Enabling precision medicine via standard communication of HTS provenance, analysis, and results
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Gil Alterovitz | Carole Goble | Stian Soiland-Reyes | Paul Walsh | Konstantinos Krampis | Raja Mazumder | Jeremy Goecks | Hsinyi Tsang | KanakaDurga Addepalli | Srikanth Gottipati | Marco Schito | Matthew Ezewudo | Jeet K. Vora | Toby Bloom | Dennis A. Dean | Elaine Johanson | Jianchao Yao | Vahan Simonyan | Anita Suresh | Robel Kahsay | Anais Hayes | Elaine E. Thompson | Hiroki Morizono | Yuching Lai | Timothy C Rodwell | Mark Walderhaug | Robel Y. Kahsay | Jonathon Keeney | H. Morizono | P. Walsh | T. Bloom | R. Mazumder | J. Goecks | C. Goble | G. Alterovitz | N. Guimerà | M. Crusoe | S. Soiland-Reyes | V. Simonyan | Eric Donaldson | M. Schito | Hsinyi Tsang | Konstantinos Krampis | Krista Smith | KanakaDurga Addepalli | Matthew N. Ezewudo | R. Kahsay | Mark O Walderhaug | T. Rodwell | A. Purkayastha | Anjan Purkayastha | Eric F. Donaldson | C. H. King | Michael R Crusoe | Charles H King | Amanda Bell | Jonathon Keeney | Jianchao Yao | Dennis Dean | Amanda Bell | Dan Taylor | Elaine E Thompson | Eric Donaldson | Jeet K Vora | Jonas S Almeida | Krista M Smith | Lydia Guo | Nuria Guimera | S. Gottipati | Anita Suresh | Yuching Lai | Jonas S. Almeida | Anais Hayes | D. Taylor | Elaine Johanson | Lydia Guo | Toby Bloom | Jeremy Goecks | M. Ezewudo
[1] Yolanda Gil,et al. Abstract, link, publish, exploit: An end to end framework for workflow sharing , 2017, Future Gener. Comput. Syst..
[2] Johan Montagnat,et al. Scientific workflows: Past, present and future , 2017, Future Gener. Comput. Syst..
[3] Alban Gaignard,et al. Scientific workflows for computational reproducibility in the life sciences: Status, challenges and opportunities , 2017, Future Gener. Comput. Syst..
[4] C. Whitty,et al. The contribution of biological, mathematical, clinical, engineering and social sciences to combatting the West African Ebola epidemic , 2017, Philosophical Transactions of the Royal Society B: Biological Sciences.
[5] Lucila Ohno-Machado,et al. DATS, the data tag suite to enable discoverability of datasets , 2017, Scientific Data.
[6] Raja Mazumder,et al. Biocompute Objects—A Step towards Evaluation and Validation of Biomedical Scientific Computations , 2016, PDA Journal of Pharmaceutical Science and Technology.
[7] Jeremy Leipzig,et al. A review of bioinformatic pipeline frameworks , 2016, Briefings Bioinform..
[8] Yolanda Gil,et al. Enhancing reproducibility for computational methods , 2016, Science.
[9] Arthur W. Toga,et al. I'll take that to go: Big data bags and minimal identifiers for exchange of large, complex datasets , 2016, 2016 IEEE International Conference on Big Data (Big Data).
[10] Gaurav Kaushik,et al. Rabix: an open-source workflow executor supporting recomputability and interoperability of workflow descriptions , 2016, bioRxiv.
[11] John Chilton,et al. Common Workflow Language, v1.0 , 2016 .
[12] John P. A. Ioannidis,et al. What does research reproducibility mean? , 2016, Science Translational Medicine.
[13] Allyson L. Lister,et al. BioSharing: curated and crowd-sourced metadata standards, databases and data policies in the life sciences , 2016, Database J. Biol. Databases Curation.
[14] Rachel G Liao,et al. Facilitating a culture of responsible and effective sharing of cancer genome data , 2016, Nature Medicine.
[15] Tom R. Gaunt,et al. LD Hub: a centralized database and web interface to perform LD score regression that maximizes the potential of summary level GWAS data for SNP heritability and genetic correlation analysis , 2016, bioRxiv.
[16] John Chilton,et al. The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update , 2016, Nucleic Acids Res..
[17] Weida Tong,et al. The FDA’s Experience with Emerging Genomics Technologies—Past, Present, and Future , 2016, The AAPS Journal.
