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Diallo, Bakary N, Swart, Tarryn, Hoppe, Heinrich C, Tastan Bishop, Özlem, Lobb, Kevin A. Potential repurposing of four FDA approved compounds with antiplasmodial activity identified through proteome scale computational drug discovery and in vitro assay. 2021.
Khairallah, Afrah, Tastan Bishop, Özlem, Moses, Vuyani. AMBER force field parameters for the Zn (II) ions of the tunneling-fold enzymes GTP cyclohydrolase I and 6-pyruvoyl tetrahydropterin synthase:. 2020.
Penkler, David L, Atilgan, Canan, Tastan Bishop, Özlem. Allosteric Modulation of Human Hsp90α Conformational Dynamics:. 2018.
Nyamai, Dorothy Wavinya, Tastan Bishop, Özlem. Aminoacyl tRNA synthetases as malarial drug targets: a comparative bioinformatics study. 2018.
Brown, David K, Tastan Bishop, Özlem. HUMA: A platform for the analysis of genetic variation in humans. 2018.
Kimuda, Magambo Phillip, Laming, Dustin, Hoppe, Heinrich C, Tastan Bishop, Özlem. Identification of Novel Potential Inhibitors of Pteridine Reductase 1 in Trypanosoma brucei via Computational Structure-Based Approaches and in Vitro Inhibition Assays. 2019.
Musyoka, Thommas M, Njuguna, Joyce N, Tastan Bishop, Özlem. Comparing sequence and structure of falcipains and human homologs at prodomain and catalytic active site for malarial peptide-based inhibitor design:. 2018.
Rafael, Candice Nancy, Ambler, Jon, Niehaus, Antoinette, Ross, James, Tastan Bishop, Özlem. Establishment of “The South African Bioinformatics Student Council” and activity highlights:. 2018.
Diallo, Bakary N, Lobb, Kevin A, Tastan Bishop, Özlem. In silico study of Plasmodium 1-deoxy-d-xylulose 5-phosphate reductoisomerase (DXR) for identification of novel inhibitors from SANCDB:. 2019.
Amusengeri, Arnold, Astl, Lindy, Lobb, Kevin A, Verkhivker, Gennady M, Tastan Bishop, Özlem. Establishing computational approaches towards identifying malarial allosteric modulators: a case study of plasmodium falciparum hsp70s. 2019.
Sanyanga, Taremekedzwa A, Nizami, Bilal, Tastan Bishop, Özlem. Mechanism of action of non-synonymous single nucleotide variations associated with α-carbonic anhydrase II deficiency:. 2019.
Ksouri, Ayoub, Ghedira, Kais, Abderrazek, Rahma Ben, Shankar, B A Gowri, Benkahla, Alia, Tastan Bishop, Özlem, Bouhaouala-Zahar, Balkis. Homology modeling and docking of AahII-Nanobody complexes reveal the epitope binding site on AahII scorpion toxin. 2018.
Tastan Bishop, Özlem. Academic Press; 2018. Hepatitis C and HIV Coinfection in Developing Countries:.
Diallo, Bakary N, Lobb, Kevin A, Tastan Bishop, Özlem. Novel potential antimalarials through drug repurposing and multitargeting: a Computational Approach. 2019.
Musyoka, Thommas M, Tastan Bishop, Özlem. South African Abietane Diterpenoids and their analogs as potential antimalarials: novel insights from hybrid computational approaches. 2019.
Amusengeri, Arnold, Tata, Rolland B, Tastan Bishop, Özlem. Understanding the Pyrimethamine drug resistance mechanism via combined molecular dynamics and dynamic residue network analysis:. 2020.
Khairallah, Afrah, Ross, Caroline J, Tastan Bishop, Özlem. Probing the structural dynamics of the Plasmodium falciparum tunneling-fold enzyme 6-pyruvoyl tetrahydropterin synthase to reveal allosteric drug targeting sites:. 2020.
Upfold, Nicole, Ross, Caroline J, Tastan Bishop, Özlem, Knox, Caroline M. The In Silico Prediction of hotspot residues that contribute to the structural stability of subunit interfaces of a Picornavirus Capsid:. 2020.
Sanyanga, Taremekedzwa Allan, Tastan Bishop, Özlem. Structural Characterization of Carbonic Anhydrase VIII and Effects of Missense Single Nucleotide Variations to Protein Structure and Function:. 2020.
