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List of works by Alan Christoffels

A comparative analysis of trypanosomatid SNARE proteins.

scientific article

A comprehensive approach to clustering of expressed human gene sequence: the sequence tag alignment and consensus knowledge base.

scientific article

A glance at quality score: implication for de novo transcriptome reconstruction of Illumina reads.

scientific article published on 12 February 2014

A pan-African pathogen genomics data sharing platform to support disease outbreaks

A population model for the 2017/18 listeriosis outbreak in South Africa

scientific article published on 12 March 2020

Accelerating genomics-based surveillance for COVID-19 response in Africa

scientific article published on 18 August 2020

Accessing Biospecimens from the H3Africa Consortium.

scientific article published in April 2017

An integrated and comparative approach towards identification, characterization and functional annotation of candidate genes for drought tolerance in sorghum (Sorghum bicolor (L.) Moench).

scientific article published on 22 December 2017

Assessment of the parallelization approach of d2_cluster for high-performance sequence clustering

scientific article published in May 2002

Baobab Laboratory Information Management System: Development of an Open-Source Laboratory Information Management System for Biobanking

scientific article

COMBAT-TB-NeoDB: fostering tuberculosis research through integrative analysis using graph database technologies

scientific article published on 01 February 2020

COMPARISON OF CORE PROMOTERS IN FUGU RUBRIPES AND HUMAN

Careful governance of African biobanks

scientific article published on 01 January 2020

Cellular and Molecular Targets of Waterbuck Repellent Blend Odors in Antennae of Glossina fuscipes fuscipes Newstead, 1910

scientific article published on 03 June 2020

Challenges of biobanking in South Africa to facilitate indigenous research in an environment burdened with human immunodeficiency virus, tuberculosis, and emerging noncommunicable diseases

scientific article

Chemosensory receptors in tsetse flies provide link between chemical and behavioural ecology

scientific article

Chromosomal-Level Assembly of the Asian Seabass Genome Using Long Sequence Reads and Multi-layered Scaffolding

scientific article

Comparative analysis of the testis and ovary transcriptomes in zebrafish by combining experimental and computational tools

scientific article published on January 2004

Comparative genomics in cyprinids: common carp ESTs help the annotation of the zebrafish genome

scientific article

Computational characterization of Iron metabolism in the Tsetse disease vector, Glossina morsitans: IRE stem-loops

scientific article

Computational drug repurposing strategy predicted peptide-based drugs that can potentially inhibit the interaction of SARS-CoV-2 spike protein with its target (humanACE2)

scientific article published on 08 January 2021

Correction: Chromosomal-Level Assembly of the Asian Seabass Genome Using Long Sequence Reads and Multi-layered Scaffolding.

scientific article published on 9 December 2016

Correction: Cross-species multiple environmental stress responses: An integrated approach to identify candidate genes for multiple stress tolerance in sorghum (Sorghum bicolor (L.) Moench) and related model species.

scientific article published on 3 May 2018

Correction: Genome-Wide Comparative Analysis of Chemosensory Gene Families in Five Tsetse Fly Species

scientific article published on 5 December 2016

Cross-species multiple environmental stress responses: An integrated approach to identify candidate genes for multiple stress tolerance in sorghum (Sorghum bicolor (L.) Moench) and related model species

scientific article published on 28 March 2018

DAMPD: a manually curated antimicrobial peptide database

scientific article published on 21 November 2011

DDEC: Dragon database of genes implicated in esophageal cancer

scientific article

DDESC: Dragon database for exploration of sodium channels in human

scientific article

DDPC: Dragon Database of Genes associated with Prostate Cancer

scientific article

DESTAF: a database of text-mined associations for reproductive toxins potentially affecting human fertility

scientific article

Database for exploration of functional context of genes implicated in ovarian cancer

scientific article published on 12 September 2008

Dealing with Duplicated Genomes of Teleosts

Designing novel possible kinase inhibitor derivatives as therapeutics against Mycobacterium tuberculosis: An in silico study

scientific article published on 13 March 2019

Dragon exploratory system on hepatitis C virus (DESHCV).

scientific article published on 29 December 2010

Evaluation of Protein Purification Techniques and Effects of Storage Duration on LC-MS/MS Analysis of Archived FFPE Human CRC Tissues

scientific article

Evidence for a common biological pathway linking three Parkinson's disease-causing genes: parkin, PINK1 and DJ-1

scientific article

Evolution and Structural Analyses of Glossina morsitans (Diptera; Glossinidae) Tetraspanins.

scientific article

Evolutionary genomics of Glossina morsitans immune-related CLIP domain serine proteases and serine protease inhibitors

scientific article published on 3 November 2010

Exome sequencing combined with semantic discovery identifies strong disease-associated candidates in a single case of relapsing remitting multiple sclerosis

Expansion mechanisms and functional annotations of hypothetical genes in the rice genome

scientific article published on 17 June 2009

Exploration of Scaffolds from Natural Products with Antiplasmodial Activities, Currently Registered Antimalarial Drugs and Public Malarial Screen Data.