[18] Luis V. Santana-Quintero,et al. High-performance integrated virtual environment (HIVE): a robust infrastructure for next-generation sequence data analysis , 2016, Database J. Biol. Databases Curation.
[19] Erik Schultes,et al. The FAIR Guiding Principles for scientific data management and stewardship , 2016, Scientific Data.
[20] Silvio C. E. Tosatto,et al. Tools and data services registry: a community effort to document bioinformatics resources , 2015, Nucleic Acids Res..
[21] Michael R. Crusoe,et al. Common Workflow Language , 2015 .
[22] Ioanna Chouvarda,et al. A reusable ontology for primitive and complex HL7 FHIR data types , 2015, 2015 37th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC).
[23] Gil Alterovitz,et al. All the World's a Stage: Facilitating Discovery Science and Improved Cancer Care through the Global Alliance for Genomics and Health. , 2015, Cancer discovery.
[24] Marco Schito,et al. Collaborative Effort for a Centralized Worldwide Tuberculosis Relational Sequencing Data Platform. , 2015, Clinical infectious diseases : an official publication of the Infectious Diseases Society of America.
[25] Gabor T. Marth,et al. A global reference for human genetic variation , 2015, Nature.
[26] Ola Spjuth,et al. Experiences with workflows for automating data-intensive bioinformatics , 2015, Biology Direct.
[27] Gil Alterovitz,et al. SMART on FHIR Genomics: facilitating standardized clinico-genomic apps , 2015, J. Am. Medical Informatics Assoc..
[28] M. S. Avila-Garcia,et al. From Peer-Reviewed to Peer-Reproduced in Scholarly Publishing: The Complementary Roles of Data Models and Workflows in Bioinformatics , 2015, PloS one.
[29] Carole A. Goble,et al. Using a suite of ontologies for preserving workflow-centric research objects , 2015, J. Web Semant..
[30] K. Tomczak,et al. The Cancer Genome Atlas (TCGA): an immeasurable source of knowledge , 2015, Contemporary oncology.
[31] Raja Mazumder,et al. High-Performance Integrated Virtual Environment (HIVE) Tools and Applications for Big Data Analysis , 2014, Genes.
[32] A. Kenall,et al. An open future for ecological and evolutionary data? , 2014, BMC Evolutionary Biology.
[33] Deanna M. Church,et al. ClinVar: public archive of relationships among sequence variation and human phenotype , 2013, Nucleic Acids Res..
[34] Carole A. Goble,et al. Structuring research methods and data with the research object model: genomics workflows as a case study , 2013, Journal of Biomedical Semantics.
[35] Christos Hatzis,et al. Reproducibility of research and preclinical validation: problems and solutions , 2013, Nature Reviews Clinical Oncology.
[36] Yolanda Gil,et al. Quantifying Reproducibility in Computational Biology: The Case of the Tuberculosis Drugome , 2013, PloS one.
[37] Erika Check Hayden,et al. Geneticists push for global data-sharing , 2013, Nature.
[38] Stian Soiland-Reyes,et al. PAV ontology: provenance, authoring and versioning , 2013, J. Biomed. Semant..
[39] G. Omenn,et al. Evolution of Translational Omics: Lessons Learned and the Path Forward , 2013 .
[40] Carole A. Goble,et al. Enhancing and abstracting scientific workflow provenance for data publishing , 2013, EDBT '13.
[41] Steve Pettifer,et al. EDAM: an ontology of bioinformatics operations, types of data and identifiers, topics and formats , 2013, Bioinform..
[42] Scott D Boyd,et al. Diagnostic applications of high-throughput DNA sequencing. , 2013, Annual review of pathology.
[43] Kevin R. Page,et al. From Workflows to Research Objects: An Architecture for Preserving the Semantics of Science , 2012, LISC@ISWC.
[44] Philippe Bonnet,et al. Computational reproducibility: state-of-the-art, challenges, and database research opportunities , 2012, SIGMOD Conference.
[45] Christine M. Micheel,et al. COMMITTEE ON THE REVIEW OF OMICS-BASED TESTS FOR PREDICTING PATIENT OUTCOMES IN CLINICAL TRIALS , 2012 .
[46] Elizabeth M Glass,et al. From genomics to metagenomics. , 2012, Current opinion in biotechnology.
[47] P. Chain,et al. Next generation sequencing and bioinformatic bottlenecks: the current state of metagenomic data analysis. , 2012, Current opinion in biotechnology.