Musyoka, Thommas M, Njuguna, Joyce N, Tastan Bishop, Özlem. Comparing sequence and structure of falcipains and human homologs at prodomain and catalytic active site for malarial peptide based inhibitor design:. 2019.
Amusengeri, Arnold, Tastan Bishop, Özlem. Discorhabdin N, a South African Natural Compound, for Hsp72 and Hsc70 Allosteric Modulation: combined study of molecular modeling and dynamic residue network analysis. 2019.
Noundou, Xavier S, Musyoka, Thommas M, Moses, Vuyani, Ndinteh, Derek T, Mnkandhla, Dumisani, Hoppe, Heinrich C, Tastan Bishop, Özlem, Krause, Rui W M. Anti-HIV-1 integrase potency of methylgallate from Alchornea cordifolia using in vitro and in silico approaches:. 2019.
Penkler, David L, Atilgan, Canan, Tastan Bishop, Özlem. Allosteric modulation of conformational dynamics in human Hsp90α: a computational study. 2017.
Upfold, Nicole, Ross, Caroline J, Tastan Bishop, Özlem, Luke, Garry A, Knox, Caroline M. The generation and characterisation of neutralising antibodies against the Theiler’s murine encephalomyelitis virus (TMEV) GDVII capsid reveals the potential binding site of the host cell co-receptor, heparan sulfate:. 2018.
Penkler, David L, Tastan Bishop, Özlem. Modulation of human Hsp90α conformational dynamics by allosteric ligand interaction at the c-terminal domain:. 2018.
Brown, David K, Tastan Bishop, Özlem. Role of structural bioinformatics in drug discovery by computational SNP analysis: analyzing variation at the protein level. 2017.
Penkler, David L, Sensoy, Özge, Atilgan, Canan, Tastan Bishop, Özlem. Perturbation–Response Scanning reveals key residues for Allosteric Control in Hsp70:. 2017.
Ross, Caroline J, Knox, Caroline M, Tastan Bishop, Özlem. Interacting motif networks located in hotspots associated with RNA release are conserved in Enterovirus capsids. 2017.
Kimuda, Magambo P, Noyes, Harry, Mulindwa, Julius, Enyaru, John, Alibu, Vincent P, Sidibe, Issa, Mumba Ngoyi, Dieuodonne, Hertz-Fowler, Christiane, MacLeod, Annette, Tastan Bishop, Özlem, Matovu, Enock. No evidence for association between APOL1 kidney disease risk alleles and Human African Trypanosomiasis in two Ugandan populations:. 2018.
Kimuda, Magambo Phillip, Noyes, Harry, Mulindwa, Julius, Enyaru, John, Alibu, Vincent Pius, Sidibe, Issa, Mumba, Dieuodonne, Hertz-Fowler, Christiane, MacLeod, Annette, Tastan Bishop, Özlem, Matovu, Enock. No evidence for association with APOL1 kidney disease risk alleles and Human African Trypanosomiasis in two Ugandan populations:. 2017.
Ross, Caroline J, Atilgan, Ali R, Tastan Bishop, Özlem, Atilgan, Canan. Unraveling the Motions behind Enterovirus 71 Uncoating:. 2018.
Hatherley, Rowan, Brown, David K, Glenister, Michael, Tastan Bishop, Özlem. PRIMO: an interactive homology modeling pipeline. 2017.
Mulder, Nicola J, Adebiyi, Ezekiel, Adebiyi, Marion, Adeyemi, Seun, Ahmed, Azza, Ahmed, Rehab, Akanle, Bola, Alibi, Mohamed, Armstrong, Don L, Aron, Shaun, Ashano, Efejiro, Baichoo, Shakuntala, Benkahla, Alia, Brown, David K, Chimusa, Emile Rugamika, Fadlelmola, Faisal M, Falola, Dare, Fatumo, Segun, Ghedira, Kais, Ghouila, Amel, Hazelhurst, Scott, Itunuoluwa Isewon, Segun Jung, Kassim, Samar Kamal, Kayondo, Jonathan K, Mbiyavanga, Mamana, Meintjes, Ayton, Mohammed, Somia, Mosaku, Abayomi, Moussa, Ahmed, Muhammd, Mustafa, Mungloo-Dilmohamud, Zahra, Nashiru, Oyekanmi, Odia, Trust, Okafor, Adaobi, Oladipo, Olaleye, Osamor, Victor, Oyelade, Jellili, Sadki, Khalid, Salifu, Samson Pandam, Soyemi, Jumoke, Panji, Sumir, Radouani, Fouzia, Souiai, Oussama, Tastan Bishop, Özlem. Development of Bioinformatics Infrastructure for Genomics Research:. 2017.
