Works by Magalhães, João Pedro de

Results: 76

Sex-specific insights into drug-induced lifespan extension and weight loss in mice.

Published in:

NPJ Aging, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41514-025-00229-w

By:

Belikov, Aleksey V.;
Talay, Angelo;
de Magalhães, João Pedro

Publication type:

Article

A Proposal to Sequence Genomes of Unique Interest for Research on Aging.

Published in:

Journals of Gerontology Series A: Biological Sciences & Medical Sciences, 2007, v. 62, n. 6, p. 583, doi. 10.1093/gerona/62.6.583

By:

De Magalhães, João Pedro;
Sedivy, John M.;
Finch, Caleb E.;
Austad, Steven N.;
Church, George M.

Publication type:

Article

An Analysis of the Relationship Between Metabolism, Developmental Schedules, and Longevity Using Phylogenetic Independent Contrasts.

Published in:

Journals of Gerontology Series A: Biological Sciences & Medical Sciences, 2007, v. 62, n. 2, p. 149, doi. 10.1093/gerona/62.2.149

By:

De Magalhães, João Pedro;
Costa, Joana;
Church, George M.

Publication type:

Article

Ecological, biomedical and epidemiological approaches to understanding oxidative balance and ageing: what they can teach each other.

Published in:

Functional Ecology, 2010, v. 24, n. 5, p. 997, doi. 10.1111/j.1365-2435.2010.01761.x

By:

Cohen, Alan A.;
de Magalhães, João Pedro;
Gohil, Kishorchandra

Publication type:

Article

Gene Size Matters: An Analysis of Gene Length in the Human Genome.

Published in:

Frontiers in Genetics, 2021, v. 11, p. N.PAG, doi. 10.3389/fgene.2021.559998

By:

Lopes, Inês;
Altab, Gulam;
Raina, Priyanka;
de Magalhães, João Pedro

Publication type:

Article

A multidimensional systems biology analysis of cellular senescence in aging and disease.

Published in:

Genome Biology, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s13059-020-01990-9

By:

Avelar, Roberto A.;
Ortega, Javier Gómez;
Tacutu, Robi;
Tyler, Eleanor J.;
Bennett, Dominic;
Binetti, Paolo;
Budovsky, Arie;
Chatsirisupachai, Kasit;
Johnson, Emily;
Murray, Alex;
Shields, Samuel;
Tejada-Martinez, Daniela;
Thornton, Daniel;
Fraifeld, Vadim E.;
Bishop, Cleo L.;
de Magalhães, João Pedro

Publication type:

Article

Transcriptomic analysis reveals a tissue-specific loss of identity during ageing and cancer.

Published in:

BMC Genomics, 2023, v. 24, n. 1, p. 1, doi. 10.1186/s12864-023-09756-w

By:

dos Santos, Gabriel Arantes;
Chatsirisupachai, Kasit;
Avelar, Roberto A.;
de Magalhães, João Pedro

Publication type:

Article

Human Disease-Associated Mitochondrial Mutations Fixed in Nonhuman Primates.

Published in:

Journal of Molecular Evolution, 2005, v. 61, n. 4, p. 491, doi. 10.1007/s00239-004-0258-6

By:

de Magalhães, João Pedro;
Kreitman, Martin

Publication type:

Article

Human Ageing Genomic Resources: Integrated databases and tools for the biology and genetics of ageing.

Published in:

Nucleic Acids Research, 2013, v. 41, p. D1027, doi. 10.1093/nar/gks1155

By:

Tacutu, Robi;
Craig, Thomas;
Budovsky, Arie;
Wuttke, Daniel;
Lehmann, Gilad;
Taranukha, Dmitri;
Costa, Joana;
Fraifeld, Vadim E.;
de Magalhães, João Pedro

Publication type:

Article

HAGR: the Human Ageing Genomic Resources.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 1, p. d537

By:

de Magalhães, João Pedro;
Costa, Joana;
Toussaint, Olivier

Publication type:

Article

Attention-based multi-label neural networks for integrated prediction and interpretation of twelve widely occurring RNA modifications.

