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Translational genomics

McGlacken-Byrne et al. (includes T Xenakis)

Mapping the anatomical and transcriptional landscape of early human fetal ovary development

bioRxiv

Gerli et al. (includes T Xenakis)

Single cell-guided prenatal derivation of primary epithelial organoids from the human amniotic and tracheal fluids

bioRxiv

Hall and Castellano

Dawnn: single-cell differential abundance with neural networks

bioRxiv

Bea-Mascato et al.

Loss of the centrosomal protein ALMS1 alters lipid metabolism and the regulation of extracellular matrix-related processes

bioRxiv

Puigdevall et al.

Effects of somatic mutations on cellular differentiation in iPSC models of neurodevelopment

Cell Genomics, 3, 100280 (2023)

Morfopoulou et al.

Genomic investigations of acute hepatitis of unknown aetiology in children

Nature, 617, 564–573 (2023)

Jayarajan et al.

Short-term keratinocyte Rho-associated kinase inhibitor treatment accelerates primary keratinocyte growth while preserving stem cell characteristics

Cells, 12, 346 (2023)

Michelozzi et al.

Enhanced functionality of low-affinity CD19 CAR T-cells is associated with activation priming and a polyfunctional cytokine phenotype

Blood Advances, 7, 1725–1738 (2023)

Wilkinson et al.

CD14+ monocyte-derived oxidised mitochondrial DNA amplifies the inflammatory interferon type 1 signature in Juvenile Dermatomyositis

Annals of the Rheumatic Diseases82, 658-669 (2023)

Aggarwal et al. (including COG-UK).

The role of genomics in understanding COVID-19 outbreaks in long term care facilities 

The Lancet Microbe, 3, e151-e158 (2022)

Snell et al. (including COG-UK). 

Combined epidemiological and genomic analysis of nosocomial SARS-CoV-2 transmission identifies community social distancing as the dominant intervention reducing outbreaks

Clinical Microbiology and Infection28, 93–100 (2022)

Sánchez-Corrales, Pohle, Castellano and Giustacchini

Taming Cell-to-Cell Heterogeneity in Acute Myeloid Leukaemia With Machine Learning

Frontiers in Oncology, 11, 1411 (2021)

Lythgoe et al. (including COG-UK)

SARS-CoV-2 within host diversity and transmission

Science, 372, eabg0821 (2021)

Parker et al. (including COG-UK)

Subgenomic RNA identification in SARS-CoV-2 genomic sequencing data

Genome research, 31, 645-658 (2021)

Stirrup et al. (including COG-UK). 

Rapid feedback on hospital onset SARS-CoV-2 infections combining epidemiological and sequencing data

Elife, 10, e65828 (2021)

Thomson et al. (including COG-UK)

Circulating SARS-CoV-2 spike N439K variants maintain fitness while evading antibody-mediated immunity

Cell, 184, 1171-1187 (2021)

Hosie et al. (including COG-UK). Detection of SARS‐CoV‐2 in respiratory samples from cats in the UK associated with human‐to‐cat transmission

Veterinary Record, 188, 8 (2021)

du Plessis et al. (including COG-UK)

Establishment and lineage dynamics of the SARS-CoV-2 epidemic in the UK

Science, 371, 708-712 (2021)

Volz et al. (including COG-UK)

Evaluating the effects of SARS-CoV-2 spike mutation D614G on transmissibility and pathogenicity

Cell184, 64-75 (2021)

O'Toole et al. (including COG-UK)

Tracking the international spread of SARS-CoV-2 lineages B. 1.1. 7 and B. 1.351/501Y-V2 with grinch

Wellcome open research, (2021)

Page et al. (including COG-UK)

Large-scale sequencing of SARS-CoV-2 genomes from one region allows detailed epidemiology and enables local outbreak management

Microbial genomics, (2021)

Da Silva et al. (including COG-UK)

Genomic epidemiology reveals multiple introductions of SARS-CoV-2 from mainland Europe into Scotland

Nature Microbiology, 6, 112-122 (2021)

The COVID-19 Genomics UK consortium (COG-UK)

An integrated national scale SARS-CoV-2 genomic surveillance network

The Lancet Microbe, 1, e99–e100 (2020)

Ancient genomics

Martin, Jay, Castellano and Slatkin

Determination of genetic relatedness from low-coverage human genome sequences using pedigree simulations

Molecular Ecology, 26, 4145-4157 (2017)

De Manuel et al.

Chimpanzee genomic diversity reveals ancient admixture with bonobos

Science354, 477-481 (2016)

Mendez, Poznik, Castellano and Bustamante

The divergence of Neandertal and modern human Y chromosomes

The American Journal of Human Genetics, 98, 728-734 (2016)

Kuhlwilm et al.

