BH18 Symposium program and slides
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Given name
Middle name
Family nameTalk slotSymposium talk titleAffiliationSlides
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Resources
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10:00-10:20ToshiakiKatayamaLong talkIntroduction to the 11th NBDC/DBCLS BioHackathon & recap ELIXIR BH18Database Center for Life Science, Japan
https://docs.google.com/presentation/d/1VUNyrHe7skWxpiWduuzSk0iGxXCgJ-l2v1Ii_yXGggQ/edit?usp=sharing
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10:30-10:35Leyla JaelGarcia Castro
Lightning talk
FAIRness assessment for tools/software applicationsElixir Hub
https://docs.google.com/presentation/d/1_QOP29PB6jJxwSQkFv1p3NXLnK7VDl0qZ814I1VFDa0/edit?usp=sharing
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10:35-10:40ShuichiKawashima
Lightning talk
NBDC RDF portal 2018
Database Center for Life Science (DBCLS), Japan
https://goo.gl/regdMo
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Biomedical
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10:40-10:50Sebastian
Burgstaller-Muehlbacher
Long talkA single cell gene expression ontology (scOnto)
Max F Perutz Laboratories, Vienna Biocenter, Medical University of Vienna
https://www.dropbox.com/s/ak7yoichggf4cdb/BH18_Burgstaller.pptx?dl=0
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10:50-11:00YosukeTanigawaLong talkTranscription factor ontology
Department of Biomedical Data Science, Stanford University (Stanford), U.S.A.
http://bit.ly/2Pwt1RS
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11:00-11:10OrionBuskeLong talkPhenoTips: helping doctors collect structured data to better diagnose genetic conditionsGene42, Canada
https://docs.google.com/presentation/d/1Lr3LRN_jcd-VPasBsy_6BSxeANdkhTjRD6MzGoUlBrs/edit?usp=sharing
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11:10-11:20StevenLaurieLong talkThe RD-Connect Genome-Phenome Analysis Platform, for analysing, sharing, and solving rare disease cases
Centro Nacional de Analisis Genomico (CNAG-CRG), Barcelona, Spain
https://drive.google.com/file/d/1Q1aMkxMv7825ZyLTGgPFksSacT--luSe/view
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11:20-11:30Núria
Queralt Rosinach
Long talkStructured Review and a Datascope Library: Surfing Waves of Knowledge Between BioThingsScripps Research (SR), USAhttps://drive.google.com/open?id=1X8shF_L4VN-D_x-UfQca3llBL24ACKqr
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11:30-11:35ToyofumiFujiwara
Lightning talk
PubCaseFinder and PhenoTouch
Database Center for Life Science (DBCLS), Japan
https://drive.google.com/file/d/1nlf47iH6pCjC8MkIF4KPHbB-b-0Nt9O7/view?usp=sharing
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11:35-11:40GiovanniCharles
Lightning talk
Nan-Byo diagnosisMendelian
https://docs.google.com/presentation/d/16_aRTDIsvTfxG2Q0iUBbHtYzqX1TGQk3nXmHtDkUKsY/edit?usp=sharing
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Agriculture
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11:40-11:50PierreLarmandeLong talkThe Agronomic Linked Data project (AgroLD) a knowledge network platform for plantsInstitute of Research for Development (IRD)
https://docs.google.com/presentation/d/1AtyNT8mus13Fyghh5F2yswEoLox1yRNwydzBqLgPmek/edit?usp=sharing
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11:50-12:00ErickAntezanaLong talkTowards a Plant Breeding Ontology (PBO) enabling phenotypic and genotypic data interlinkage
Norwegian University of Science and Technology (NTNU), Norway and Bayer CropScience, Belgium
https://drive.google.com/open?id=1VBg_Bh0ll7E2A17Nf7VW5MKrqXDVtjH6
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12:00-12:05AndreaGhelfi
Lightning talk
Hayai-Annotation Plants: R-package for an ultra fast and highly accurate gene annotation in plantsKazusa DNA Research Institute (KDRI), Japan
https://drive.google.com/open?id=159aP535OF_iiHvYHwQAm44hp9Q1XqfWc
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12:05-13:30
Lunch
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Omics
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13:30-13:40MarcoPagniLong talkMetaNetX/MNXref: a resource for systems biology and metabolomics
SIB Swiss Institute of Bioinformatics, Switzerland
https://drive.google.com/file/d/1TWId3Fj0zfJEeBp1eGfFw8H11GMWPhNC/view?usp=sharing
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13:40-13:50EvanBoltonLong talk
Knowledge graphs, applied use of terminologies, and improving the quality of linked content in the chemically-relevant biomedical research space
