rapid restructuring of bicoid-dependent hunchback promoters within and between Dipteran species: implications for molecular coevolution

    Article • Evolution & Development, November 2001, Wiley

    Dr Philip J. Shaw, Dr John M Hancock

  88. How Slippage-Derived Sequences Are Incorporated into rRNA Variable-Region Secondary Structure: Implications for Phylogeny Reconstruction

    Article • Molecular Phylogenetics and Evolution, March 2000, Elsevier

    Dr John M Hancock

  89. A Common Binding Site on the Microsomal Triglyceride Transfer Protein for Apolipoprotein B and Protein Disulfide Isomerase

    Article • Journal of Biological Chemistry, January 1999, American Society for Biochemistry & Molecular Biology (ASBMB)

    Dr John M Hancock

  90. The structure of vitellogenin provides a molecular model for the assembly and secretion of atherogenic lipoproteins 1 1Edited by A. R. Fersht

    Article • Journal of Molecular Biology, January 1999, Elsevier

    Dr John M Hancock

  91. Trinucleotide Expansion Diseases in the Context of Micro- and Minisatellite Evolution. Hammersmith Hospital, April 1-3, 1998

    Article • The EMBO Journal, October 1998, Wiley

    Dr John M Hancock

  92. Modelling the secondary structures of slippage-prone hypervariable RNA regions: the example of the tiger beetle 18S rRNA variable region V4

    Article • Nucleic Acids Research, April 1998, Oxford University Press (OUP)

    Dr John M Hancock

  93. Simple sequences and the expanding genome

    Article • BioEssays, May 1996, Wiley

    Dr John M Hancock

  94. Codon repeats in genes associated with human diseases: fewer repeats in the genes of nonhuman primates and nucleotide substitutions concentrated at the sites of reiteration.

    Article • Proceedings of the National Academy of Sciences, January 1996, Proceedings of the National Academy of Sciences

    Dr John M Hancock

  95. [38] Detection and quantification of concerted evolution and molecular drive

    Article • January 1993, Elsevier

    Dr John M Hancock

  96. A structural model of 5S RNA from E. coil based on intramolecular crosslinking evidence

    Article • Nucleic Acids Research, January 1982, Oxford University Press (OUP)

    Dr John M Hancock

  97. ENFIN - An Integrative Structure for Systems Biology

    Article • Springer Science + Business Media

    Dr John M Hancock