Ancient gene flow from early modern humans into Eastern Neanderthals

Nature, 530, 429-433 (2016)

Lazaridis et al.

Ancient human genomes suggest three ancestral populations for present-day Europeans

Nature513, 409-413 (2014)

Castellano et al.

Patterns of coding variation in the complete exomes of three Neandertals

PNAS111, 6666-6671 (2014)

Fu et al.

A revised timescale for human evolution based on ancient mitochondrial genomes

Current Biology23, 553-559 (2013)

Micronutrient genomics

Rees et al.
Ancient loss of catalytic selenocysteine spurred convergent adaptation in a mammalian oxidoreductase

bioRxiv

Sarangi et al.

Distinct Patterns of Selection in Selenium-Dependent Genes between Land and Aquatic Vertebrates

Molecular Biology and Evolution, 35, 1744-1756 (2018)

Davy and Castellano

The genomics of selenium: Its past, present and future

Biochimica et Biophysica Acta, 1862, 2427-2432 (2018).

Sarangi, White and Castellano

Genetic adaptation and Selenium uptake in vertebrates.

In Encyclopedia of the Life Sciences. Wiley (2018)

Castellano.

Selenium strikes back at fungi

Nature Microbiology, 4, 726-727 (2018)

Gladyshev et al.

Selenoprotein Gene Nomenclature

The Journal of Biological Chemistry, 291, 24036-24040 (2016)

White and Castellano

The role of selenium in human evolution

In D. Hatfield and V. Gladyshev (Eds.), Selenium: Its molecular biology and role in human health (4th ed., pp. 59-71). Springer (2016)

White et al.

Genetic adaptation to levels of dietary selenium in recent human history

Molecular Biology and Evolution, 32, 1507-1518 (2015)

Romagné et al.

SelenoDB 2.0: Annotation of selenoprotein genes in animals and their genetic diversity in humans

Nucleic Acids Research, 42, D437-D443 (2014)

White and Castellano

Evolutionary basis for the use of selenocysteine

In DL Hatfield, MJ Berry and VN Gladyshev (Eds.), Selenium: Its Molecular Biology and Role in Human Health (3, pp. 85-93). New York. Springer (2012)

Castellano

On the unique function of selenocysteine - insights from the evolution of selenoproteins

Biochimica et Biophysica Acta, 1790, 1463-1470 (2009) - In special issue on selenoprotein expression and function

Castellano et al.

Low exchangeability of selenocysteine, the 21st amino acid, in vertebrate proteins

Molecular Biology and Evolution, 26, 2031-2040 (2009)

Castellano, Gladyshev, Guigó and Berry

SelenoDB 1.0: A database of selenoprotein genes, proteins and SECIS elements

Nucleic Acids Research, 36, D332-D338 (2008)

Castellano

Little biological and statistical support for hundreds of selenoproteins in mouse pseudo-messenger RNAs 

Reader response - A critical assessment of PLoS Genetics, 2, e3 (2006). PLoS Genetics (2006)

Castellano et al.

Diversity and functional plasticity of eukaryotic selenoproteins: Identification and characterization of the SelJ family

PNAS, 102, 16188-16193 (2005)

Taskov et al.

The use of the selenocysteine insertion system to decode one codon in an animal genome?

Nucleic Acids Research, 33, 2227-2238 (2005)

International Chicken Genome Sequencing Consortium

Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution

Nature, 432, 695-716 (2004)

Jaillon et al.

Genome duplication in the teleost fish Tetraodon nigroviridis reveals the early vertebrate proto-karyotype

Nature, 431, 946-957 (2004)

Castellano

Towards the characterization of the eukaryotic selenoproteome: a computational approach

PhD Thesis (2004)

Castellano et al. 

Reconsidering the evolution of eukaryotic selenoproteins: A novel nonmammalian family with scattered phylogenetic distribution

EMBO Reports, 5, 71-77 (2004)

Kryukov et al.

Characterization of mammalian selenoproteomes

Science, 300, 1439-1443 (2003)

Castellano et al.

In silico identification of novel selenoproteins in the Drosophila melanogaster genome

EMBO Reports, 2, 697-702 (2001)

Computational genomics

Abril and Castellano 

Genome Annotation

In Encyclopedia of Bioinformatics and Computational Biology

Elsevier (2018)

Population genomics

Rees, Castellano and Andrés

The Genomics of Human Local Adaptation

Trends in Genetics, 36, 415-428 (2018)

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