A | B | C | D | E | F | G | H | I | J | K | L | M | N | O | P | Q | R | S | T | U | V | W | X | Y | Z | AA | AB | |
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1 | Presenters: feel free to update your talk title and please make sure to link your slides by one day before the symposium day (Aug 31st) | |||||||||||||||||||||||||||
2 | ↓ | |||||||||||||||||||||||||||
3 | Time | Actual time | First name | Family name | Slides | Symposium talk title | Affiliation | Requested symposium talk slot | Note | |||||||||||||||||||
4 | From organizers | |||||||||||||||||||||||||||
5 | 10:00 | 10:00 | Susumu | Goto | https://docs.google.com/presentation/d/16ZTdSXLCd1YVpUCs-cOFMk3jp0P7O3Tj4WusTdSytDg/edit?usp=sharing | BioHackathon 2019: Welcome to Fukuoka | Database Center for Life Science (DBCLS), Japan | Long talk | ||||||||||||||||||||
6 | 10:08 | Announcement from Organizers | ||||||||||||||||||||||||||
7 | 10:10 | 10:14 | Toshiaki | Katayama | https://docs.google.com/presentation/d/1m7XX6AdORTGew6q1Fm0QVmYhbyrVzzD63cp08BkhRqg/edit?usp=sharing | Introduction to the BioHackathon 2019 | Database Center for Life Science (DBCLS), Japan | Long talk | ||||||||||||||||||||
8 | RDF resources and applications | |||||||||||||||||||||||||||
9 | 10:20 | 10:28 | Jerven | Bolleman | https://drive.sib.swiss/index.php/s/Dg7pw5XMprM2tNG | SPARQLing Science for dull budgets | SIB Swiss Institute of Bioinformatics, Switzerland | Long talk | ||||||||||||||||||||
10 | 10:30 | 10:40 | Simon | Jupp | https://drive.google.com/file/d/1ufqlUJz6vNk3sMQZ4YAJGVD6GCFcJa9w/view?usp=sharing | Approaches to developing “RDF friendly” metadata standards | European Bioinformatics Institute (EMBL-EBI) | Long talk | ||||||||||||||||||||
11 | 10:50 | 10:50 | Chris | Mungall | https://drive.google.com/file/d/1-fAki3JWdJO0NTmtugJSEUbAG1R8NO1O/view | SparqlProg - Logic Programs for the Biological Semantic Web | Lawrence Berkeley National Laboratory | Long talk | ||||||||||||||||||||
12 | 10:40 | 11:01 | Evan | Bolton | https://ftp.ncbi.nlm.nih.gov/pubchem/.bh2019/Biohackaton%202019.pptx | Towards improving the data ecosystem for scientists | National Center for Biotechnology Information (NCBI), USA | Long talk | ||||||||||||||||||||
13 | 11:00 | 11:13 | Julien | Mariethoz | https://docs.google.com/presentation/d/1WaiuCR83bq8bnxBoD-QapZLNosX89L6q4NBM5fXyETA/edit?usp=sharing | Semantically connecting GlycoProteins with SPARQLy visualizations | Swiss Institute of Bioinformatics (SIB), Switzerland | Lightning talk | ||||||||||||||||||||
14 | 11:05 | 11:19 | Erick | Antezana | https://drive.google.com/open?id=1Y7NJ5DDbS8bsptJmpvxDG_oVYFr0XaeN | Network building with the BioGateway App. | Norwegian University of Science and Technology, Norway & Bayer CropScience, Belgium | Lightning talk | ||||||||||||||||||||
15 | 11:10 | 11:23 | Orion | Buske | https://docs.google.com/presentation/d/1X8qAR5TEMn6PU8x6imlafwtVSoLpOkr2jxJWh7oPv70/edit?usp=sharing | Data sharing services for genomic medicine | PhenoTips/Gene42 | Lightning talk | ||||||||||||||||||||
16 | FAIR | |||||||||||||||||||||||||||
17 | 11:15 | 11:29 | Michel | Dumontier | https://docs.google.com/presentation/d/1LwSFDd8cFKMc20K_tMvrAy4Fhg3LwvB1BV3leQoOApw/edit?usp=sharing | Analyzing partitioned FAIR health data responsibly | Maastricht University, Netherlands | Long talk | ||||||||||||||||||||
18 | 11:25 | 11:36 | Chunlei | Wu | https://docs.google.com/presentation/d/1qkoKOl7ifeAKGQmw_CAt7p79zSdfRZWh9bEUk13hyEY/edit?usp=sharing | Schema Playground: prompting FAIR schemas to support FAIR data | Scripps Research | Long talk | ||||||||||||||||||||