scientific article

Exploring the Influence of Organizational, Environmental, and Technological Factors on Information Security Policies and Compliance at South African Higher Education Institutions, with a Focus on Implications for Biomedical Research

scientific article

Extensive expansion of the claudin gene family in the teleost fish, Fugu rubripes

scientific article published on 14 June 2004

Fugu genome analysis provides evidence for a whole-genome duplication early during the evolution of ray-finned fishes

scientific article published on 10 March 2004

Future-proofing and maximizing the utility of metadata: The PHA4GE SARS-CoV-2 contextual data specification package

scientific article published in 2022

Genome-Wide Comparative Analysis of Chemosensory Gene Families in Five Tsetse Fly Species

scientific article

Genome-wide SNP identification by high-throughput sequencing and selective mapping allows sequence assembly positioning using a framework genetic linkage map

scientific article

Genomic surveillance of Rift Valley fever virus: from sequencing to lineage assignment

scientific article published on 18 July 2022

Gonad differentiation in zebrafish is regulated by the canonical Wnt signaling pathway.

scientific article published on 27 February 2014

HCVpro: hepatitis C virus protein interaction database

scientific article published on 09 September 2011

Hox gene clusters in the Indonesian coelacanth, Latimeria menadoensis

scientific article

Human African trypanosomiasis research gets a boost: unraveling the tsetse genome.

scientific article published on 24 April 2014

Human Leukocyte Antigen-A, B, C, DRB1, and DQB1 Allele and Haplotype Frequencies in a Subset of 237 Donors in the South African Bone Marrow Registry.

scientific article

Identification and characterization of microRNAs expressed in the African malaria vector Anopheles funestus life stages using high throughput sequencing

scientific article

Identification of novel prognostic markers of survival time in high-risk neuroblastoma using gene expression profiles

scientific article published on 17 November 2020

In silico repurposing of a Novobiocin derivative for activity against latency associated Mycobacterium tuberculosis drug target nicotinate-nucleotide adenylyl transferase (Rv2421c)

scientific article published on 02 November 2021

Inferring bona fide transfrags in RNA-Seq derived-transcriptome assemblies of non-model organisms

scientific article

Information security at South African universities—implications for biomedical research

scientific article published in 2020

Inhibiting CDK6 Activity by Quercetin Is an Attractive Strategy for Cancer Therapy

scientific article published on 14 October 2020

International glossina genome initiative 2004-2014: a driver for post-genomic era research on the African continent

scientific article

MOLECULAR PHYLOGENETIC ANALYSIS: UNDERSTANDING GENOME EVOLUTION

scholarly article published June 2005

Mice and men: their promoter properties

scientific article published on 28 April 2006

Molecular modelling and simulation studies of the Mycobacterium tuberculosis multidrug efflux pump protein Rv1258c

scientific article published in PLoS ONE

Odorant and gustatory receptors in the tsetse fly Glossina morsitans morsitans

scientific article (publication date: April 2014)

Prediction of human-Bacillus anthracis protein–protein interactions using multi-layer neural network

scientific article published on 01 December 2018

Prioritization of anti-malarial hits from nature: chemo-informatic profiling of natural products with in vitro antiplasmodial activities and currently registered anti-malarial drugs

scientific article published on 29 January 2016

Prioritization of candidate genes for a South African family with Parkinson's disease using in-silico tools

scientific article published on 26 March 2021

Research capacity. Enabling the genomic revolution in Africa

scientific article published in June 2014

Resistance related metabolic pathways for drug target identification in Mycobacterium tuberculosis

scientific article published on 8 February 2016

Selecting a Laboratory Information Management System for Biorepositories in Low- and Middle-Income Countries: The H3Africa Experience and Lessons Learned.

scientific article

South African EMBnet Node: AGM2011 report

Structural and functional effects of nucleotide variation on the human TB drug metabolizing enzyme arylamine N-acetyltransferase 1.

scientific article published on 10 June 2017

Structure based identification of novel inhibitors against ATP synthase of Mycobacterium tuberculosis: A combined in silico and in vitro study

scientific article published on 20 May 2019

TSS seq based core promoter architecture in blood feeding Tsetse fly (Glossina morsitans morsitans) vector of Trypanosomiasis

scientific article published on 22 September 2015

Taste and odorant receptors of the coelacanth--a gene repertoire in transition

scientific article

Tetraodon genome analysis provides further evidence for whole-genome duplication in the ray-finned fish lineage

article

The African coelacanth genome provides insights into tetrapod evolution

scientific article

The COMBAT-TB Workbench: Making Powerful Mycobacterium tuberculosis Bioinformatics Accessible

scientific article published in 2022

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

scientific article published on 4 February 2016

The evolving SARS-CoV-2 epidemic in Africa: Insights from rapidly expanding genomic surveillance

research article preprint

The evolving SARS-CoV-2 epidemic in Africa: Insights from rapidly expanding genomic surveillance

scientific article published on 7 October 2022

The genome of woodland strawberry (Fragaria vesca)

scientific article

Towards inferring the global movement of beak and feather disease virus

scientific article

Transcriptomic Profile of <i>Mycobacterium smegmatis</i> in Response to an Imidazo[1,2-<i>b</i>][1,2,4,5]tetrazine Reveals Its Possible Impact on Iron Metabolism

scientific article published on 04 August 2021

Transcriptomic analyses reveal novel genes with sexually dimorphic expression in the zebrafish gonad and brain

scientific article

Whole-Genome Shotgun Assembly and Analysis of the Genome of Fugu rubripes

scientific article

Whole-genome sequencing for an enhanced understanding of genetic variation among South Africans.

scientific article published on 12 December 2017

eVOC: a controlled vocabulary for unifying gene expression data

scientific article

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