Published in:

Nature Communications, 2021, v. 12, p. 1, doi. 10.1038/s41467-021-24313-3

By:

Song, Zitao;
Huang, Daiyun;
Song, Bowen;
Chen, Kunqi;
Song, Yiyou;
Liu, Gang;
Su, Jionglong;
Magalhães, João Pedro de;
Rigden, Daniel J.;
Meng, Jia

Publication type:

Article

The longevity bottleneck hypothesis: Could dinosaurs have shaped ageing in present‐day mammals?

Published in:

BioEssays, 2024, v. 46, n. 1, p. 1, doi. 10.1002/bies.202300098

By:

de Magalhães, João Pedro

Publication type:

Article

Genome-Wide Patterns of Genetic Distances Reveal Candidate Loci Contributing to Human Population-Specific Traits.

Published in:

Annals of Human Genetics, 2012, v. 76, n. 2, p. 142, doi. 10.1111/j.1469-1809.2011.00695.x

By:

de Magalhães, João Pedro;
Matsuda, Alex

Publication type:

Article

Histone Variant macroH2A1.1 Enhances Nonhomologous End Joining-dependent DNA Double-strand-break Repair and Reprogramming Efficiency of Human iPSCs.

Published in:

Stem Cells, 2022, v. 40, n. 1, p. 35, doi. 10.1093/stmcls/sxab004

By:

Giallongo, Sebastiano;
Řeháková, Daniela;
Biagini, Tommaso;
Re, Oriana Lo;
Raina, Priyanka;
Lochmanová, Gabriela;
Zdráhal, Zbyněk;
Resnick, Igor;
Pata, Pille;
Pata, Illar;
Mistrík, Martin;
Magalhães, João Pedro de;
Mazza, Tommaso;
Koutná, Irena;
Vinciguerra, Manlio

Publication type:

Article

Enhancing Epitranscriptome Module Detection from m6A-Seq Data Using Threshold-Based Measurement Weighting Strategy.

Published in:

BioMed Research International, 2018, v. 2018, p. 1, doi. 10.1155/2018/2075173

By:

Chen, Kunqi;
Wei, Zhen;
Liu, Hui;
Magalhães, João Pedro de;
Rong, Rong;
Lu, Zhiliang;
Meng, Jia

Publication type:

Article

Identifying Novel Osteoarthritis-Associated Genes in Human Cartilage Using a Systematic Meta-Analysis and a Multi-Source Integrated Network.

Published in:

2022

By:

Shorter, Emily;
Avelar, Roberto;
Zachariou, Margarita;
Spyrou, George M.;
Raina, Priyanka;
Smagul, Aibek;
Ashraf Kharaz, Yalda;
Peffers, Mandy;
Goljanek-Whysall, Kasia;
de Magalhães, João Pedro;
Poulet, Blandine

Publication type:

Literature Review

A comparison of human and mouse gene co-expression networks reveals conservation and divergence at the tissue, pathway and disease levels.

Published in:

BMC Evolutionary Biology, 2015, v. 15, p. 1, doi. 10.1186/s12862-015-0534-7

By:

Monaco, Gianni;
van Dam, Sipko;
Ribeiro, João Luis Casal Novo;
Larbi, Anis;
de Magalhães, João Pedro

Publication type:

Article

Structural brain preservation: a potential bridge to future medical technologies.

Published in:

Frontiers in Medical Technology, 2024, p. 01, doi. 10.3389/fmedt.2024.1400615

By:

McKenzie, Andrew T.;
Zeleznikow-Johnston, Ariel;
Sparks, Jordan S.;
Nnadi, Oge;
Smart, John;
Wiley, Keith;
Cerullo, Michael A.;
de Wolf, Aschwin;
Minerva, Francesca;
Risco, Ramón;
Church, George M.;
Pedro de Magalhães, João;
Kendziorra, Emil F.

Publication type:

Article

Trans cohort metabolic reprogramming towards glutaminolysis in long-term successfully treated HIV-infection.

