Publications

“Either write something worth reading or do something worth reading” – Benjamin Franklin

Table of Contents

2024

  • Carvalho S, Zea-Redondo L, Tang TCC, Stachel-Braum P, Miller D, Caldas P, Kukalev A, Diecke S, Grosswendt S, Grosso AR, Pombo A. (2024) SRRM2 splicing factor modulates cell fate in early development. Biol Open. 13(4):bio060415. URL
  • Caldas P, Luz M, Baseggio S, Andrade R, Sobral D, Grosso AR. (2024) Transcription readthrough is prevalent in healthy human tissues and associated with inherent genomic features. Commun Biol. 7(1):100. doi: 10.1038/s42003-024-05779-5. URL

 

2023

  • Cardoso BA, Duque M, Gírio A, Fragoso R, Oliveira ML, Allen JR, Martins LR, Correia NC, Silveira AB, Veloso A, Kimura S, Demoen L, Matthijssens F, Jeha S, Cheng C, Pui CH, Grosso AR, Neto JL, De Almeida SF, Van Vlieberghe P, Mullighan CG, Yunes JA, Langenau DM, Pflumio F, Barata JT. (2023) CASZ1 upregulates PI3K-AKT-mTOR signaling and promotes T-cell acute lymphoblastic leukemia. Haematologica. URL
  • Pascoal C, Carrascal MA, Barreira DF, Lourenço RA, Granjo P, Grosso AR, Borralho P, Braga S, Videira PA. (2023) Sialyl LewisX/A and Cytokeratin Crosstalk in Triple Negative Breast Cancer. Cancers (Basel). 15(3):731. URL
  • Peixoto C, Lopes MB, Martins M, Casimiro S, Sobral D, Grosso AR, Abreu C, Macedo D, Costa AL, Pais H, Alvim C, Mansinho A, Filipe P, Costa PMD, Fernandes A, Borralho P, Ferreira C, Malaquias J, Quintela A, Kaplan S, Golkaram M, Salmans M, Khan N, Vijayaraghavan R, Zhang S, Pawlowski T, Godsey J, So A, Liu L, Costa L, Vinga S. (2023) Identification of biomarkers predictive of metastasis development in early-stage colorectal cancer using network-based regularization. BMC Bioinformatics. 24(1):17. URL

2022

  • Fidalgo MF, Fonseca CG, Caldas P, Raposo AA, Balboni T, Henao-Mišíková L, Grosso AR, Vasconcelos FF, Franco CA. (2022) Aerocyte specification and lung adaptation to breathing is dependent on alternative splicing changes. Life Sci Alliance. 5(12):e202201554. URL
  • Sobral D, Martins M, Kaplan S, Golkaram M, Salmans M, Khan N, Vijayaraghavan R, Casimiro S, Fernandes A, Borralho P, Ferreira C, Pinto R, Abreu C, Costa AL, Zhang S, Pawlowski T, Godsey J, Mansinho A, Macedo D, Lobo-Martins S, Filipe P, Esteves R, Coutinho J, Costa PM, Ramires A, Aldeia F, Quintela A, So A, Liu L, Grosso AR, Costa L. (2022) Genetic and microenvironmental intra-tumor heterogeneity impacts colorectal cancer evolution and metastatic development. Commun Biol; 5(1):937. URL
  • Sobral D, Francisco R, Duro L, Videira PA, Grosso AR. (2022) Concerted Regulation of Glycosylation Factors Sustains Tissue Identity and Function. Biomedicines;10(8):1805. URL
  • Moutinho Cabral I, Madeira C, Grosso AR, Costa PM. (2022) A drug discovery approach based on comparative transcriptomics between two toxin-secreting marine annelids: Glycera alba and Hediste diversicolor. Mol Omics. URL
  • Ong YT, Andrade J, Armbruster M, Shi C, Castro M, Costa ASH, Sugino T, Eelen G, Zimmermann B, Wilhelm K, Lim J, Watanabe S, Guenther S, Schneider A, Zanconato F, Kaulich M, Pan D, Braun T, Gerhardt H, Efeyan A, Carmeliet P, Piccolo S, Grosso AR, Potente M. (2022) A YAP/TAZ-TEAD signalling module links endothelial nutrient acquisition to angiogenic growth. Nat Metab; 4(6):672-682. URL
  • Rodrigo AP, Lopes A, Pereira R, Anjo SI, Manadas B, Grosso AR, Baptista PV, Fernandes AR, Costa PM. (2022) Endogenous Fluorescent Proteins in the Mucus of an Intertidal Polychaeta: Clues for Biotechnology. Mar Drugs ;20(4):224. URL
  • Sabino JC, de Almeida MR, Abreu PL, Ferreira AM, Caldas P, Domingues MM, Santos NC, Azzalin CM, Grosso AR, de Almeida SF. (2022) Epigenetic reprogramming by TET enzymes impacts co-transcriptional R-loops, eLIFE, 22;11:e69476. URL

