List of works by Winston Hide

A case for a Glossina genome project

scientific article

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

scientific article

A comprehensive promoter landscape identifies a novel promoter for CD133 in restricted tissues, cancers, and stem cells.

scientific article published on 29 October 2013

A data-driven approach links microglia to pathology and prognosis in amyotrophic lateral sclerosis

scientific article

A direct fate exclusion mechanism by Sonic hedgehog-regulated transcriptional repressors

scientific article

A functional genomic screen reveals novel host genes that mediate interferon-alpha's effects against hepatitis C virus

scientific article

A genome-wide association search for type 2 diabetes genes in African Americans

scientific article published on 4 January 2012

A genome-wide siRNA screen identifies proteasome addiction as a vulnerability of basal-like triple-negative breast cancer cells

scientific article published on August 2013

A missense (Asp250----Asn) mutation in the lipoprotein lipase gene in two unrelated families with familial lipoprotein lipase deficiency.

scientific article published on May 1992

A model of directional selection applied to the evolution of drug resistance in HIV-1.

scientific article published in February 2007

A network of epigenetic regulators guides developmental haematopoiesis in vivo

scientific article

A platform for genomics in South Africa

article

A prioritization analysis of disease association by data-mining of functional annotation of human genes

scientific article

A promoter-level mammalian expression atlas

scientific article

ASTD: The Alternative Splicing and Transcript Diversity database

scientific article

Aberrant lipid metabolism disrupts calcium homeostasis causing liver endoplasmic reticulum stress in obesity

scientific article

Adaptive changes in HIV-1 subtype C proteins during early infection are driven by changes in HLA-associated immune pressure.

scientific article

Alternative gene form discovery and candidate gene selection from gene indexing projects

scientific article

An Atlas of Combinatorial Transcriptional Regulation in Mouse and Man

An atlas of combinatorial transcriptional regulation in mouse and man

scientific article

An in-depth comparison of the male pediatric and adult urinary proteomes

scientific article published on 22 May 2013

An overview of the wcd EST clustering tool

scientific article published on 14 May 2008

Application of eVOC: controlled vocabularies for unifying gene expression data

scientific article

Assembly, verification, and initial annotation of the NIA mouse 7.4K cDNA clone set

scientific article

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

scientific article published in May 2002

Association of TRIM22 with the type 1 interferon response and viral control during primary HIV-1 infection

scientific article

Aβ-accelerated neurodegeneration caused by Alzheimer's-associated ACE variant R1279Q is rescued by angiotensin system inhibition in mice

scientific article published on 01 September 2020

Biological evaluation of d2, an algorithm for high-performance sequence comparison.

scientific article

CAGExploreR: an R package for the analysis and visualization of promoter dynamics across multiple experiments.

scientific article

CCL2 enhances pluripotency of human induced pluripotent stem cells by activating hypoxia related genes

scientific article

CLU: a new algorithm for EST clustering

scientific article

Capture of microRNA-bound mRNAs identifies the tumor suppressor miR-34a as a regulator of growth factor signaling

scientific article

Cell-specific translational profiling in acute kidney injury

scientific article published on 24 February 2014

Cell-specific translational profiling in acute kidneyinjury.

scientific article

Chronic endotoxin exposure produces airflow obstruction and lung dendritic cell expansion

journal article published in 2012

Comparative analysis of resistant and susceptible macrophage gene expression response to Leishmania major parasite

scientific article

Comparison of glioma stem cells to neural stem cells from the adult human brain identifies dysregulated Wnt- signaling and a fingerprint associated with clinical outcome.

scientific article

Comparison of illumina and 454 deep sequencing in participants failing raltegravir-based antiretroviral therapy

scientific article

Compound heterozygous variants in NBAS as a cause of atypical osteogenesis imperfecta.

scientific article published on 24 October 2016

Computational disease gene identification: a concert of methods prioritizes type 2 diabetes and obesity candidate genes.

