Tools and Services
Resources
Communication
Course Overview:
The societal challenge of the 2019 Coronavirus Disease (COVID-19) pandemic increases the global needed for technology-facilitated learning. Additionally, there is a growing need for experts who can design and deliver technology-facilitated courses that enable course participants to successfully apply course knowledge content and contribute innovative solutions to societal challenges.
The H3ABioNet Bioinformatics Instructional Design Online Course is the first course in a series of online Train-the-Trainer courses with an expected outcome of teams of trainers with diverse expertise to support the performance of bioinformatics tasks in the H3Africa community. The objective of the H3ABioNet Bioinformatics Train-the-Trainer project is to develop teams of bioinformatics trainers who are able to design and deliver effective, efficient and engaging learning experiences on bioinformatics topics to the H3Africa community with the best use of H3ABioNet and H3Africa resources. For additional information, please email
Keywords: Bioinformatics, Knowledge Transfer, Train-the-Trainer, Visualization
Skill level of training: Beginner
Language: English
Credential awarded: Certificate of Achievement and Certificate of Recognition
Type of training: Online
Venue of Course: Online via Canvas Learning Management System
Dates for the Course: 12 October - 06 November 2020 (online weekly two-hour synchronous course sessions)
Course Organisers: Angela Makolo, Bukola Smile, and Raphael Isokpehi (Contact: )
Registration opens: 16 September 2020
Registration closes: 02 October 2020
Notification date: 07 October 2020
Link to application form: https://redcap.link/TtT_2020
Course Sponsors: H3ABioNet and U.S. National Science Foundation (Award #2029363)
Intended Audience: H3Africa and H3ABioNet Consortium members who are interested in serving as facilitators of learning bioinformatics knowledge content.
Syllabus and Tools:
Syllabus
Tools
Prerequisites: Prior Experience in Bioinformatics Research and Education.
Learning objectives: After this course, participants should be able to perform the following tasks in bioinformatics knowledge categories; content types for bioinformatics knowledge; and instructional design strategies for bioinformatics knowledge.
Explain bioinformatics knowledge categories.
Classify bioinformatics images and text into bioinformatics knowledge categories.
Construct datasets of bioinformatics knowledge categories from scholarly articles on bioinformatics topics.
Design interactive visual representations to facilitate learning of the bioinformatics knowledge categories.
Explain knowledge content types.
Classify statements in bioinformatics text into the five knowledge content types: fact, concept, process, procedure and principle.
Construct datasets of bioinformatics knowledge content types from scholarly article on bioinformatics topics.
Design interactive visual representations to facilitate learning of the bioinformatics knowledge content types.
Explain instructional design strategies according to the five knowledge content types.
Classify instructional design strategies according to the five knowledge content types.
Construct datasets of bioinformatics learning objectives and associated learning assessment, suggested learning activities and suggested learning sequence using content in scholarly articles on bioinformatics topics.
Design interactive visual representations to facilitate learning of the bioinformatics instructional design strategies.
Workshop limitations: This course will only provide a foundation for continued participation in the H3ABioNet Train-the-Trainer project. The H3ABioNet Train-the-Trainer project will collect learning transaction of participants for the purpose of course improvement and development of teams of trainers.
Course Programme:
Week |
Online Activities * |
Week 1 |
Opening Event Bioinformatics Knowledge Categories |
Week 2 |
Knowledge Content Types |
Week 3 |
Instructional Design Strategies |
Week 4 |
Bioinformatics Train-the-Trainer Teams Development Closing Event |
*Participants are estimated to need 8 hours per week for self-paced learning and 2 hours per week of instructor-led synchronous session.
Training Materials Availability:
Training materials used for this course were not directly produced by H3ABioNet but may be accessed here: https://public.tableau.com/app/profile/uibgnode/viz/bioinfo_ttt_resource/bioinfo_figuredb. Please note, these materials may be governed by different sharing/re-use policies, and you are encouraged to follow the policies of the external providers regarding material re-use and/or sharing.
Through its various activities across its 28 nodes, H3ABioNet has developed human capacity through training and support for data analysis, and facilitated access to informatics infrastructure by providing access to pipelines and tools for human, microbiome, and pathogen genomic data analysis. H3ABioNet has played a pivotal role in capacity development for Bioinformatics in Africa over the last 10 years and would like to celebrate its various achievements in the form of a symposium (in the form of videos, posters, testimonials, etc.). The symposium will take place at the Cape Town International Convention Center in Cape Town, South Africa on 22 February 2023 and we invite all who are interested in attending the symposium (in person), to register for the event. A hybrid option may be available but the event is currently planned to take place in person only.
Registration will open on 03 November and remain open until 03 February 2023. There is no cost involved in registering for the event. Please note, no late registrations will be accepted. To register for the event, please complete the following registration form:https://redcap.link/H3ABioNet_symposium_registration. Should you register for the event, we will assume you plan to attend in person.
Registration will open on 03 November and remain open until 03 February 2023. There is no cost involved in registering for the event. Please note, no late registrations will be accepted. To register for the event, please complete the following registration form: https://redcap.link/H3ABioNet_symposium_registration . Should you register for the event, we will assume you plan to attend in person.
Call for Exhibition of H3ABioNet Bioinformatics and Genomics Resources
H3ABioNet would like to host an exhibition to showcase bioinformatics and genomics resources (tools, workflows, databases and data portals) developed by the network. H3ABioNet therefore, invites Project Leads, members and students to exhibit tools and workflows that they have developed in the last 10 years. This can include resources that are still in development. H3ABioNet will provide the infrastructure for the demonstrations e.g., booth, table or display boards. The applicants will be responsible for bringing their own branding materials and displays. As this is an in-person and interactive event, live demonstrations of the resources are encouraged. Applicants are advised to use any medium that will best represent the use of their resource at the exhibition. This can be in the form of a live demonstration, poster or any other medium. Exhibitions will be subject to approval by a selection committee.