Moses, Vuyani, Tastan Bishop, Özlem, Lobb, Kevin A. The evaluation and validation of copper (II) force field parameters of the Auxiliary Activity family 9 enzymes:. 2017.
Hatherley, Rowan, Brown, David K, Musyoka, Thommas M, Penkler, David L, Faya, Ngonidzashe, Lobb, Kevin A, Tastan Bishop, Özlem. SANCDB: a South African natural compound database. 2015.
Tastan Bishop, Özlem, Kroon, Matthys. Study of protein complexes via homology modeling, applied to cysteine proteases and their protein inhibitors:. 2011.
Machanick, Philip, Tastan Bishop, Özlem. How to establish a bioinformatics postgraduate degree programme—a case study from South Africa. 2014.
Tastan Bishop, Özlem, Edkins, Adrienne L, Blatch, Gregory L. Sequence and domain conservation of the coelacanth Hsp40 and Hsp90 chaperones suggests conservation of function. 2014.
Yssel, Anna, Reva, Oleg, Tastan Bishop, Özlem. Comparative structural bioinformatics analysis of Bacillus amyloliquefaciens chemotaxis proteins within Bacillus subtilis group. 2011.
Kumwenda, Benjamin, Litthauer, Derek, Tastan Bishop, Özlem, Reva, Oleg. Analysis of protein thermostability enhancing factors in industrially important thermus bacteria species. 2013.
Mulder, Nicola J, Christoffels, Alan, De Oliveira, Tulio, Gamieldien, Junaid, Hazelhurst, Scott, Joubert, Fourie, Kumuthini, Judit, Pillay, Ché S, Snoep, Jacky L, Tastan Bishop, Özlem, Tiffin, Nicki. The development of computational biology in South Africa: successes achieved and lessons learnt. 2016.
Moses, Vuyani, Hatherley, Rowan, Tastan Bishop, Özlem. Bioinformatic characterization of type-specific sequence and structural features in auxiliary activity family 9 proteins:. 2016.
Brown, David K, Musyoka, Thommas M, Penkler, David L, Tastan Bishop, Özlem. JMS: a workflow management system and web-based cluster front-end for the Torque resource manager. 2015.
Faya, Ngonidzashe, Penkler, David L, Tastan Bishop, Özlem. Human, vector and parasite Hsp90 proteins: a comparative bioinformatics analysis. 2015.
Brown, David K, Tastan Bishop, Özlem. The role of structural bioinformatics in drug discovery via computational SNP analysis–a proposed protocol for analyzing variation at the protein level:. 2017.
Musyoka, Thommas M, Kanzi, Aquillah M, Lobb, Kevin A, Tastan Bishop, Özlem. Structure based docking and molecular dynamic studies of plasmodial cysteine proteases against a South African natural compound and its analogs:. 2016.
Cornick, Jennifer E, Tastan Bishop, Özlem, Yalcin, Feyruz, Kiran, Anmol M, Kumwenda, Benjamin, Chaguza, Chrispin, Govindpershad, Shanil, Ousmane, Sani, Senghore, Madikay, du Plessis, Mignon, Pluschke, Gerd, 1952-, Ebruke, Chinelo, McGee, Lesley, Sigaùque , Beutel, Collard, Jean-Marc, Bentley, Stephen D, Kadioglu , Aras, Antonio, Martin, von Gottberg, Anne, French, Neil, Klugman, Keith P, Heyderman, Robert S, Alderson, Mark, Everett, Dean B. The global distribution and diversity of protein vaccine candidate antigens in the highly virulent Streptococcus pnuemoniae serotype:. 2017.
Hatherley, Rowan, Clitheroe, Crystal-Leigh, Faya, Ngonidzashe, Tastan Bishop, Özlem. Plasmodium falciparum Hop: detailed analysis on complex formation with Hsp70 and Hsp90. 2015.