2021

  • Almeida ARM, Neto JL, Cachucho A, Euzébio M, Meng X, Kim R, Fernandes MB, Raposo B, Oliveira ML, Ribeiro D, Fragoso R, Zenatti PP, Soares T, de Matos MR, Corrêa JR, Duque M, Roberts KG, Gu Z, Qu C, Pereira C, Pyne S, Pyne NJ, Barreto VM, Bernard-Pierrot I, Clappier E, Mullighan CG, Grosso AR, Yunes JA, Barata JT (2021) Interleukin-7 receptor α mutational activation can initiate precursor B-cell acute lymphoblastic leukemia, Nature Communications, 12(1):7268 URL
  • Pinto R, Sobral D, Grosso AR (2021) Comprehensive Detection of Pseudogenes Transcribed by Readthrough. In Poliseno L. (Ed) Pseudogenes: Functions and Protocols, Humana Press, New York, NY, pp. 85-102, Online ISBN: 978-1-0716-1503-4 URL
  • Silva AP, Almeida ARM, Cachucho A, Neto JL, Demeyer S, Ramos de Matos M, Hogan T, Li Y, Meijerink JP, Cools J, Grosso AR, Seddon B, Barata JT. (2021) Overexpression of wild type IL-7Rα promotes T-cell acute lymphoblastic leukemia/lymphoma, Blood, 138(12):1040-1052, URL
  • Andrade J, Shi C, Costa ASH, Choi J, Kim J, Doddaballapur A, Sugino T, Ong YT, Castro M, Zimmermann B, Kaulich M, Guenther S, Wilhelm K, Kubota Y, Braun T, Koh GY, Grosso AR, Frezza C, Potente M. (2021) Control of endothelial quiescence by FOXO-regulated metabolites, Nature Cell Biology, 23(4):413-423. URL 
  • Povoa V, Almeida CR, Maia-Gil M, Sobral D, Domingues M, Martinez-Lopez M, Fuzeta MA, Silva C, Grosso AR, Fior R (2021) Innate immune evasion revealed in a colorectal zebrafish xenograft model, Nature Communications, 12(1156).  URL
  • Rodrigo AP, Grosso AR, Baptista PV, Fernandes AR, Costa PM (2021) A Transcriptomic Approach to the Recruitment of Venom Proteins in a Marine Annelid, Toxins, 13(2):97.  URL
  • Rodrigo AP, Mendes VM, Manadas B, Grosso AR, Matos APA, Baptista PV, Costa PM, Fernandes AR (2021) Specific Antiproliferative Properties of Proteinaceous Toxin Secretions from the Marine Annelid Eulalia sp. onto Ovarian Cancer Cells, Marine Drugs, 19(1):31.  URL

2020

  • Francisco R, Pascoa C, Marques-da-Silva D, Brasil S, Pimentel-Santos FM, Altassan R, Jaeken J, Grosso AR, Ferreira VR, Videira PA (2020) New Insights into Immunological Involvement in Congenital Disorders of Glycosylation (CDG) from a People-Centric Approach, Journal of Clinical Medicine, 9(7).  URL
  • Prudêncio P, Rebelo K, Grosso AR, Martinho RG, Carmo-Fonseca M (2020) Analysis of Mammalian Native Elongating Transcript sequencing (mNET-seq) high-throughput data, Methods, S1046-2023(18)30484-5. URL

