Evidence map›Paper›PMID 28570565›Full record

ArticlePLoS computational biology2017

Assessing computational genomics skills: Our experience in the H3ABioNet African bioinformatics network.

C Victor Jongeneel, Ovokeraye Achinike-Oduaran, Ezekiel Adebiyi, Marion Adebiyi, Seun Adeyemi, Bola Akanle, Shaun Aron, Efejiro Ashano, Hocine Bendou, Gerrit Botha and 30 more

Abstract read
In one paragraph

Article in PLoS computational biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.

0numbers the graph read from it
0cells of the map it votes in
9citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

9 citing papers in PubMed.

  1. Article
  2. Article
  3. Bioinformatics proficiency among African students.Frontiers in bioinformatics · 2024
    Article
  4. Advances in integrative African genomics.Trends in genetics : TIG · 2022
    Review
  5. Article
  6. Article
  7. Article
  8. DissectingFrontiers in genetics · 2019
    Article
  9. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

40 authors.

C Victor JongeneelHigh-Performance Biological Computing, Roy J. Carver Biotechnology Center, University of Illinois at Urbana-Champaign, Urbana, Illinois, United States of America.ORCID http://orcid.org/0000-0002-3922-1906
Ovokeraye Achinike-OduaranSydney Brenner Institute for Molecular Bioscience, University of the Witwatersrand, Johannesburg, South Africa.
Ezekiel AdebiyiDepartment of Computer and Information Sciences, Covenant University, Ota, Nigeria.
Marion AdebiyiDepartment of Computer and Information Sciences, Covenant University, Ota, Nigeria.
Seun AdeyemiCovenant University Bioinformatics Research (CUBRe), Covenant University, Ota, Nigeria.
Bola AkanleCovenant University Bioinformatics Research (CUBRe), Covenant University, Ota, Nigeria.
Shaun AronSydney Brenner Institute for Molecular Bioscience, University of the Witwatersrand, Johannesburg, South Africa.
Efejiro AshanoCovenant University Bioinformatics Research (CUBRe), Covenant University, Ota, Nigeria.
Hocine BendouComputational Biology Division, Department of Integrative Biomedical Sciences, Institute of Infectious Disease and Molecular Medicine, University of Cape Town, South Africa.ORCID http://orcid.org/0000-0001-5371-6107
Gerrit BothaComputational Biology Division, Department of Integrative Biomedical Sciences, Institute of Infectious Disease and Molecular Medicine, University of Cape Town, South Africa.
Emile ChimusaComputational Biology Division, Department of Integrative Biomedical Sciences, Institute of Infectious Disease and Molecular Medicine, University of Cape Town, South Africa.ORCID http://orcid.org/0000-0001-8846-2047
Ananyo ChoudhurySydney Brenner Institute for Molecular Bioscience, University of the Witwatersrand, Johannesburg, South Africa.
Ravikiran DonthuHigh-Performance Biological Computing, Roy J. Carver Biotechnology Center, University of Illinois at Urbana-Champaign, Urbana, Illinois, United States of America.
Jenny DrnevichHigh-Performance Biological Computing, Roy J. Carver Biotechnology Center, University of Illinois at Urbana-Champaign, Urbana, Illinois, United States of America.ORCID http://orcid.org/0000-0002-1401-8311
Oluwadamila FalolaCovenant University Bioinformatics Research (CUBRe), Covenant University, Ota, Nigeria.ORCID http://orcid.org/0000-0003-4448-7829
Christopher J FieldsHigh-Performance Biological Computing, Roy J. Carver Biotechnology Center, University of Illinois at Urbana-Champaign, Urbana, Illinois, United States of America.ORCID http://orcid.org/0000-0002-7749-5844
Scott HazelhurstSydney Brenner Institute for Molecular Bioscience, University of the Witwatersrand, Johannesburg, South Africa.ORCID http://orcid.org/0000-0002-0581-149X
Liesl HendrySydney Brenner Institute for Molecular Bioscience, University of the Witwatersrand, Johannesburg, South Africa.ORCID http://orcid.org/0000-0002-0538-2023
Itunuoluwa IsewonDepartment of Computer and Information Sciences, Covenant University, Ota, Nigeria.ORCID http://orcid.org/0000-0001-9653-8929
Radhika S KhetaniHigh-Performance Biological Computing, Roy J. Carver Biotechnology Center, University of Illinois at Urbana-Champaign, Urbana, Illinois, United States of America.
Judit KumuthiniCentre for Proteomic and Genomic Research, Cape Town, South Africa.
Magambo Phillip KimudaResearch Unit in Bioinformatics (RUBi), Department of Biochemistry and Microbiology, Rhodes University, Grahamstown, South Africa.ORCID http://orcid.org/0000-0003-3911-8359
Lerato MagosiBotswana Harvard AIDS Institute Partnership, Gaborone, Botswana.
Liudmila Sergeevna MainzerHigh-Performance Biological Computing, Roy J. Carver Biotechnology Center, University of Illinois at Urbana-Champaign, Urbana, Illinois, United States of America.ORCID http://orcid.org/0000-0001-7121-0214
Suresh MaslamoneyComputational Biology Division, Department of Integrative Biomedical Sciences, Institute of Infectious Disease and Molecular Medicine, University of Cape Town, South Africa.ORCID http://orcid.org/0000-0002-3118-8945
Mamana MbiyavangaComputational Biology Division, Department of Integrative Biomedical Sciences, Institute of Infectious Disease and Molecular Medicine, University of Cape Town, South Africa.
Ayton MeintjesComputational Biology Division, Department of Integrative Biomedical Sciences, Institute of Infectious Disease and Molecular Medicine, University of Cape Town, South Africa.ORCID http://orcid.org/0000-0001-5076-2941
Danny MugutsoComputational Biology Division, Department of Integrative Biomedical Sciences, Institute of Infectious Disease and Molecular Medicine, University of Cape Town, South Africa.
Phelelani MpangaseSydney Brenner Institute for Molecular Bioscience, University of the Witwatersrand, Johannesburg, South Africa.
Richard MunthaliSydney Brenner Institute for Molecular Bioscience, University of the Witwatersrand, Johannesburg, South Africa.ORCID http://orcid.org/0000-0001-8492-7409
Victoria NembawareComputational Biology Division, Department of Integrative Biomedical Sciences, Institute of Infectious Disease and Molecular Medicine, University of Cape Town, South Africa.
Andrew NdhlovuSydney Brenner Institute for Molecular Bioscience, University of the Witwatersrand, Johannesburg, South Africa.
Trust OdiaCovenant University Bioinformatics Research (CUBRe), Covenant University, Ota, Nigeria.ORCID http://orcid.org/0000-0002-0113-0902
Adaobi OkaforCovenant University Bioinformatics Research (CUBRe), Covenant University, Ota, Nigeria.
Olaleye OladipoCovenant University Bioinformatics Research (CUBRe), Covenant University, Ota, Nigeria.
Sumir PanjiComputational Biology Division, Department of Integrative Biomedical Sciences, Institute of Infectious Disease and Molecular Medicine, University of Cape Town, South Africa.
Venesa PillaySydney Brenner Institute for Molecular Bioscience, University of the Witwatersrand, Johannesburg, South Africa.ORCID http://orcid.org/0000-0003-4843-0002
Gloria RendonHigh-Performance Biological Computing, Roy J. Carver Biotechnology Center, University of Illinois at Urbana-Champaign, Urbana, Illinois, United States of America.
Dhriti SenguptaSydney Brenner Institute for Molecular Bioscience, University of the Witwatersrand, Johannesburg, South Africa.
Nicola MulderComputational Biology Division, Department of Integrative Biomedical Sciences, Institute of Infectious Disease and Molecular Medicine, University of Cape Town, South Africa.ORCID http://orcid.org/0000-0003-4905-0941

