Publications by authors named "Scott Hazelhurst"

34Publications

A Digital Pathology Solution to Resolve the Tissue Floater Conundrum.

Arch Pathol Lab Med 2020 Jul 15. Epub 2020 Jul 15.

From the Department of Pathology, University of Pittsburgh Medical Center, Pittsburgh, Pennsylvania (Dr Pantanowitz); Department of Anatomical Pathology, University of the Witwatersrand and National Health Laboratory Services, Johannesburg, South Africa (Drs Pantanowitz and Michelow); School of Electrical & Information Engineering and Sydney Brenner Institute for Molecular Bioscience, University of the Witwatersrand, Johannesburg, South Africa (Dr Hazelhurst); Kimia Lab, University of Waterloo, Waterloo, ON, Canada (Drs Kalra, Babaie, and Tizhoosh); and Huron Digital Pathology, Engineering Department, St. Jacobs, ON, Canada (Drs Kalra, Choi, and Shah). Dr Pantanowitz is now with the Department of Pathology & Clinical Labs, University of Michigan, Ann Arbor.

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http://dx.doi.org/10.5858/arpa.2020-0034-OADOI Listing
July 2020

A systematic comparison of pharmacogene star allele calling bioinformatics algorithms: a focus on genotyping.

NPJ Genom Med 2020 3;5:30. Epub 2020 Aug 3.

Sydney Brenner Institute for Molecular Bioscience, University of the Witwatersrand, Johannesburg, South Africa.

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http://dx.doi.org/10.1038/s41525-020-0135-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7398905PMC
August 2020

Interaction of the spike protein RBD from SARS-CoV-2 with ACE2: Similarity with SARS-CoV, hot-spot analysis and effect of the receptor polymorphism.

Biochem Biophys Res Commun 2020 06 14;527(3):702-708. Epub 2020 May 14.

Sydney Brenner Institute for Molecular Bioscience, Faculty of Health Sciences, University of the Witwatersrand, Johannesburg, South Africa; School of Electrical and Information Engineering, University of the Witwatersrand, Johannesburg, South Africa.

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http://dx.doi.org/10.1016/j.bbrc.2020.05.028DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7221370PMC
June 2020

Correction to: Runs of homozygosity in sub-Saharan African populations provide insights into complex demographic histories.

Hum Genet 2019 Oct;138(10):1143-1144

Sydney Brenner Institute for Molecular Bioscience, Faculty of Health Sciences, University of the Witwatersrand, Johannesburg, South Africa.

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http://dx.doi.org/10.1007/s00439-019-02053-1DOI Listing
October 2019

Runs of homozygosity in sub-Saharan African populations provide insights into complex demographic histories.

Hum Genet 2019 Oct 16;138(10):1123-1142. Epub 2019 Jul 16.

Sydney Brenner Institute for Molecular Bioscience, Faculty of Health Sciences, University of the Witwatersrand, Johannesburg, South Africa.

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http://dx.doi.org/10.1007/s00439-019-02045-1DOI Listing
October 2019

Surveying Gut Microbiome Research in Africans: Toward Improved Diversity and Representation.

Trends Microbiol 2019 10 6;27(10):824-835. Epub 2019 Jun 6.

School of Medicine, Stanford University, Stanford, CA, USA; Department of Genetics, Stanford University, Stanford, CA, USA; Department of Medicine (Hematology), Stanford University, Stanford, CA, USA. Electronic address:

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http://dx.doi.org/10.1016/j.tim.2019.05.006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6764420PMC
October 2019

Genetic variants in SEC16B are associated with body composition in black South Africans.

Nutr Diabetes 2018 07 19;8(1):43. Epub 2018 Jul 19.

Division of Human Genetics, School of Pathology, Faculty of Health Sciences, National Health Laboratory Service & University of the Witwatersrand, Johannesburg, South Africa.

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http://dx.doi.org/10.1038/s41387-018-0050-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6053407PMC
July 2018

African genetic diversity provides novel insights into evolutionary history and local adaptations.

Hum Mol Genet 2018 08;27(R2):R209-R218

Sydney Brenner Institute for Molecular Bioscience, Faculty of Health Sciences, University of the Witwatersrand, Johannesburg, South Africa.

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https://academic.oup.com/hmg/article/27/R2/R209/4993963
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http://dx.doi.org/10.1093/hmg/ddy161DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6061870PMC
August 2018

Assessing runs of Homozygosity: a comparison of SNP Array and whole genome sequence low coverage data.

BMC Genomics 2018 01 30;19(1):106. Epub 2018 Jan 30.

Sydney Brenner Institute for Molecular Bioscience, Faculty of Health Sciences, University of the Witwatersrand, Johannesburg, South Africa.

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http://dx.doi.org/10.1186/s12864-018-4489-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5789638PMC
January 2018

Establishing an academic biobank in a resource-challenged environment.

S Afr Med J 2017 May 24;107(6):486-492. Epub 2017 May 24.

