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‎publications.html‎

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@@ -241,7 +241,8 @@ <h1 class="pubs-page-h1">Lab Publications</h1>
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data-year="preprint"
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data-authors="Marques D, Fernandes C, Barbosa-Morais NL, Reis C"
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data-journal="bioRxiv, 2025.06.16.659930"
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data-tags="circadian,shift work,sleep,actigraphy">
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<strong>Marques D</strong>, Fernandes C, <strong>Barbosa-Morais NL</strong>, Reis C.
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"<a href="https://doi.org/10.1101/2025.06.16.659930" target="_blank" rel="noopener">Circadian disruption beneath the surface: a screening approach to identify actigraphy-based markers of split shift work in submariners.</a>"
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<em>bioRxiv</em>, 2025.06.16.659930.
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data-year="preprint"
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data-authors="Bica M, Serre K, Barbosa-Morais NL"
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data-journal="bioRxiv, 2025.04.17.649161"
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data-tags="scRNA-seq,software,single-cell">
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<strong>Bica M</strong>, Serre K, <strong>Barbosa-Morais NL</strong>.
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"<a href="https://doi.org/10.1101/2025.04.17.649161" target="_blank" rel="noopener">scStudio: A User-Friendly Web Application Empowering Non-Computational Users with Intuitive scRNA-seq Data Analysis.</a>"
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<em>bioRxiv</em>, 2025.04.17.649161.
@@ -271,7 +273,8 @@ <h1 class="pubs-page-h1">Lab Publications</h1>
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data-year="2026"
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data-authors="Martins-Silva R, Kaizeler A, Barbosa-Morais NL"
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data-journal="NAR Genomics and Bioinformatics, 2026"
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data-tags="software,senescence,gene expression,transcriptomics">
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<strong>Martins-Silva R</strong>, <strong>Kaizeler A</strong>, <strong>Barbosa-Morais NL</strong>.
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"<a href="https://doi.org/10.1093/nargab/lqag057" target="_blank" rel="noopener">Exploring molecular signatures of senescence with markeR, an R toolkit for evaluating gene sets as phenotypic markers.</a>"
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<em>NAR Genomics and Bioinformatics</em>, 2026.
@@ -293,7 +296,8 @@ <h1 class="pubs-page-h1">Lab Publications</h1>
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data-year="2025"
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data-authors="Jardim C, Bica M et al., Barbosa-Morais NL, Serre K"
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data-journal="Cancer Immunology Research, 2025"
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data-tags="cancer,immunology,macrophages,tumour">
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Jardim C<sup>*</sup>, <strong>Bica M</strong><sup>*</sup>, Reis-Sobreiro M, da Mota AT, Lopes R, Pinto M, Sousa NS, Mensurado S, Boekhoff H, Scolaro T, Reugebrink M, Gonçalves-Sousa N, Kubo H, Gomes CM, Brito C, Arguello R, Leites EP, Morais VA, Silva-Santos B, <strong>Barbosa-Morais NL</strong>, Serre K.
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"<a href="https://doi.org/10.1158/2326-6066.CIR-24-0797" target="_blank" rel="noopener">Sustained macrophage reprogramming is required for CD8 T cell-dependent long-term tumor eradication.</a>"
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<em>Cancer Immunology Research</em>, 2025 Jun 5; in press.
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data-year="2024"
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data-authors="Schneider AL, Martins-Silva R, Kaizeler A, Saraiva-Agostinho N, Barbosa-Morais NL"
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data-journal="eLife, 2024;12:RP88623"
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data-tags="software,ageing,gene expression,RNA-seq">
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<strong>Schneider AL</strong><sup>*</sup>, <strong>Martins-Silva R</strong><sup>*</sup>, <strong>Kaizeler A</strong><sup>*</sup>, <strong>Saraiva-Agostinho N</strong>, <strong>Barbosa-Morais NL</strong>.
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"<a href="https://elifesciences.org/articles/88623" target="_blank" rel="noopener">voyAGEr, free web interface for the analysis of age-related gene expression alterations in human tissues.</a>"
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<em>eLife</em>, 2024;12:RP88623.
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data-year="2024"
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data-authors="Ascensão-Ferreira M, Martins-Silva R, Saraiva-Agostinho N, Barbosa-Morais NL"
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data-journal="RNA, 2024;30(4):337-353"
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data-tags="software,alternative splicing,beta distributions">
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<strong>Ascensão-Ferreira M</strong><sup>*</sup>, <strong>Martins-Silva R</strong><sup>*</sup>, <strong>Saraiva-Agostinho N</strong>, <strong>Barbosa-Morais NL</strong>.
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"<a href="https://doi.org/10.1261/rna.079764.123" target="_blank" rel="noopener">betAS: intuitive analysis and visualisation of differential alternative splicing using beta distributions.</a>"
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<em>RNA</em>, 2024;30(4):337-353.
@@ -373,7 +379,8 @@ <h1 class="pubs-page-h1">Lab Publications</h1>
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data-year="2020"
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data-authors="Bordone MC, Barbosa-Morais NL"
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data-journal="Frontiers in Neuroscience, 2020;14:607215"
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data-tags="neuroscience,Alzheimer,Parkinson,digital cytometry">