19 | 11:35 | 11:46 | Alexander | Garcia Castro | https://docs.google.com/presentation/d/1c4eSbTbaJ2ydEujvL1AA1rWghVFesy__nEtRIZeI-kA/edit?usp=sharing | The Journal of Research Objects, to be born FAIR for a journal. | BASF | Long talk | ||||||||||||||||||||
20 | 11:45 | 11:57 | Q&A | https://app.sli.do/event/a5nxxdnm/live/questions | ||||||||||||||||||||||||
21 | 12:00 | Group photo | link to photo please! | |||||||||||||||||||||||||
22 | 12:15-14:00 | Lunch break | ||||||||||||||||||||||||||
23 | RDF resources developed in Japan | |||||||||||||||||||||||||||
24 | 14:00 | 14:01 | Mayumi | Kamada | https://drive.google.com/file/d/130a2v2-fML_3UWlBa8R2001gOyU6R9ew/view?usp=sharing | Med2RDF project for biomedical data integration | Kyoto Univeristy | Lightning talk | ||||||||||||||||||||
25 | 14:05 | 14:07 | Takeya | Kasukawa | https://drive.google.com/file/d/18USnAb6bruy4IIsuAmVbDri-QhCEdaGx/view | FANTOM and refTSS promoter resources | RIKEN Center for Integrative Medical Sciences (IMS), Japan | Long talk | Arriving at FUK 9:20AM | |||||||||||||||||||
26 | 14:10 | 14:13 | Hidemasa | Bono | https://drive.google.com/file/d/15q7qoMxlLfWRxMHcw9AxBkvhHQVb65v6/view?usp=sharing | TogoEx: the integration of gene expression data | Database Center for Life Science (DBCLS) | Lightning talk | ||||||||||||||||||||
27 | 14:15 | 14:19 | Susumu | Goto | https://drive.google.com/file/d/1VJSIRcypOu6RoO6sNXOMjCxBS2H_FMup/view?usp=sharing | jPOST environment for proteome data | Database Center for Life Science (DBCLS), Japan | Lightning talk | ||||||||||||||||||||
28 | 14:20 | 14:24 | Chihiro | Higuchi | https://drive.google.com/file/d/19oK4JlmvGM9biDdJpkFOZkGTaJdxOTxI/view?usp=sharin)g | DruMAP RDF Pharmacokinetics database to RDF | National Institutes of Biomedical Innovation, Health and Nutrition (NIBIOHN), Laboratory of Bioinformatics | Lightning talk | ||||||||||||||||||||
29 | 14:25 | 14:29 | Satoshi | Kume | https://drive.google.com/file/d/18iAnym5wmzI8a2IKLElmXvUaRhHr-a41/view?usp=sharing | Semantic Segmentation for Image Metadata Creation in Imaging Metadatabase | RIKEN Center for Biosystems Dynamics Research (RIKEN BDR) | Lightning talk | ||||||||||||||||||||
30 | Data analysis and machine learning | |||||||||||||||||||||||||||
31 | 14:30 | 14:35 | William | Byrd | https://docs.google.com/presentation/d/1bnD34kGPFsYmjIjN33evl1EchdJwSNRale26t7B8eig/edit?usp=sharing | Functional and relational programming for biology and medicine - or, miniKanren meets SPARQL/SPARQPROG | Hugh Kaul Precision Medicine Institute/Computer Science, University of Alabama at Birmingham, USA | Long talk | ||||||||||||||||||||
32 | 14:40 | 14:46 | Pier Luigi | Buttigieg | https://owncloud.mpi-bremen.de/index.php/s/WnVI5GJxWOuYJ8u | Going cosmic: Bridging planetary and life science semantics through hackathons | Alfred Wegener Institute (AWI), Germany | Long talk | ||||||||||||||||||||
33 | 14:50 | 14:57 | Claus | Weiland | https://bit.ly/2NAcYFc | Bridging the gap between bio* knowledge graphs and machine learning | Senckenberg Biodiversity and Climate Research Centre (SBIK-F) | Long talk | ||||||||||||||||||||
34 | 15:10 | 15:07 | Robert | Hoehndorf | http://leechuck.de/biohackathon2019.pdf | Instrastructure for combining ontologies, Linked Data, and machine learning | King Abdullah University of Science and Technology | Lightning talk | Arriving at FUK 7:00AM | |||||||||||||||||||