Published in:

Communications Biology, 2022, v. 5, n. 1, p. 1, doi. 10.1038/s42003-021-02985-3

By:

Mikaeloff, Flora;
Svensson Akusjärvi, Sara;
Ikomey, George Mondinde;
Krishnan, Shuba;
Sperk, Maike;
Gupta, Soham;
Magdaleno, Gustavo Daniel Vega;
Escós, Alejandra;
Lyonga, Emilia;
Okomo, Marie Claire;
Tagne, Claude Tayou;
Babu, Hemalatha;
Lorson, Christian L.;
Végvári, Ákos;
Banerjea, Akhil C.;
Kele, Julianna;
Hanna, Luke Elizabeth;
Singh, Kamal;
de Magalhães, João Pedro;
Benfeitas, Rui

Publication type:

Article

ConsRM: collection and large-scale prediction of the evolutionarily conserved RNA methylation sites, with implications for the functional epitranscriptome.

Published in:

Briefings in Bioinformatics, 2021, v. 22, n. 6, p. 1, doi. 10.1093/bib/bbab088

By:

Song, Bowen;
Chen, Kunqi;
Tang, Yujiao;
Wei, Zhen;
Su, Jionglong;
Magalhães, João Pedro de;
Rigden, Daniel J;
Meng, Jia

Publication type:

Article

Comparing enrichment analysis and machine learning for identifying gene properties that discriminate between gene classes.

Published in:

Briefings in Bioinformatics, 2020, v. 21, n. 3, p. 803, doi. 10.1093/bib/bbz028

By:

Fabris, Fabio;
Palmer, Daniel;
Magalhães, João Pedro de;
Freitas, Alex A

Publication type:

Article

Gene co-expression analysis for functional classification and gene–disease predictions.

Published in:

Briefings in Bioinformatics, 2018, v. 19, n. 4, p. 575, doi. 10.1093/bib/bbw139

By:

Dam, Sipko van;
Võsa, Urmo;
van der Graaf, Adriaan;
Franke, Lude;
Magalhães, João Pedro de

Publication type:

Article

From humans to hydra: patterns of cancer across the tree of life.

Published in:

Biological Reviews, 2018, v. 93, n. 3, p. 1715, doi. 10.1111/brv.12415

By:

Albuquerque, Thales A. F.;
Drummond do Val, Luisa;
Doherty, Aoife;
de Magalhães, João Pedro

Publication type:

Article

Positive Selection and Enhancer Evolution Shaped Lifespan and Body Mass in Great Apes.

Published in:

Molecular Biology & Evolution, 2022, v. 39, n. 2, p. 1, doi. 10.1093/molbev/msab369

By:

Tejada-Martinez, Daniela;
Avelar, Roberto A;
Lopes, Inês;
Zhang, Bruce;
Novoa, Guy;
Magalhães, João Pedro de;
Trizzino, Marco

Publication type:

Article

Biological Processes Modulating Longevity across Primates: A Phylogenetic Genome-Phenome Analysis.

Published in:

Molecular Biology & Evolution, 2018, v. 35, n. 8, p. 1990, doi. 10.1093/molbev/msy105

By:

Muntané, Gerard;
Farré, Xavier;
Rodríguez, Juan Antonio;
Pegueroles, Cinta;
Hughes, David A;
Magalhães, João Pedro de;
Gabaldón, Toni;
Navarro, Arcadi

Publication type:

Article

m7GHub: deciphering the location, regulation and pathogenesis of internal mRNA N7-methylguanosine (m7G) sites in human.

Published in:

Bioinformatics, 2020, v. 36, n. 11, p. 3528, doi. 10.1093/bioinformatics/btaa178

By:

Song, Bowen;
Tang, Yujiao;
Chen, Kunqi;
Wei, Zhen;
Rong, Rong;
Lu, Zhiliang;
Su, Jionglong;
Magalhães, João Pedro de;
Rigden, Daniel J;
Meng, Jia

Publication type:

Article

Using deep learning to associate human genes with age-related diseases.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2202, doi. 10.1093/bioinformatics/btz887

By:

Fabris, Fabio;
Palmer, Daniel;
Salama, Khalid M;
Magalhães, João Pedro de;
Freitas, Alex A

Publication type:

Article

rflowAI: automatic and interactive anomaly discerning tools for flow cytometry data.