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<strong>Bordone MC</strong>, <strong>Barbosa-Morais NL</strong>.
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"<a href="https://www.frontiersin.org/articles/10.3389/fnins.2020.607215/full" target="_blank" rel="noopener">Unraveling Targetable Systemic and Cell-Type-Specific Molecular Phenotypes of Alzheimer's and Parkinson's Brains With Digital Cytometry.</a>"
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<em>Frontiers in Neuroscience</em>, 2020 Dec 9;14:607215.
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data-year="2020"
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data-authors="Saraiva-Agostinho N, Barbosa-Morais NL"
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data-journal="Methods in Molecular Biology, 2020;2117:179-205"
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data-tags="software,alternative splicing,psichomics">
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<strong>Saraiva-Agostinho N</strong>, <strong>Barbosa-Morais NL</strong>.
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"<a href="https://link.springer.com/protocol/10.1007%2F978-1-0716-0301-7_10" target="_blank" rel="noopener">Interactive Alternative Splicing Analysis of Human Stem Cells Using psichomics.</a>"
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<em>Methods in Molecular Biology</em>, 2020;2117:179-205.
@@ -424,7 +432,8 @@ <h1 class="pubs-page-h1">Lab Publications</h1>
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data-year="2019"
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data-authors="Munkley J, Li L et al., Barbosa-Morais NL, Oltean S, Elliott DJ"
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data-journal="eLife, 2019;8:e47678"
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data-tags="alternative splicing,prostate cancer,androgen">
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Munkley J, Li L, Krishnan SRG, Hysenaj G, Scott E, Dalgliesh C, Oo HZ, <strong>Maia TM</strong>, Cheung K, Ehrmann I, Livermore KE, Zielinska H, Thompson O, Knight B, McCullagh P, McGrath J, Crundwell M, Harries LW, Daugaard M, Cockell S, <strong>Barbosa-Morais NL</strong>, Oltean S, Elliott DJ.
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"<a href="https://elifesciences.org/articles/47678" target="_blank" rel="noopener">Androgen-regulated transcription of ESRP2 drives alternative splicing patterns in prostate cancer.</a>"
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<em>eLife</em>, 2019 Sep 3;8:e47678.
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data-year="2019"
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data-authors="de Almeida BP, Vieira AF, Paredes J, Bettencourt-Dias M, Barbosa-Morais NL"
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data-journal="PLoS Computational Biology, 2019;15(3):e1006832"
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data-tags="cancer,centrosomes,pan-cancer,gene expression">
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<strong>de Almeida BP</strong>, Vieira AF, Paredes J, Bettencourt-Dias M, <strong>Barbosa-Morais NL</strong>.
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"<a href="https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1006832" target="_blank" rel="noopener">Pan-cancer association of a centrosome amplification gene expression signature with genomic alterations and clinical outcome.</a>"
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<em>PLoS Computational Biology</em>, 2019;15(3):e1006832.
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data-year="2019"
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data-authors="Saraiva-Agostinho N, Barbosa-Morais NL"
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data-journal="Nucleic Acids Research, 2019;47(2):e7"
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data-tags="software,alternative splicing,psichomics">
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<strong>Saraiva-Agostinho N</strong>, <strong>Barbosa-Morais NL</strong>.
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"<a href="https://academic.oup.com/nar/article/47/2/e7/5114259" target="_blank" rel="noopener">psichomics: graphical application for alternative splicing quantification and analysis.</a>"
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<em>Nucleic Acids Research</em>, 2019;47(2):e7.
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data-year="2017"
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data-authors="Gallego-Paez LM, Bordone MC, Leote AC et al., Barbosa-Morais NL"
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data-journal="Human Genetics, 2017;136(9):1015-1042"
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data-tags="alternative splicing,review">
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<strong>Gallego-Paez LM</strong>, <strong>Bordone MC</strong>, <strong>Leote AC</strong>, <strong>Saraiva-Agostinho N</strong>, <strong>Ascensão-Ferreira M</strong>, <strong>Barbosa-Morais NL</strong>.
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"<a href="http://link.springer.com/article/10.1007/s00439-017-1790-y" target="_blank" rel="noopener">Alternative splicing: the pledge, the turn, and the prestige - The key role of alternative splicing in human biological systems.</a>"
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<em>Human Genetics</em>, 2017;136(9):1015-1042.

‎sections/publications.html‎

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Selected publications from the lab. For the complete lab record visit
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<a href="publications.html">all lab publications</a>. For Nuno's
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full personal record (including pre-lab work) visit
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<a href="sections/nuno.html#publications">Nuno's publication list</a>,
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<a href="https://orcid.org/0000-0002-1215-0538" target="_blank" rel="noopener">ORCID</a>,
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or
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<a href="http://scholar.google.pt/citations?user=LS9tM7sAAAAJ&hl=en" target="_blank" rel="noopener">Google Scholar</a>.
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<a href="sections/nuno.html#publications">Nuno's publication list</a>.
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</p>
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