scientific article

Computational selection and prioritization of candidate genes for fetal alcohol syndrome

scientific article

Conserved domains of subtype C nef from South African HIV type 1-infected individuals include cytotoxic T lymphocyte epitope-rich regions

scientific article

Corrigendum: Twelve type 2 diabetes susceptibility loci identified through large-scale association analysis

scholarly article published in Nature Genetics

Discovery of molecular markers to discriminate corneal endothelial cells in the human body

scientific article published on 25 March 2015

Divergent LIN28-mRNA associations result in translational suppression upon the initiation of differentiation.

scientific article

Eukaryotic genes in Mycobacterium tuberculosis could have a role in pathogenesis and immunomodulation

scientific article published in January 2002

ExScript: AN 'EX'-CENTRIC APPROACH TO THE DESCRIPTION OF TRANSCRIPT DIVERSITY

scientific article published on 01 June 2001

Exome sequencing reveals recurrent germ line variants in patients with familial Waldenström macroglobulinemia.

scientific article published on 22 February 2016

FRAGS: estimation of coding sequence substitution rates from fragmentary data

scientific article

Faculty of 1000 evaluation for A differentiation-based phylogeny of cancer subtypes

scholarly article published 10 May 2010

Faculty of 1000 evaluation for A high-resolution map of active promoters in the human genome

Faculty of 1000 evaluation for Can a biologist fix a radio?--Or, what I learned while studying apoptosis

Faculty of 1000 evaluation for Candidate gene prioritization with Endeavour

article

Faculty of 1000 evaluation for Complex systems in pulmonary medicine: a systems biology approach to lung disease

Faculty of 1000 evaluation for DNA supercoiling suppresses real-time PCR: a new approach to the quantification of mitochondrial DNA damage and repair

Faculty of 1000 evaluation for Differential Network Analysis for the identification of condition-specific pathway activity and regulation

Faculty of 1000 evaluation for Discovering causal pathways linking genomic events to transcriptional states using Tied Diffusion Through Interacting Events (TieDIE)

Faculty of 1000 evaluation for Enabling an Open Data Ecosystem for the Neurosciences

Faculty of 1000 evaluation for Exploring the reasons for the large density of triplex-forming oligonucleotide target sequences in the human regulatory regions

scholarly article published 7 March 2007

Faculty of 1000 evaluation for Finding function: evaluation methods for functional genomic data

Faculty of 1000 evaluation for Gene interaction enrichment and network analysis to identify dysregulated pathways and their interactions in complex diseases

article

Faculty of 1000 evaluation for Genomewide association studies--illuminating biologic pathways

Faculty of 1000 evaluation for Genomic transcriptional response to loss of chromosomal supercoiling in Escherichia coli

Faculty of 1000 evaluation for Identification of host proteins required for HIV infection through a functional genomic screen

article

Faculty of 1000 evaluation for Lineage-based identification of cellular states and expression programs

Faculty of 1000 evaluation for Molecular processes during fat cell development revealed by gene expression profiling and functional annotation

Faculty of 1000 evaluation for Predicting adverse drug events using pharmacological network models

scholarly article published 10 January 2012

Faculty of 1000 evaluation for Stem cell gene expression programs influence clinical outcome in human leukemia

article

Faculty of 1000 evaluation for Systematic enrichment analysis of gene expression profiling studies identifies consensus pathways implicated in colorectal cancer development

Faculty of 1000 evaluation for Targeting cancer stem cells by inhibiting Wnt, Notch, and Hedgehog pathways

Faculty of 1000 evaluation for Tissue-specific genetic control of splicing: implications for the study of complex traits

Faculty of 1000 evaluation for Towards a data sharing Code of Conduct for international genomic research

Gateways to the FANTOM5 promoter level mammalian expression atlas

scientific article

Gene-Expression Ontologies and Tag-Based Expression Profiling

article

Genome Databases

2005 journal article

Genome-wide analysis of cancer/testis gene expression

scientific article

Genome-wide association study for type 2 diabetes in Indians identifies a new susceptibility locus at 2q21.

scientific article

H3ABioNet, a sustainable pan-African bioinformatics network for human heredity and health in Africa

scientific article

Human Proteinpedia enables sharing of human protein data

scientific article

ISA software suite: supporting standards-compliant experimental annotation and enabling curation at the community level

scientific article (publication date: 15 September 2010)