2019

  • Cunha M, Martins C, Grosso AR, Costa PM. (2019) Mytilus galloprovincialis CYP1A-like mRNAs reveal closer proximity of mytilid CYP1A to the eumetazoan CYP2 family. Aquat Toxicol., 214:105260. URL
  • Matos MR, Posa I, Carvalho FS, Morais VA, Grosso AR, de Almeida SF. (2019) A Systematic Pan-Cancer Analysis of Genetic Heterogeneity Reveals Associations with Epigenetic Modifiers. Cancers, 11 (3). URL
  • Vítor AC, Sridhara SC, Sabino JC, Afonso AI, Grosso AR, Martin RM and de Almeida SF (2019) Single-molecule imaging of transcription at damaged chromatin. Science Advances; Vol. 5, no. 1, eaau1249. URL

2018

  • Nojima T, Rebelo K, Gomes T, Grosso AR, Proudfoot NJ, Carmo-Fonseca M. (2018) RNA Polymerase II Phosphorylated on CTD Serine 5 Interacts with the Spliceosome during Co-transcriptional Splicing. Molecular Cell; 72(2):369-79. URL

Older Publications

2017

  • Bonnet A, Grosso AR, Elkaoutari A, Coleno E, Presle A, Sridhara SC, Janbon G, Geli V, de Almeida SF, Palancade B. (2017) Introns Protect Eukaryotic Genomes from Transcription-Associated Genetic Instability. Molecular Cell. 67(4):1-14. URL
  • Mancio-Silva L, Slavic K, Ruivo MG, Grosso AR, Modrzynska KK, Vera IM, Sales-dias J, Gomes AR, Macpherson CR, Crozet P, Adamo M, Baena-gonzalez E, Tewari R, Llinás M, Billker O, Mota MM. (2017) Nutrient sensing modulates malaria parasite virulence. Nature. 547(7662):213-216 URL
  • Sridhara SC, Carvalho S, Grosso AR, Marcela L, Carmo-fonseca M, de Almeida SF. (2017) Transcription Dynamics Prevent RNA-Mediated Genomic Instability through SRPK2-Dependent DDX23 Phohsphorylation. Cell Reports. 18(2):334-43. URL

2016

  • Posa I, Carvalho S, Tavares J, Grosso AR. (2016) A pan-cancer analysis of MYC-PVT1 reveals CNV-unmediated deregulation and poor prognosis in renal carcinoma.Oncotarget. 7(30):47033-47041. URL
  • Muñoz-ruiz M, Ribot JC, Grosso AR, Gonçalves-sousa N, Pamplona A, Pennington DJ, Regueiro JR, Fernández-malavé E, Silva-santos B. (2016) TCR signal strength controls thymic differentiation of discrete proinflammatory γδT cell subsets. Nature immunology. 17(6):721-727. URL
  • Jesus T , Grosso AR, Almeida-Val VM, Coelho MM. (2016) Transcriptome profiling of two Iberian freshwater fish exposed to thermal stress. Journal of Thermal Biology. 2016;55:54-61. URL

2015

  • Nojima T, Gomes T, Grosso AR, Kimura H, Dye M , Dhir S, Carmo-fonseca M, Proudfoot N . (2015) Mammalian NET-Seq Reveals Genome-wide Nascent Transcription Coupled to RNA Processing. Cell. 2015;161:526-40. URL
  • Veigas B, Pedrosa P, Carlos FF, Mancio-Silva L, Grosso AR, Fortunato E, Mota MM, Baptista PV. (2015) One nanoprobe, two pathogens: gold nanoprobes multiplexing for point-of-care. Journal of Nanobiotechnology. 2015;13:48. URL
  • Grosso AR, Leite AP, Carvalho S, Matos MR, Martins FB, Vítor AC, Desterro JM, Carmo-fonseca M, de Almeida SF. (2015) Pervasive transcription read-through promotes aberrant expression of oncogenes and RNA chimeras in renal carcinoma. eLife. 2015;4:e09214. URL

2014

  • Dourado CG, Duarte MA, Grosso AR, Bastos-Silveira C, Marrero P, Oliveira P, Paulo OS, Dias D. (2014) Phylogenetic origin of the endemic pigeons from Madeira (Columba trocaz) and Azores Islands (Columba palumbus azorica). Journal of Ornithology. 2014;155:71-82.