Funding

Shared Core: Biobanking, Bioinformatics and Data ManagementU54HG006938 · NHGRI · WITS HEALTH CONSORTIUM (PTY), LTD · PI RAMSAY, MICHELE MICHELE · 2012 to 2022
$12.2M
Wits Non-communicable Disease Research Leadership ProgramD43TW008330 · FIC · WITS HEALTH CONSORTIUM (PTY), LTD · PI CROWTHER, NIGEL JOHN, KLIPSTEIN-GROBUSCH, KERSTIN · 2010 to 2014
$985k
FIC NIH HHS D43 TW008330NHGRI NIH HHS U54 HG006938
6 · The paper itself

Abstract

The H3ABioNet pan-African bioinformatics network, which is funded to support the Human Heredity and Health in Africa (H3Africa) program, has developed node-assessment exercises to gauge the ability of its participating research and service groups to analyze typical genome-wide datasets being generated by H3Africa research groups. We describe a framework for the assessment of computational genomics analysis skills, which includes standard operating procedures, training and test datasets, and a process for administering the exercise. We present the experiences of 3 research groups that have taken the exercise and the impact on their ability to manage complex projects. Finally, we discuss the reasons why many H3ABioNet nodes have declined so far to participate and potential strategies to encourage them to do so.

Indexed as

Databases, GeneticBlack PeopleDatabase Management SystemsDeveloping CountriesGenomicsHumansNigeriaSouth Africa

Identifiers

PMID28570565
PMCPMC5453403

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.