paper.md

title	title_short	tags	authors	affiliations	date	cito-bibliography	event	biohackathon_name	biohackathon_url	biohackathon_location	group	git_url	authors_short
BioHackEU23 report: Template for the very long title	BioHackEU23 #26: unknown chemical substances	cheminformatics PubChem unknown chemical substances	name affiliation Yosuke Kawai 1 name affiliation Toshiaki Katayama 2 name affiliation Maxat Kulmanov 3 name affiliation Toyoyuki 4 name affiliation Yuki 5 name affiliation Nobutaka 6 name affiliation Hirokazu 7 name affiliation Tsuyoshi 8 name affiliation Dorothy Ellis 9 name affiliation Pitiporn (Sam) 10 name affiliation Mayumi 11 name affiliation Núria 12 name affiliation Shuichi 13 name affiliation Kentaro (Yamaken) 14 name affiliation David 15 name affiliation Takatomo 16 name affiliation Hiroyuki Mishima 17 name affiliation Tazro 18	name index First Affiliation 1 name index Second Affiliation 2 name index RIKEN Center for Integrative Medical Sciences 9	30 August 2024	paper.bib	BH23EU	BioHackathon Japan 2024	https://biohackathon-europe.org/	Fukushima, Japan, 2024	Genome variation	https://github.com/biohackrxiv/bh24-genome-variation	First Author \emph{et al.}

Introduction

The widespread use of sequencers has generated a flood of data that has greatly faciliated the analysis and understanding of the human genome. Simple variations such as single nucleotide variants (SNVs) and indels have been integrated with the comprehensive Japanese genetic variation database TogoVar, but there is currently no standardized representation for structural variants. Pangenome graphs have also emerged as a powerful tool to integrate multiple haplotypes. To facilitate the integration of structural variants, we developed a Common Workflow Language (CWL) script to add TogoVar information to variant call format (VCF) files. We also ....

Formatting

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Citation Typing Ontology annotation

You can use CiTO annotations, as explained in this BioHackathon Europe 2021 write up and this CiTO Pilot. Using this template, you can cite an article and indicate why you cite that article, for instance DisGeNET-RDF [@citesAsAuthority:Queralt2016].

The syntax in Markdown is as follows: a single intention annotation looks like [@usesMethodIn:Krewinkel2017]; two or more intentions are separated with colons, like [@extends:discusses:Nielsen2017Scholia]. When you cite two different articles, you use this syntax: [@citesAsDataSource:Ammar2022ETL; @citesAsDataSource:Arend2022BioHackEU22].

Possible CiTO typing annotation include:

• citesAsDataSource: when you point the reader to a source of data which may explain a claim
• usesDataFrom: when you reuse somehow (and elaborate on) the data in the cited entity
• usesMethodIn
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• citesAsEvidence
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• confirms
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• obtainsSupportFrom
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• updates
• citation: generic citation

Results

Discussion

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Acknowledgements

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References