Brown, David K, Penkler, David L, Musyoka, Thommas M, Tastan Bishop, Özlem. JMS: an open source workflow management system and web-based cluster front-end for high performance computing. 2015.
Musyoka, Thommas M, Kanzi, Aquillah M, Lobb, Kevin A, Tastan Bishop, Özlem. Analysis of non-peptidic compounds as potential malarial inhibitors against plasmodial cysteine proteases via integrated virtual screening workflow. 2016.
Tastan Bishop, Özlem. Caister Academic Press; 2014. Bioinformatics and data analysis in microbiology:.
Ross, Caroline J, Upfold, Nicole, Luke, Garry A, Tastan Bishop, Özlem, Knox, Caroline M. Subcellular localisation of Theiler's murine encephalomyelitis virus (TMEV) capsid subunit VP1 vis-á-vis host protein Hsp90:. 2016.
Tastan Bishop, Özlem, Adebiyi, Ezekiel F, Alzohairy, Ahmed M, Everett, Dean B, Ghedira, Kais, Ghouila, Amel, Kumuthini, Judit, Mulder, Nicola J, Panji, Sumir, Patterton, Hugh-G. Bioinformatics education—perspectives and challenges out of Africa. 2014.
Boateng, Rita A, Tastan Bishop, Özlem, Musyoka, Thommas M. Springer Nature; 2020. Characterisation of plasmodial transketolases and identification of potential inhibitors: an in silico study.
Musyoka, Thommas M, Tastan Bishop, Özlem, Lobb, Kevin A, Moses, Vuyani. The determination of CHARMM force field parameters for the Mg2+ containing HIV-1 integrase:. 2018.
Musyoka, Thommas M, Tastan Bishop, Özlem. Allosteric site modulators: a case study for falcipains as malarial drug targets. 2019.
Mautsa, Nicodemus, Prinsloo, Earl, Tastan Bishop, Özlem, Blatch, Gregory L. The PINIT domain of PIAS3: structure-function analysis of its interaction with STAT3. 2011.
Hatherley, Rowan, Blatch, Gregory L, Tastan Bishop, Özlem. Plasmodium falciparum Hsp70-x : a heat shock protein at the host-parasite interface. 2013.
Sheik Amamuddy, Olivier, Musyoka, Thommas M, Boateng, Rita A, Zabo, Sophakama, Tastan Bishop, Özlem. Determining the unbinding events and conserved motions associated with the pyrazinamide release due to resistance mutations of Mycobacterium tuberculosis pyrazinamidase:. 2020.
Sheik Amamuddy, Olivier, Verkhivker, Gennady M, Tastan Bishop, Özlem. Impact of early pandemic stage mutations on molecular dynamics of SARS-CoV-2 Mpro:. 2020.
Sheik Amamuddy, Olivier, Bishop, Nigel T, Tastan Bishop, Özlem. Improving fold resistance prediction of HIV-1 against protease and reverse transcriptase inhibitors using artificial neural networks:. 2017.
Sheik Amamuddy, Olivier, Verkhivker, Gennady M, Tastan Bishop, Özlem. Impact of emerging mutations on the dynamic properties the SARS-CoV-2 main protease: an in silico investigation. 2020.
Brown, David K, Sheik Amamuddy, Olivier, Tastan Bishop, Özlem. Structure-based analysis of single nucleotide variants in the renin-angiotensinogen complex:. 2017.
Sheik Amamuddy, Olivier, Bishop, Nigel T, Tastan Bishop, Özlem. Characterizing early drug resistance-related events using geometric ensembles from HIV protease dynamics:. 2018.
Brown, David K, Penkler, David L, Sheik Amamuddy, Olivier, Ross, Caroline J, Atilgan, Ali R, Atilgan, Canan, Tastan Bishop, Özlem. MD-TASK: a software suite for analyzing molecular dynamics trajectories. 2017.
Sheik Amamuddy, Olivier, Veldman, Wade, Manyumwa, Colleen, Khairallah, Afrah, Agajanian, Steve, Oluyemi, Odeyemi, Verkhivker, Gennady M, Tastan Bishop, Özlem. Integrated computational approaches and tools for allosteric drug discovery:. 2020.