Sydney Brenner Institute for Molecular Bioscience, Faculty of Health Sciences, University of the Witwatersrand, Johannesburg, South Africa.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5954164PMC
http://dx.doi.org/10.7196/SAMJ.2017.v107i6.12099DOI Listing
May 2017

The Development of Computational Biology in South Africa: Successes Achieved and Lessons Learnt.

PLoS Comput Biol 2016 Feb 4;12(2):e1004395. Epub 2016 Feb 4.

South African National Bioinformatics Institute/Medical Research Council of South Africa Bioinformatics Unit, University of the Western Cape, Bellville, South Africa.

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http://dx.doi.org/10.1371/journal.pcbi.1004395DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4742231PMC
February 2016

Robust sequence alignment using evolutionary rates coupled with an amino acid substitution matrix.

BMC Bioinformatics 2015 Aug 14;16:255. Epub 2015 Aug 14.

Evolutionary Medicine Laboratory, Faculty of Health Sciences, University of the Witwatersrand, Johannesburg, South Africa.

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http://dx.doi.org/10.1186/s12859-015-0688-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4535666PMC
August 2015

EvoDB: a database of evolutionary rate profiles, associated protein domains and phylogenetic trees for PFAM-A.

Database (Oxford) 2015 2;2015:bav065. Epub 2015 Jul 2.

Sydney Brenner Institute of Molecular Bioscience, The Mount, 9 Jubilee Road, Parktown 2193, Johannesburg, South Africa, School of Electrical and Information Engineering, University of the Witwatersrand, The Mount, 9 Jubilee Road, Parktown 2193, Johannesburg, South Africa.

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http://dx.doi.org/10.1093/database/bav065DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4492416PMC
March 2016

SpeeDB: fast structural protein searches.

Bioinformatics 2015 Sep 15;31(18):3027-34. Epub 2015 May 15.

School of Computer Science, Carleton University, Ottawa, Ontario, Canada, Sydney Brenner Institute for Molecular Bioscience and School of Electrical and Information Engineering, University of the Witwatersrand, Johannesburg, South Africa.

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http://dx.doi.org/10.1093/bioinformatics/btv274DOI Listing
September 2015

Immunochip identifies novel, and replicates known, genetic risk loci for rheumatoid arthritis in black South Africans.

Mol Med 2014 Aug 14;20:341-9. Epub 2014 Aug 14.

Division of Rheumatology, Faculty of Health Sciences, University of the Witwatersrand, Johannesburg, South Africa Sydney Brenner Institute for Molecular Bioscience, University of the Witwatersrand, Johannesburg, South Africa.

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http://dx.doi.org/10.2119/molmed.2014.00097DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4153842PMC
August 2014

Research capacity. Enabling the genomic revolution in Africa.

