Comparison of SARS-CoV-2 variants with INSaFLU and galaxyproject

Utkueri, Y; Fer, Evrim; Bozlak, E; Kutnu, M; Kara, Nurten; Yilmaz, Fazilet

doi:10.37044/osf.io/9d3cz

Cited by 2 publications

(2 citation statements)

References 8 publications

(9 reference statements)

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“…Despite being the first attempt of the society to arrange a hackathon, the participants enjoyed the experience and continued their project as part of an international hackathon, 11 and published their findings as a preprint. 12 As most of our universities and institutes required us to strictly work from home, we required a new platform to discuss advances in science and communicate. Therefore, we established a Journal Club by making the best use of online platforms.…”

Section: Lesson 4: Each Challenge Is An Opportunitymentioning

confidence: 99%

Lessons from a ten-year-long journey: building a student-driven computational biology society across Turkey

et al. 2022

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The Regional Student Group Turkey (RSG-Turkey) is officially associated with the International Society for Computational Biology (ISCB) Student Council (SC). At the RSG-Turkey, we aim to contribute to the early-career researchers in computational biology and bioinformatics fields by providing opportunities for improving their academic and technical skills in the field. Over the last ten years, we have built a well-known student-driven academic society in Turkey that organizes numerous events every year and continues to grow with over 650 current members. Celebrating the 10th anniversary of RSG-Turkey, in this communication, we share our experiences, five main lessons we learned, and the steps to establish a long-standing academic community: having a clear mission, building a robust structure, effective communication, turning challenges into opportunities, and building collaborations. We believe that our experiences can help students and academics establish long-standing communities in fast-developing areas like bioinformatics.

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Section: Lesson 4: Each Challenge Is An Opportunitymentioning

confidence: 99%

Lessons from a ten-year-long journey: building a student-driven computational biology society across Turkey

et al. 2022

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“…age, gender, exposures) and methods (sampling, sequencing, bioinformatics) information. For example, phylodynamics, the combined analysis of epidemiological, immunological, and evolutionary characteristics, is predicated on having accurate sampling time and location data for each genome which aid public health practitioners in understanding the spatiotemporal patterns of disease transmission (19)(20)(21) . Additionally, contextual data may be used to determine whether specific lineages are circulating in specific settings e.g.…”

Section: The Importance Of Contextual Data For Interpreting Sars-cov-mentioning

confidence: 99%

The PHA4GE SARS-CoV-2 Contextual Data Specification for Open Genomic Epidemiology

Griffiths¹,

Timme²,

Page³

et al. 2020

Preprint

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The Public Health Alliance for Genomic Epidemiology (PHA4GE) (https://pha4ge.org) is a global coalition that is actively working to establish consensus standards, document and share best practices, improve the availability of critical bioinformatic tools and resources, and advocate for greater openness, interoperability, accessibility and reproducibility in public health microbial bioinformatics. In the face of the current pandemic, PHA4GE has identified a clear and present need for a fit-for-purpose, open source SARS-CoV-2 contextual data standard. As such, we have developed an extension to the INSDC pathogen package, providing a SARS-CoV-2 contextual data specification based on harmonisable, publicly available, community standards. The specification is implementable via a collection template, as well as an array of protocols and tools to support the harmonisation and submission of sequence data and contextual information to public repositories. Well-structured, rich contextual data adds value, promotes reuse, and enables aggregation and integration of disparate data sets. Adoption of the proposed standard and practices will better enable interoperability between datasets and systems, improve the consistency and utility of generated data, and ultimately facilitate novel insights and discoveries in SARS-CoV-2 and COVID-19.

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Comparison of SARS-CoV-2 variants with INSaFLU and galaxyproject

Cited by 2 publications

References 8 publications

Lessons from a ten-year-long journey: building a student-driven computational biology society across Turkey

Lessons from a ten-year-long journey: building a student-driven computational biology society across Turkey

The PHA4GE SARS-CoV-2 Contextual Data Specification for Open Genomic Epidemiology

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