ISCB Ebola Award for Important Future Research on the Computational Biology of Ebola Virus

scientific article (publication date: 29 January 2015)

ISCB Ebola Award for Important Future Research on the Computational Biology of Ebola Virus

scientific article

Identification of Novel Alzheimer's Disease Loci Using Sex-Specific Family-Based Association Analysis of Whole-Genome Sequence Data

scientific article published on 19 March 2020

Inferring an Evolutionary Tree of Uveal Melanoma From Genomic Copy Number Aberrations

scientific article published on October 2015

Integrated Genomic Analysis of Diverse Induced Pluripotent Stem Cells from the Progenitor Cell Biology Consortium

scientific article

Integrating human sequence data sets provides a resource of benchmark SNP and indel genotype calls

scientific article

Integrating murine gene expression studies to understand obstructive lung disease due to chronic inhaled endotoxin

scientific article

Integration of text- and data-mining using ontologies successfully selects disease gene candidates

scientific article

Integrative analysis of intraerythrocytic differentially expressed transcripts yields novel insights into the biology of Plasmodium falciparum

scientific article

Integrative annotation of 21,037 human genes validated by full-length cDNA clones

scientific article

Isolation of a gene required for programmed initiation of development by Aspergillus nidulans

scientific article published on September 1992

Iterative sorting reveals CD133+ and CD133- melanoma cells as phenotypically distinct populations.

scientific article

Message from the ISCB: ISCB Ebola award for important future research on the computational biology of Ebola virus

scientific article published on 2 February 2015

Mice and men: their promoter properties

scientific article

Molecular evolution of Mycobacterium tuberculosis: phylogenetic reconstruction of clonal expansion

scientific article published on January 2001

Molecular, phenotypic, and sample-associated data to describe pluripotent stem cell lines and derivatives

scientific article

Mutations in a novel retina-specific gene cause autosomal dominant retinitis pigmentosa

scientific article

Mycoplasma Infection Alters Cancer Stem Cell Properties in Vitro

scientific article published on 30 October 2015

New methods for finding disease-susceptibility genes: impact and potential

scientific article

Novel developmental analyses identify longitudinal patterns of early gut microbiota that affect infant growth

scientific article

Novel loci for adiponectin levels and their influence on type 2 diabetes and metabolic traits: a multi-ethnic meta-analysis of 45,891 individuals

scientific article

Origin of rodents and guinea-pigs

scientific article

Pathprinting: An integrative approach to understand the functional basis of disease

scientific article published on 26 July 2013

Physical and transcriptional map of the critical region for keratolytic winter erythema (KWE) on chromosome 8p22-p23 between D8S550 and D8S1759.

scientific article

Population differences in transcript-regulator expression quantitative trait loci

scientific article (publication date: 2012)

Positive selection scanning of parasite DNA sequences

scientific article published in January 2004

Positive selection scanning reveals decoupling of enzymatic activities of carbamoyl phosphate synthetase in Helicobacter pylori

scientific article published in April 2002

Prenatal lead levels, plasma amyloid β levels, and gene expression in young adulthood

scientific article

Prioritizing genes of potential relevance to diseases affected by sex hormones: an example of myasthenia gravis

scientific article

Profiling the malaria genome: a gene survey of three species of malaria parasite with comparison to other apicomplexan species.

scientific article

Promoting HIV vaccine research and development in southern Africa

article

Protein kinase C delta is essential for optimal macrophage-mediated phagosomal containment of Listeria monocytogenes.

scholarly article

Quantitating the Multiplicity of Infection with Human Immunodeficiency Virus Type 1 Subtype C Reveals a Non-Poisson Distribution of Transmitted Variants.

scientific article published in July 2009

Quantitating the multiplicity of infection with human immunodeficiency virus type 1 subtype C reveals a non-poisson distribution of transmitted variants

scientific article published on 04 February 2009

Rapid evolution of cancer/testis genes on the X chromosome

scientific article

Region-based analysis of rare genomic variants in whole-genome sequencing datasets reveal two novel Alzheimer's disease-associated genes: DTNB and DLG2

scientific article published on 04 March 2022

Relatively frequent switching of transcription start sites during cerebellar development.