Authors:
Charles Rotimi Akin Abayomi Alash'le Abimiku Victoria May Adabayeri Clement Adebamowo Ezekiel Adebiyi Adebowale D Ademola Adebowale Adeyemo Dwomoa Adu Dissou Affolabi Godfred Agongo Samuel Ajayi Sally Akarolo-Anthony Rufus Akinyemi Albert Akpalu Marianne Alberts Orlando Alonso Betancourt Ahmed Mansour Alzohairy Gobena Ameni Olukemi Amodu Gabriel Anabwani Kristian Andersen Fatiu Arogundade Oyedunni Arulogun Danny Asogun Rasheed Bakare Naby Balde Mary Lynn Baniecki Christine Beiswanger Alia Benkahla Lara Bethke Micheal Boehnke Vincent Boima James Brandful Andrew I Brooks Frank C Brosius Chester Brown Bruno Bucheton David T Burke Barrington G Burnett Stacy Carrington-Lawrence Nadia Carstens John Chisi Alan Christoffels Richard Cooper Heather Cordell Nigel Crowther Talishiea Croxton Jantina de Vries Leslie Derr Peter Donkor Seydou Doumbia Audrey Duncanson Ivy Ekem Ahmed El Sayed Mark E Engel John C K Enyaru Dean Everett Faisal M Fadlelmola Eyitayo Fakunle Kenneth H Fischbeck Anne Fischer Onikepe Folarin Junaid Gamieldien Robert F Garry Simani Gaseitsiwe Rasheed Gbadegesin Anita Ghansah Maria Giovanni Parham Goesbeck F Xavier Gomez-Olive Donald S Grant Ravnit Grewal Mark Guyer Neil A Hanchard Christian T Happi Scott Hazelhurst Branwen J Hennig Christiane Hertz- Fowler Winston Hide Friedhelm Hilderbrandt Christopher Hugo-Hamman Muntaser E Ibrahim Regina James Yasmina Jaufeerally-Fakim Carolyn Jenkins Ute Jentsch Pan-Pan Jiang Moses Joloba Victor Jongeneel Fourie Joubert Mukthar Kader Kathleen Kahn Pontiano Kaleebu Saidi H Kapiga Samar Kamal Kassim Ishmael Kasvosve Jonathan Kayondo Bernard Keavney Adeodata Kekitiinwa Sheik Humarr Khan Paul Kimmel Mary-Claire King Robert Kleta Mathurin Koffi Jeffrey Kopp Matthias Kretzler Judit Kumuthini Samuel Kyobe Catherine Kyobutungi Daniel T Lackland Karen A Lacourciere Guida Landouré Rita Lawlor Thomas Lehner Maia Lesosky Naomi Levitt Katherine Littler Zane Lombard Jeanne F Loring Sylvester Lyantagaye Annette Macleod Ebony B Madden Chengetai R Mahomva Julie Makani Manmak Mamven Marape Marape Graeme Mardon Patricia Marshall Darren P Martin Daniel Masiga Robin Mason Michael Mate-Kole Enock Matovu Mary Mayige Bongani M Mayosi Jean Claude Mbanya Sheryl A McCurdy Mark I McCarthy Helen McIlleron S O Mc'Ligeyo Corrine Merle Ana Olga Mocumbi Charles Mondo John V Moran Ayesha Motala Marva Moxey-Mims Wata Sununguko Mpoloka Chisomo L Msefula Thuli Mthiyane Nicola Mulder Gebregziab her Mulugeta Dieuodonne Mumba John Musuku Mo Nagdee Oyekanmi Nash Daouda Ndiaye Anh Quynh Nguyen Mark Nicol Oathokwa Nkomazana Shane Norris Betty Nsangi Alexander Nyarko Moffat Nyirenda Eileen Obe Reginald Obiakor Abraham Oduro Solomon F Ofori-Acquah Okechukwu Ogah Stephen Ogendo Kwaku Ohene-Frempong Akinlolu Ojo Timothy Olanrewaju John Oli Charlotte Osafo Odile Ouwe Missi Oukem-Boyer Bruce Ovbiagele Andrew Owen Mayowa Ojo Owolabi Lukman Owolabi Ellis Owusu-Dabo Guillaume Pare Rulan Parekh Hugh G Patterton Margaret B Penno Jane Peterson Rembert Pieper Jacob Plange-Rhule Martin Pollak Julia Puzak Rajkumar S Ramesar Michele Ramsay Rebekah Rasooly Shiksha Reddy Pardis C Sabeti Kwamena Sagoe Tunde Salako Oumar Samassékou Manjinder S Sandhu Osman Sankoh Fred Stephen Sarfo Marie Sarr Gasnat Shaboodien Issa Sidibe Gustave Simo Martin Simuunza Liam Smeeth Eugene Sobngwi Himla Soodyall Hermann Sorgho Oumou Sow Bah Sudha Srinivasan Dan J Stein Ezra S Susser Carmen Swanepoel Godfred Tangwa Andrew Tareila Ozlem Tastan Bishop Bamidele Tayo Nicki Tiffin Halidou Tinto Ekaete Tobin Stephen Meir Tollman Mahamadou Traoré Marsha J Treadwell Jennifer Troyer Masego Tsimako-Johnstone Vincent Tukei Ifeoma Ulasi Nzovu Ulenga Beverley van Rooyen Ablo Prudence Wachinou Salina P Waddy Alisha Wade Misaki Wayengera James Whitworth Louise Wideroff Cheryl A Winkler Sarah Winnicki Ambroise Wonkam Mengistu Yewondwos Tadase sen Nathan Yozwiak Heather Zar

Science 2014 Jun;344(6190):1346-8

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http://dx.doi.org/10.1126/science.1251546DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4138491PMC
June 2014

Genetic diversity in black South Africans from Soweto.

BMC Genomics 2013 Sep 23;14:644. Epub 2013 Sep 23.

Division of Human Genetics, School of Pathology, University of the Witwatersrand, Faculty of Health Sciences, Johannesburg, South Africa.

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http://dx.doi.org/10.1186/1471-2164-14-644DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3850641PMC
September 2013

KABOOM! A new suffix array based algorithm for clustering expression data.

Bioinformatics 2011 Dec 8;27(24):3348-55. Epub 2011 Oct 8.

Wits Bioinformatics, School of Electrical and Information Engineering, University of the Witwatersrand, Johannesburg, Private Bag 3, 2050 Wits, South Africa.

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http://dx.doi.org/10.1093/bioinformatics/btr560DOI Listing
December 2011

Evolutionary rates at codon sites may be used to align sequences and infer protein domain function.

BMC Bioinformatics 2010 Mar 24;11:151. Epub 2010 Mar 24.

Evolutionary Medicine Unit, University of the Witwatersrand and National Health Laboratory Service, Johannesburg, South Africa.

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http://dx.doi.org/10.1186/1471-2105-11-151DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2851608PMC
March 2010

An overview of the wcd EST clustering tool.

Bioinformatics 2008 Jul 14;24(13):1542-6. Epub 2008 May 14.

Wits Bioinformatics, University of the Witwatersrand, Johannesburg, Private Bag 3, 2050 Wits, South Africa.

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http://dx.doi.org/10.1093/bioinformatics/btn203DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2718666PMC
July 2008