35 | 15:20 | 15:12 | Thomas | Liener | https://docs.google.com/presentation/d/1K-pWPnSkK7avYeLOPc6LqyoiEeJE6ViDoL5Tdlm9lgw/edit?usp=sharing | Human readable RDF validation | None | Lightning talk | ||||||||||||||||||||
36 | 15:25 | 15:17 | Jose Emilio | Labra Gayo | https://docs.google.com/presentation/d/1dLu6t35MzUCLwUO01hHeNzHpuSzpHSj31lTtbLSxIzU/edit?usp=sharing | Data models, visualizations and Shape Expressions for RDF | University of Oviedo, Spain | Lightning talk | ||||||||||||||||||||
37 | 15:30 | 15:23 | Leyla | Garcia Castro | https://drive.google.com/file/d/10E7e2-i1IZXR8Nq6GLp8FLtcx_grxboC/view?usp=sharing | Bioschemas validator | ZBMED Information Centre for Life Sciences, Germany | Lightning talk | ||||||||||||||||||||
38 | 15:35 | 15:27 | Deepak | Unni | https://docs.google.com/presentation/d/1zKS2D-lSNmLQ-1cDyVDhHLnc7E6PWlp7WKFOE-ykM_k/edit?usp=sharing | BioLink Model - standardizing knowledge graphs and making them interoperable | Lawrence Berkeley National Laboratory (LBNL) | Lightning talk | ||||||||||||||||||||
39 | 15:40 | 15:33 | Yasunori | Yamamoto | https://docs.google.com/presentation/d/1hAzKnLdG_5cQDHkjqppqN5ULQDRSbNy3pM2Tb7mhpPA/edit?usp=sharing | Keep data accessible, reliable, and great | Database Center for Life Science (DBCLS), Japan | Lightning talk | ||||||||||||||||||||
40 | 15:45 | 15:39 | Q&A | |||||||||||||||||||||||||
41 | 15:45-16:15 | Coffee break | ||||||||||||||||||||||||||
42 | > 16:15-17:00 | Services and tools | ||||||||||||||||||||||||||
43 | 16:15 | 16:17 | Masahiro | Kasahara | https://www.dropbox.com/s/mztb9i6wrnjayvv/201909019BioH2019.pptx?dl=0 | Making genomics workflows truly portable | The University of Tokyo | Long talk | ||||||||||||||||||||
44 | 16:25 | 16:27 | Hirotaka | Suetake | https://docs.google.com/presentation/d/1YRKCM1KwHyNOz7B6AP2j5qIHjl7Ew9CnAtvXA1xSeNY/preview | SAPPORO & tonkaz: Test framework for data analysis | The University of Tokyo | Long talk | ||||||||||||||||||||
45 | 16:35 | 16:35 | Michael | Crusoe | https://tinyurl.com/2019-CWL-biohack19 | Common Workflow Language standards: v1.1 and beyond! | Common Workflow Language (CWL) project & ELIXIR-Netherlands | Lightning talk | ||||||||||||||||||||
46 | 16:40 | 16:41 | Alexander | Kanitz | https://docs.google.com/presentation/d/17sLndD66nESHMXJhQZ2m4mxwFvMd0lZgTwjBOmFn8J0/preview | WES-ELIXIR - A language-agnostic implementation of the GA4GH Workflow Execution Service API | Swiss Institute of Bioinformatics (SIB) / ELIXIR Switzerland | Lightning talk | ||||||||||||||||||||
47 | 16:45 | 16:46 | Naohisa | Goto | https://drive.google.com/file/d/1-_uaT6q9IiaGi4qWj5Xo506vCRs7uCmO/view?usp=sharing | BioRuby 2.0 | RIMD, Osaka University, Japan | Lightning talk | ||||||||||||||||||||
48 | 16:50 | 16:51 | Kozo | Nishida | https://docs.google.com/presentation/d/1ycSkiNcCQxuRj1nGkziq48GZFJo5GCSoEN_uDqvq2Gc/edit?usp=sharing | Dashboarding pathway network with Dash-Cytoscape | RIKEN | Lightning talk | ||||||||||||||||||||
49 | 16:55 | 16:56 | Yasunori | Osana | https://lut.eee.u-ryukyu.ac.jp/owncloud/index.php/s/Odn4i44uqOV6EDf | FPGA acceleration: any opportunity in Bioinformatics? | University of the Ryukyus, Japan | Lightning talk | ||||||||||||||||||||
50 | > 17:00-17:50 | Genome graph and visualization | ||||||||||||||||||||||||||
51 | 17:00 | 17:01 | Erik | Garrison | https://docs.google.com/presentation/d/10KDUnRJyKwi5q9khCcb0C9Mb52XcGZbfvFFF0nNCbGg/edit?usp=sharing | Untangling the pangenome | University of California, Santa Cruz (UCSC) USA | Long talk | ||||||||||||||||||||