2013

  • Schmolka N, Serre K, Grosso AR, Rei M, Pennington DJ, Gomes AQ, Silva-santos B. (2013) Epigenetic and transcriptional signatures of stable versus plastic differentiation of proinflammatory γδT cell subsets. Nature immunology. 14:1093-100. URL
  • Rodrigues R, Grosso AR, Moita L. (2013) Genome-wide analysis of alternative splicing during dendritic cell response to a bacterial challenge. PloS one. 8:e61975. URL
  • Carvalho S, Raposo AC, Martins FB, Grosso AR, Sridhara SC, Rino J, Carmo-fonseca M, de Almeida SF. (2013) Histone methyltransferase SETD2 coordinates FACT recruitment with nucleosome dynamics during transcription. Nucleic acids research. 41:2881-93. URL
  • Lanca T, Costa MF, Goncalves-Sousa N, Rei M, Grosso AR, Penido C, Silva-Santos B. (2013) Protective role of the inflammatory CCR2/CCL2 chemokine pathway through recruitment of type 1 cytotoxic γδ T lymphocytes to tumor beds. J Immunol. 190:6673-80. URL

2012

  • Grosso AR, de Almeida SF, Braga J, Carmo-fonseca M (2012) Dynamic transitions in RNA polymerase II density profiles during transcription termination. Genome research. 22:1447-56. URL

2011

  • de Almeida SF, Grosso AR, Koch F, Fenouil R, Carvalho S, Andrade J, Levezinho H, Gut M, Eick D, Gut I, Andrau J-, Ferrier P, Carmo-fonseca M. (2011) Splicing enhances recruitment of methyltransferase HYPB/Setd2 and methylation of histone H3 Lys36. Nature structural & molecular biology. 2011;18:977-83. URL

2010

  • Gomes AQ, Correia DV, Grosso AR, Lança T, Ferreira C, Lacerda JF, Barata JT, da Silva MG, Silva-santos B. (2010) Identification of a panel of ten cell surface protein antigens associated with immunotargeting of leukemias and lymphomas by peripheral blood γδT cells. Haematologica. 95:1397-404. URL
  • Mollet IG, Ben-Dov C, Felício-Silva D, Grosso AR, Eleutério P, Alves R, Staller R, Silva TS, Carmo-fonseca M. (2010) Unconstrained mining of transcript data reveals increased alternative splicing complexity in the human transcriptome. Nucleic Acids Research. 38:4740-54. URL

2009

  • Correia DV, D'Orey F, Cardoso BA, Lança T, Grosso AR, DeBarros A, Martins LR, Barata JT, Silva-santos B. (2009) Highly active microbial phosphoantigen induces rapid yet sustained MEK/Erk- and PI-3K/Akt-mediated signal transduction in anti-tumor human gammadelta T-cells. PloS one. 4:e5657.  URL
  • Albuquerque SS, Carret C, Grosso AR, Tarun AS, Peng X, Kappe SH, Prudêncio M, Mota MM. (2009) Host cell transcriptional profiling during malaria liver stage infection reveals a coordinated and sequential set of biological events. BMC Genomics. 10:270. URL

2008

  • Abrantes P, Dimopoulos G, Grosso AR, do Rosário VE, Silveira H. (2008) Chloroquine mediated modulation of Anopheles gambiae gene expression. PloS one. 3:e2587. URL
  • Grosso AR, Martins S, Carmo-fonseca M. (2008) The emerging role of splicing factors in cancer. EMBO Rep. 9:1087-93. URL
  • Grosso AR, Gomes AQ, Barbosa-Morais NL, Caldeira S, Thorne NP, Grech G, von Lindern M, Carmo-fonseca M. (2008) Tissue-specific splicing factor gene expression signatures. Nucl. Acids Res. 36:4823-32. URL