Any parties interested in exhibiting at the H3ABioNet 10 Year Symposium can contact Tshinakaho Malesa ().
(External parties are welcome to indicate their interest to exhibit their bioinformatics genomics resources at the symposium via the email above.)
Applications will close 03 February 2023 – no late submissions will be considered.
By: Paballo Chauke
(Graphic: John McCann/M&G)
Being involved in the inaugural Women in Data Science (WiDS) Africa conference struck me as an opportunity to try to give credence to literary theorist and feminist critic Gayatri Chakravorty Spivak’s famous essay on colonialism and allow the “subaltern to speak”.
As a feminist ally, I passed the mic to some phenomenal women who are generally underpaid, underrepresented and unseen in the world of data science which, especially in Africa, is male-dominated.
Data has been referred to as the new oil because it is a valuable asset that has the potential to transform the way society operates. Data science is the interdisciplinary, complex employment of big data, artificial intelligence and advanced analytics and is a fast-growing field of science. It is increasingly being used to inform policy and decision-making in both government and the private sectors, but representation in the field remains unequal.
According to recent statistics, women make up a measly 15% of all data scientists globally and the World Economic Forum 2020 report found that only 26% of professionals employed in data and artificial intelligence in Africa are women.
Equal representation is crucial, however, because data is used to harness important information, often about people. Data has the potential to perpetuate harmful and oppressive biases; machines and robots are susceptible to learning and regurgitating human weaknesses and whims. As such, diversity, in terms of race, class, gender, sexuality, ability and other identity markers, is critical to the fair advancement of the field.
The tumultuous history that the world, and Africa in particular, has with science will only be changed from within. Inequality, expressed as racism, sexism and more has invariably been endorsed and promoted by scientists. For example, the myth that some racial groups are superior has propped up colonialism, apartheid, eugenics and genocide.
Science is often touted as an apolitical and ahistorical search for “objective knowledge” and understanding of our world. It follows a systematic methodology that is based on evidence. Even though organisations such as the Science Council provide quality assurance for scientists all over the world based on criteria such as objectivity and critical analysis, other scientists such as Keith Punch have argued that human beings are incapable of being objective — which means that science performed by any human is subjective.
And, regardless of the claims by many who want to continue to pretend otherwise, science is political, because it is in constant conversation with power in all spheres of society.
Furthermore, science is an organised knowledge community which has authority to affect lives whether positively or otherwise. Therefore this “neutral” science is, in Gramscian terms, propagated through hegemonic power and is normalised as common sense to uphold the status quo.
It is thus urgent that more women of colour cement themselves in this realm. The urgency with which data science needs transformation was echoed by women speakers and data scientists at the WiDS Africa conference, especially held on International Women’s Day, 8 March.
International Women’s Day commemorates the scientific, cultural, political, historical and socioeconomic achievements of women. It is also a focal point in the women’s rights movement, bringing crucial attention to issues such as gender inequality, encapsulated in the pay gap and the dearth of women in fields such as data science — issues that were highlighted at the much-referenced Beijing World Conference on Women in 1995.
But, 26 years later, not much has changed and researchers report that it could still take 163 years before gender equality is achieved.
WiDS Africa is part of the annual WiDS Worldwide conference organised by Stanford University, where about 150 events were hosted, featuring outstanding women doing outstanding work and which also aim to “encourage secondary school students to consider careers in data science, artificial intelligence, and related fields”.
I was tasked by Nicola Mulder, principal investigator at the Pan African Bioinformatics Network for H3Africa, to bring mainly women collaborators together for the local event.
According to the 2021 Women in Data Science report, women face myriad blockages in joining science, technology, engineering and mathematics fields, which include the absence of role models and mentors to encourage them to take these subjects and careers in these fields, as well as limited scholarships and finances to continue professional development.
In the WiDs Africa panel discussion on how the Covid-19 pandemic has affected their lives, Verena Ras, Chenai Chair, Rahab Wangari, Ruthbetha Kateule and Dominique Anderson echoed these views.
University of Cape Town vice-chancellor Mamokgethi Phakeng’s keynote speech addressed the relevance of women in data science.
I implore other men and feminist allies to give up their seat at the table, to stop being gatekeepers and actively create opportunities for women to join the science fraternity. We should all be feminists who dismantle patriarchal science through affirmative action, which, according to Ugandan author and lawyer Sylvia Tamale, “is a means of assuring substantive representation of a special group”, in this case women, and particularly black women.
We need to interrogate and highlight the limited representation of African women in data science (and other scientific fields) and resolve it soon before the rest of the world leaves us behind. Women’s views, nuanced experiences and knowledge are important additions to science to enrich and advance all humanity.
First Published in the Mail and Guardian: https://mg.co.za/opinion/2021-04-11-data-science-needs-input-from-women/
The Carpentries is a non-profit organisation that teaches foundational computational, coding, and data science skills to academics, students and academic support staff worldwide. Carpentries workshops have been running at South African public universities and research institutions to hundreds of learners since 2014, and almost 100 instructors have been trained to teach digital and computational concepts to novices.
The first South African CarpentryConnect took place in Johannesburg, South Africa in September 2018. The second will be held virtually and will bring together newer and more experienced community members to share knowledge, network, develop new skills, and develop strategies for building strong local communities around digital and computational literacy at universities. Workshop fees and mobile data for African participants are funded by Code for Science and Society Event Fund.
Please note: While the event is fully funded by the organisers you will be held liable for an R500 attendance fee should you fail to attend without cancelling more than 48 hours prior.
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Tools and Services
Communication