National Center for Biotechnology Information (NCBI), USA
https://drive.google.com/open?id=1UoUjgyvP9g4kQ7C9KG6-RomV6b8tIV58
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13:50-13:55KiyokoF.Aoki-KinoshitaLong talkSemantically linking glycoscience data in the GlyCosmos PortalSoka University, Japan
https://docs.google.com/presentation/d/1QX2rr7jmdNxRN-jOnVkeeQs0DemVskMAOZnLRyEVprs/edit?usp=sharing
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13:55-14:00NicolasTerraponThe Carbohydrate-Active enZyme database
Architecture et Fonction des Macromolécules Biologiques (AFMB), Aix-Marseille Université (AMU)
https://docs.google.com/presentation/d/1AAWGCqp1lWI0K2xB1eA5ADd8AILzTUoOqsvWNSMMJTU/edit?usp=sharing
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14:00-14:05JervenBolleman
Lightning talk
HAMAP rules
SIB Swiss Institute of Bioinformatics, Switzerland
https://drive.sib.swiss/index.php/s/sbYnCpTxgGNyKkN
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14:05-14:10SusumuGoto
Lightning talk
jPOST proteome database (tentative)
Database Center for Life Science (DBCLS), Japan
https://drive.google.com/file/d/1VJSIRcypOu6RoO6sNXOMjCxBS2H_FMup/view?usp=sharing
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14:10-14:15HidemasaBono
Lightning talk
All of gene expression (AOE)
Database Center for Life Science (DBCLS), Japan
https://drive.google.com/file/d/1gWxKWIBQZKw0LWe1cTvEQkMz8uQZX-_K/view?usp=sharing
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14:15-14:20HaruoSuzuki
Lightning talk
Plasmid genomicsKeio University, Japanhttps://drive.google.com/open?id=1kPl_Vj-lgjnbEe9iQDRZeUUongVS_OBY
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14:20-14:30ErikGarrisonLong talkTowards practical graphical pangenomicsWellcome Trust Sanger Institute
https://docs.google.com/presentation/d/1byJwI0nZKz35rN2VD1oB8s1rIh4XaIMStSJ2emWZPYc/edit?usp=sharing
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14:30-14:35VincenzaColonna
Lightning talk
Detection of small-size structural variants lethal in humans National Research Council (CNR), Italy
https://docs.google.com/presentation/d/1YfrYADyoeYcsZ5qiEV9VXcTAPJSFqUs6PzyNLQLmoOA/edit?usp=sharing
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14:35-14:40ToshiyukiYokoyama
Lightning talk
MoMIG: a graph genome browserThe University of Tokyo, Japan
https://docs.google.com/presentation/d/1VFuwRk4s4EGapMhwYUKGGiDZwp2lK4N_6l4YvZ2DVyI/edit?usp=sharing
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14:40-14:45MasanobuJimbo
Lightning talk
Personal data on genome graphWASEDA University, Japanhttps://drive.google.com/open?id=1rA9I67UjnWOfblRzKpI9Q3Qi3H6QkRLl
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AMED
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14:45-14:55SoichiOgishimaEnabling genomic & phenotypic data sharing for the benefit of human healthToMMo, Tohoku Univhttps://www.dropbox.com/s/jou7y354cd7aa6k/ogishima.pptx?dl=0
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14:55-15:05TakakoTakaiGenome Medicine Alliance Japan (GEM-J): a proposal for GA4GH driver projects
Japan Agency for Medical Research and Development (AMED)
https://www.dropbox.com/s/pur59c1cko1wokq/TakakoTakai-BH18.pptx?dl=0
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15:05-15:10MayumiKamada
Lightning talk
MGeND: Integrated database of genomic and clinical information to promote precision medicine in JapanKyoto University, Japan
https://www.dropbox.com/s/20t8kc9qy4pwd3u/BioHackthon2018_MGeND_kamada.pdf?dl=0
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15:10-15:15NobutakaMitsuhashi
Lightning talk
TogoVar: NBDC's integrated database of Japanese genomic variation
National Bioscience Database Center (NBDC), Japan Science and Technology Agency (JST)
https://docs.google.com/presentation/d/1hI6AncTqV_oPrLbVPYcclOr_t-q6ZtpOeNJNcX0UpLg/view?usp=sharing
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15:15-16:30
Coffee break & exhibition
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GA4GH
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16:30-16:40Brian
Daniel
O'ConnorLong talkThe GA4GH Cloud Work Stream: Emerging Standards for Genomics in the CloudUniversity of California Santa Cruz (UCSC)
https://docs.google.com/presentation/d/1EF4yjSXTTYz7IUSc1yWP7LY4XR-gwUQMvziZRMKiMGU/edit?usp=sharing
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Software
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16:40-16:50MichaelR.CrusoeLong talk
Enhanced data and tools use, re-use, and collaboration with the Common Workflow Language standards: from the life sciences to astrophysics and beyond.