scientific article

Research capacity. Enabling the genomic revolution in Africa

scientific article published in June 2014

Response to Hertz-Fowler and Berriman: Continuing tsetse and Trypanosoma genome sequencing projects

STACK: Sequence Tag Alignment and Consensus Knowledgebase

scientific article

Sequencing of captive target transcripts identifies the network of regulated genes and functions of primate-specific miR-522.

scientific article published on 14 August 2014

Sex-specific and blood meal-induced proteins of Anopheles gambiae midguts: analysis by two-dimensional gel electrophoresis ⬇️

scientific article

Silencing of the Drosophila ortholog of SOX5 leads to abnormal neuronal development and behavioral impairment

scientific article published on 10 February 2017

Simplified ontologies allowing comparison of developmental mammalian gene expression

scientific article

Structure and evolution of the lipase superfamily ⬇️

scientific article published on February 1, 1992

Ten simple rules for organizing a virtual conference--anywhere

scientific article (publication date: 26 February 2010)

The ESAT-6 gene cluster of Mycobacterium tuberculosis and other high G+C Gram-positive bacteria

scientific article

The H-Invitational Database (H-InvDB), a comprehensive annotation resource for human genes and transcripts

scientific article

The Human Anatomic Gene Expression Library (H-ANGEL), the H-Inv integrative display of human gene expression across disparate technologies and platforms

scientific article

The LIFEdb database in 2006

scientific article

The Pathway Coexpression Network: Revealing pathway relationships.

scientific article published on 19 March 2018

The S-star trial bioinformatics course: An on-line learning success

scholarly article by Yun Ping Lim published in January 2003

The South African EMBnet Node: AGM 2010 report

scholarly article by Winston Hide published 23 July 2010 in EMBnet.Journal

The Stem Cell Commons: an exemplar for data integration in the biomedical domain driven by the ISA framework

scientific article

The Stem Cell Discovery Engine: an integrated repository and analysis system for cancer stem cell comparisons

scientific article published on 24 November 2011

The biochemical phylogeny of guinea-pigs and gundis, and the paraphyly of the order Rodentia ⬇️

scientific article published on April 1, 1992

The contribution of exon-skipping events on chromosome 22 to protein coding diversity.

scientific article

The generation and utilization of a cancer-oriented representation of the human transcriptome by using expressed sequence tags

scientific article published on 30 October 2003

The molecular taxonomy and evolution of the guinea pig.

scientific article published on May 1992

The relative resistance of children to sepsis mortality: from pathways to drug candidates.

scientific article published on 17 May 2018

The transcriptional landscape of the mammalian genome

scientific article

The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line.

scientific article

Toward interoperable bioscience data

scientific article (publication date: 27 January 2012)

Transcriptome analysis of mouse stem cells and early embryos

scientific article

Transmission of HIV-1 CTL escape variants provides HLA-mismatched recipients with a survival advantage

scientific article

Twelve type 2 diabetes susceptibility loci identified through large-scale association analysis

scientific article

USE OF A VISUAL COMPARATIVE METHOD TO RESOLVE CONSERVED SEQUENCE MOTIFS IN PROTEINS

Vertical HIV transmission in South Africa: translating research into policy and practice

scientific article published on March 2002

big data: The future of biocuration

scientific article

d2_cluster: a validated method for clustering EST and full-length cDNAsequences

scientific article

eVOC: a controlled vocabulary for unifying gene expression data

scientific article

edgeRun: an R package for sensitive, functionally relevant differential expression discovery using an unconditional exact test

edgeRun: an R package for sensitive, functionally relevant differential expression discovery using an unconditional exact test

scientific article published on 21 April 2015

miR-200 promotes the mesenchymal to epithelial transition by suppressing multiple members of the Zeb2 and Snail1 transcriptional repressor complexes.

scientific article

miR-24 Inhibits cell proliferation by targeting E2F2, MYC, and other cell-cycle genes via binding to "seedless" 3'UTR microRNA recognition elements

scientific article

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