52 | 17:10 | 17:11 | Simon | Heumos | https://docs.google.com/presentation/d/1FFj0-10Sd3hyLajb_d8oDXDLEGDWEgwuYSmoZ8W9vyQ/edit?usp=sharing | Interactive Visualization of Genome Variation Graphs | Quantitative Biology Center (QBiC), Germany | Long talk | ||||||||||||||||||||
53 | 17:20 | 17:21 | Josiah | Seaman | https://docs.google.com/presentation/d/1GD_-OAlh-x-JyDeB-br-cynOgJXpFJquw0Ir2KT3Hdc/edit?usp=drivesdk | Summarizing Graph Genomes to Capture True Species Diversity | Royal Botanic Gardens Kew | Long talk | ||||||||||||||||||||
54 | 17:30 | 17:31 | Toshiyuki | Yokoyama | https://docs.google.com/presentation/d/1tjqs83_eDXVyeSD_UPi5r8JuG8VCR_-JAAPRIquh-38/edit?usp=sharing | Visualization and Application of Graph Genomes | The University of Tokyo | Lightning talk | ||||||||||||||||||||
55 | 17:35 | 17:37 | Christian | Fischer | https://chfi.github.io/bh2019/slides.html | Genetics Browser & VG visualisation | University of Tennessee Health Science Center (UTHSC) | Lightning talk | Arriving at FUK 9:45AM | |||||||||||||||||||
56 | 17:40 | 17:41 | Jouni | Sirén | https://docs.google.com/presentation/d/1GYgeiVC8siyHaTAIktfj-UFLueBbvtSTkrYzjKJ21cE/edit?usp=sharing | GBWTGraph | University of California Santa Cruz (UCSC) | Lightning talk | ||||||||||||||||||||
57 | 17:45 | 17:46 | Pjotr | Prins | http://biogems.info/bh12.pdf | The great data mashup | University of Tennessee Health Science Center (UTHSC), USA | Lightning talk | Arriving at FUK 9:45AM | |||||||||||||||||||
58 | > 17:50-18:20 | contd. Data analysis and machine learning (due to flight delay) | ||||||||||||||||||||||||||
59 | 17:50 | 17:54 | Mona | Alshahrani | https://drive.google.com/file/d/1bb6QoZGNaD-dqg2dI2BOx9awYQGPZBvK/view?usp=sharing | Knowledge graph representation learning: approaches and applications in biomedicine | King Abdullah University of Science and Technology (KAUST), Saudi Arabia | Long talk | Will be postponed to the other day due to flight delay | |||||||||||||||||||
60 | 18:00 | 18:07 | Maxat | Kulmanov | https://www.dropbox.com/s/bc65up7qfwnryme/deepgoplus.pdf?dl=1 | DeepGOPlus: Improved protein function prediction from sequence | King Abdullah University of Science and Technology (KAUST) | Lightning talk | Will be postponed to the other day due to flight delay | |||||||||||||||||||
61 | 18:05 | 18:13 | Q&A | |||||||||||||||||||||||||
62 | Collaboration with the ELIXIR BH | |||||||||||||||||||||||||||
63 | 18:20 | 18:18 | Victoria | Dominguez del Angel | https://docs.google.com/presentation/d/1I8F5TOAWDBlWsiVyNlRGF048wFyazevM/present?token=AC4w5Vg8bklUeQuttsUvqWMvI9xY7IhnUg%3A1567266564845&includes_info_params=1&eisi=CPCZ9_a6reQCFQTzJAodfzMNNQ#slide=id.p1 | Elixir-Europe Biohackathon | Institut Français de Bioinformatique, ELIXIR-FR | Lightning talk | ||||||||||||||||||||
64 | 18:25 | 18:24 | Announcements from organizers | |||||||||||||||||||||||||
65 | Enjoy Fukuoka night | |||||||||||||||||||||||||||
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67 | Flight delay | |||||||||||||||||||||||||||
68 | Tomorrow? | (5min) | Garrett | Stevens | https://docs.google.com/presentation/d/1IFmTDbRyFz_TfpBm10vdNUUKMakeYwGXFW34FIW9AsM/edit?usp=sharing | JBrowse 2: Genome browsing for the modern web | University of California Berkeley (UC Berkeley), USA | Lightning talk | Will be postponed to the other day due to flight delay | |||||||||||||||||||
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