Ross, Caroline J, Nizami, B, Glenister, Michael, Sheik Amamuddy, Olivier, Atilgan, Ali R, Atilgan, Canan, Tastan Bishop, Özlem. MODE-TASK: Large-scale protein motion tools. 2018.
Kimuda, Phillip M, Brown, David K, Sheik Amamuddy, Olivier, Ross, Caroline J, Matovu, Enock, Tastan Bishop, Özlem. Computational analysis of missense mutations from the human Macrophage Migration Inhibitory Factor (MIF) protein by Molecular Dynamics Simulations and Dynamic Residue Network Analysis:. 2019.
Olotu, Fisayo, Tchatat Tali, Mariscal Brice, Chepsiror, Curtis, Sheik Amamuddy, Olivier, Boyom,Fabrice Fekam, Tastan Bishop, Özlem. Repurposing DrugBank compounds as potential Plasmodium falciparum class 1a aminoacyl tRNA synthetase multi-stage pan-inhibitors with a specific focus on mitomycin. 2024.
Laajala, Mira, Kalander, Kerttu, Consalvi, Sara, Sheik Amamuddy, Olivier, Tastan Bishop, Özlem, Biava, Mariangela, Poce, Giovanna, Marjomäki, Varpu. Antiviral Mechanisms of N-Phenyl Benzamides on Coxsackie Virus A9. 2023.
Barozi, Victor, Musyoka, Thommas M, Sheik Amamuddy, Olivier, Tastan Bishop, Özlem. Deciphering Isoniazid Drug Resistance Mechanisms on Dimeric Mycobacterium tuberculosis KatG via Post-molecular Dynamics Analyses Including Combined Dynamic Residue Network Metrics. 2022.
Khairallah, Afrah, Tastan Bishop, Özlem, Moses, Vuyani. Taylor and Francis; 2020. AMBER force field parameters for the Zn (II) ions of the tunneling-fold enzymes GTP cyclohydrolase I and 6-pyruvoyl tetrahydropterin synthase.
Subramaniyam, Selvaraj, Yang, Shuyou, Diallo, Bakary N, Fanshu, Xu, Lei, Luo, Li, Chong, Tastan Bishop, Özlem, Bhattacharyya, Sanjib. Nature Research; 2020. Oral Phytothymol ameliorates the stress induced IBS symptoms.
Tata, Rolland B, Alsulami, Ali F, Sheik Amamuddy, Olivier, Blundell, Tom L, Tastan Bishop, Özlem. Slipknot or Crystallographic Error: A Computational Analysis of the Plasmodium falciparum DHFR Structural Folds. 2022.
Okeke, Chiamaka J, Musyoka, Thommas M, Sheik Amamuddy, Olivier, Barozi, Victor, Tastan Bishop, Özlem. Elsevier; 2021. Allosteric pockets and dynamic residue network hubs of falcipain 2 in mutations including those linked to artemisinin resistance.
Sheik Amamuddy, Olivier, Glenister, Michael, Tshabalala, Thulani, Tastan Bishop, Özlem. Elsevier; 2021. MDM-TASK-web: MD-TASK and MODE-TASK web server for analyzing protein dynamics.
Reshamwala, Dhanik, Sheik Amamuddy, Olivier, Laquintana, Valentino, Denora, Nunzio, Zacheo, Antonella, Lampinen, Vili, Hytonen, Vesa P, Tastan Bishop, Özlem, Krol, Silke, Marjomäki, Varpu. MDPI; 2021. Polyphenols Epigallocatechin Gallate and Resveratrol, and Polyphenol-Functionalized Nanoparticles Prevent Enterovirus Infection through Clustering and Stabilization of the Viruses.
Sheik Amamuddy, Olivier, Boateng, Rita A, Barozi, Victor, Nyamai, Dorothy W, Tastan Bishop, Özlem. Elsevier; 2021. Novel dynamic residue network analysis approaches to study allosteric modulation: SARS-CoV-2 Mpro and its evolutionary mutations as a case study.
Nyamai, Dorothy W, Tastan Bishop, Özlem. Identification of Selective Novel Hits against Plasmodium falciparum Prolyl tRNA Synthetase Active Site and a Predicted Allosteric Site Using in silico Approaches:. 2020.