[48] David E. Robbins,et al. ImageJS: Personalized, participated, pervasive, and reproducible image bioinformatics in the web browser , 2012, Journal of pathology informatics.
[49] R. Peng. Reproducible Research in Computational Science , 2011, Science.
[50] Anton Nekrutenko,et al. Harnessing cloud computing with Galaxy Cloud , 2011, Nature Biotechnology.
[51] Carole A. Goble,et al. Towards the Preservation of Scientific Workflows , 2011, iPRES.
[52] Yogesh L. Simmhan,et al. The Open Provenance Model core specification (v1.1) , 2011, Future Gener. Comput. Syst..
[53] Matthew B. Jones,et al. Challenges and Opportunities of Open Data in Ecology , 2011, Science.
[54] Eugenie Samuel Reich,et al. Cancer trial errors revealed , 2011, Nature.
[55] Carole A. Goble,et al. Why Linked Data is Not Enough for Scientists , 2010, 2010 IEEE Sixth International Conference on e-Science.
[56] D. Altshuler,et al. A map of human genome variation from population-scale sequencing , 2010, Nature.
[57] Akira R. Kinjo,et al. The DBCLS BioHackathon: standardization and interoperability for bioinformatics web services and workflows. The DBCLS BioHackathon Consortium* , 2010, J. Biomed. Semant..
[58] Carole A. Goble,et al. myExperiment: a repository and social network for the sharing of bioinformatics workflows , 2010, Nucleic Acids Res..
[59] Birgit Schilling,et al. Repeatability and reproducibility in proteomic identifications by liquid chromatography-tandem mass spectrometry. , 2010, Journal of proteome research.
[60] M. Metzker. Sequencing technologies — the next generation , 2010, Nature Reviews Genetics.
[61] H. Willard,et al. Genomic and personalized medicine: foundations and applications. , 2009, Translational research : the journal of laboratory and clinical medicine.
[62] N. Hawkins,et al. Data sharing in genomics — re-shaping scientific practice , 2009, Nature Reviews Genetics.
[63] Ian J. Taylor,et al. Workflows and e-Science: An overview of workflow system features and capabilities , 2009, Future Gener. Comput. Syst..
[64] Francis S Collins,et al. A HapMap harvest of insights into the genetics of common disease. , 2008, The Journal of clinical investigation.
[65] Janet Woodcock,et al. The FDA critical path initiative and its influence on new drug development. , 2008, Annual review of medicine.
[66] Geoffrey C. Fox,et al. Examining the Challenges of Scientific Workflows , 2007, Computer.
[67] K. Sirotkin,et al. The NCBI dbGaP database of genotypes and phenotypes , 2007, Nature Genetics.
[68] K. Kjer,et al. Opinions on multiple sequence alignment, and an empirical comparison of repeatability and accuracy between POY and structural alignment. , 2007, Systematic biology.
[69] Paul T. Groth,et al. The Requirements of Using Provenance in e-Science Experiments , 2007, Journal of Grid Computing.
[70] Hilmar Lapp,et al. Open source tools and toolkits for bioinformatics: significance, and where are we? , 2006, Briefings Bioinform..
[71] William K. Michener,et al. Meta-information concepts for ecological data management , 2006, Ecol. Informatics.
[72] José Francisco Aldana Montes,et al. Intelligent client for integrating bioinformatics services , 2006, Bioinform..
[73] James Frew,et al. Lineage retrieval for scientific data processing: a survey , 2005, CSUR.
[74] Douglas Thain,et al. Distributed computing in practice: the Condor experience , 2005, Concurr. Pract. Exp..
[75] Weida Tong,et al. ArrayTrack--supporting toxicogenomic research at the U.S. Food and Drug Administration National Center for Toxicological Research. , 2003, Environmental health perspectives.
[76] Mark D. Wilkinson,et al. BioMOBY: An Open Source Biological Web Services Proposal , 2002, Briefings Bioinform..
[77] L. Stein. Creating a bioinformatics nation , 2002, Nature.
[78] Sanjeev Khanna,et al. Why and Where: A Characterization of Data Provenance , 2001, ICDT.
[79] Sanjeev Khanna,et al. Data Provenance: Some Basic Issues , 2000, FSTTCS.
[80] Haq Mm,et al. Medical genetics and the Human Genome Project: a historical review. , 1993 .
[81] R A Deyo,et al. Reproducibility and responsiveness of health status measures. Statistics and strategies for evaluation. , 1991, Controlled clinical trials.