Common Workflow Language project (CWL)https://tinyurl.com/biohack18-cwl
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16:50-17:00MasahiroKasaharaLong talkThings that Docker does not provide for genome informaticsUniversity of Tokyo (UTokyo)
https://www.dropbox.com/s/e1ss49zo0nbxmya/20181209BioH2018.pptx?dl=0
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17:00-17:05TazroOhta
Lightning talk
Where to run a workflow that runs wherever you want: runtime metrics analysis for workflow deployment
Database Center for Life Science (DBCLS), Japan
https://speakerdeck.com/inutano/workflows-that-run-everywhere-and-where-to-run-them
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17:05-17:10PjotrPrins
Lightning talk
Reproducible analysis challenge starts with software
University Medical Center Utrecht, The Netherlands
http://biogems.info/slides.pdf
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17:10-17:20William
Edward
ByrdLong talkmediKanren: a constraint logic language for biomedical reasoning
Hugh Kaul Precision Medicine Institute, University of Alabama at Birmingham, USA
https://drive.google.com/file/d/1cWmUGyGmRQ4jmEfK80WokgIz4nJLFzLw/view?usp=sharing
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17:20-17:25Deepak
Raveendran
Unni
Lightning talk
KGX - a tool designed to exchange information for BioLink Model compliant KGsLawrence Berkeley National Laboratory (LBNL)
https://drive.google.com/open?id=1c8h_Pc5zxDRcPtbyyaE04XXEA4dmpxhc
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17:25-17:30MaxatKulmanov
Lightning talk
Vec2SPARQL: combining SPARQL queries and vector space embeddings
King Abdullah University of Science and Technology
https://drive.google.com/file/d/1rCFxLQhugfIEmfSm-x9nRwQnURuwfKTs/view?usp=sharing
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17:30-17:35YasunoriYamamoto
Lightning talk
Reduce Reuse Recycle in Data
Database Center for Life Science (DBCLS), Japan
https://drive.google.com/file/d/1ybf5VJEcL4iQNSQamB9H0GLamEu6rpGa/view?usp=sharing
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17:35-17:40AtsukoYamaguchi
Lightning talk
Application of LOD Surfer to Multiple Protein Sequence Alignment
Database Center for Life Science (DBCLS), Japan
https://drive.google.com/file/d/1vXd7LN9Z9EHX-cCUitUNNfniFREhRZCL/view?usp=sharing
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17:40-17:45YoYehudi
Lightning talk
Standardising BioJS components with WebComponentsUniversity of Cambridge
https://docs.google.com/presentation/d/1xE9ojRPL14vlMHSDbWlSs0Q6ouGfdsAdMhuKZjOK3xc/edit#slide=id.g47e336a758_0_46
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17:45-17:50NobuyukiAoki
Lightning talk
webcomponent to rdf integrationSparqLite LLC
https://docs.google.com/presentation/d/1KrLnZFWWTjyCR6DPP3zqfWTrJcRLy2eWDf7EzvuPU9g/edit?usp=drivesdk
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17:50-17:55ClausWeiland
Lightning talk
TraitBLAST - towards a semantic framework for inter-species screening and comparison of phenotypes
Senckenberg Biodiversity and Climate Research Center (SBIK-F)
https://docs.google.com/presentation/d/1LhivbpVLdVZwkMwBbcczFKM0rRZPrUw5AcJVqn069Lg/edit?usp=sharing
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17:55-18:00NaohisaGoto
Lightning talk
BioRuby
Research Institute for Microbial Diseases (RIMD), Osaka University, Japan
https://drive.google.com/file/d/1r-SJfxdSTgQDWipf5O6XavATQY6Q0WMk/view?usp=sharing
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18:00-18:10MarkWilkinson
Lightning talk
Evaluating FAIRness
Center for Plant Biotechnology and Genomics, UPM Madrid
https://docs.google.com/presentation/d/1ZOpc7tHO3iFHoWVDx3Mj7lceo1LFE-418xN6zIXe7Hg/edit?usp=sharing
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18:15-18:30
Group photo
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19:00-
Dinner
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Cancel
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Farah
Zaib
KhanLong talkCWLProv-Interoperable retrospective provenance capture and sharing
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