Published in:

Bioinformatics, 2016, v. 32, n. 16, p. 2473, doi. 10.1093/bioinformatics/btw191

By:

Monaco, Gianni;
Hao Chen;
Poidinger, Michael;
Jinmiao Chen;
de Magalhães, João Pedro;
Larbi, Anis

Publication type:

Article

The Naked Mole Rat Genome Resource: facilitating analyses of cancer and longevity-related adaptations.

Published in:

Bioinformatics, 2014, v. 30, n. 24, p. 3558, doi. 10.1093/bioinformatics/btu579

By:

Keane, Michael;
Craig, Thomas;
Alföldi, Jessica;
Berlin, Aaron M.;
Johnson, Jeremy;
Seluanov, Andrei;
Gorbunova, Vera;
Di Palma, Federica;
Lindblad-Toh, Kerstin;
Church, George M.;
de Magalhães, João Pedro

Publication type:

Article

Gathering insights on disease etiology from gene expression profiles of healthy tissues.

Published in:

Bioinformatics, 2011, v. 27, n. 23, p. 3300, doi. 10.1093/bioinformatics/btr559

By:

Silva, A. Sofia;
Wood, Shona H.;
van Dam, Sipko;
Berres, Sven;
McArdle, Anne;
de Magalhães, João Pedro

Publication type:

Article

Meta-analysis of age-related gene expression profiles identifies common signatures of aging.

Published in:

Bioinformatics, 2009, v. 25, n. 7, p. 875, doi. 10.1093/bioinformatics/btp073

By:

De Magalhães, João Pedro;
Curado, João;
Church, George M.

Publication type:

Article

Topological Characterization of Human and Mouse m5C Epitranscriptome Revealed by Bisulfite Sequencing.

Published in:

International Journal of Genomics, 2018, p. 1, doi. 10.1155/2018/1351964

By:

Wei, Zhen;
Panneerdoss, Subbarayalu;
Timilsina, Santosh;
Zhu, Jingting;
Mohammad, Tabrez A.;
Lu, Zhi-Liang;
de Magalhães, João Pedro;
Chen, Yidong;
Rong, Rong;
Huang, Yufei;
Rao, Manjeet K.;
Meng, Jia

Publication type:

Article

Cell divisions and mammalian aging: integrative biology insights from genes that regulate longevity.

Published in:

BioEssays, 2008, v. 30, n. 6, p. 567, doi. 10.1002/bies.20760

By:

de Magalhães, João Pedro;
Faragher, Richard G. A.

Publication type:

Article

Reductions in hypothalamic Gfap expression, glial cells and α-tanycytes in lean and hypermetabolic Gnasxl-deficient mice.

Published in:

Molecular Brain, 2016, v. 9, p. 1, doi. 10.1186/s13041-016-0219-1

By:

Holmes, Andrew P.;
Shi Quan Wong;
Pulix, Michela;
Johnson, Kirsty;
Horton, Niamh S.;
Thomas, Patricia;
de Magalhães, João Pedro;
Plagge, Antonius

Publication type:

Article

Osh6 links yeast vacuolar functions to lifespan extension and TOR.

Published in:

Cell Cycle, 2012, v. 11, n. 13, p. 2419, doi. 10.4161/cc.21069

By:

Wuttke, Daniel;
De Magalhães, João Pedro

Publication type:

Article

GenAge: a genomic and proteomic network map of human ageing

Published in:

FEBS Letters, 2004, v. 571, n. 1-3, p. 243, doi. 10.1016/j.febslet.2004.07.006

By:

de Magalhães, João Pedro;
Toussaint, Olivier

Publication type:

Article

GeneFriends: An online co-expression analysis tool to identify novel gene targets for aging and complex diseases.

Published in:

BMC Genomics, 2012, v. 13, n. 1, p. 535, doi. 10.1186/1471-2164-13-535

By:

van Dam, Sipko;
Cordeiro, Rui;
Craig, Thomas;
van Dam, Jesse;
Wood, Shona H.;
de Magalhães, João Pedro

Publication type:

Article

Winter is coming: the future of cryopreservation.

Published in:

2021

By:

Bojic, Sanja;
Murray, Alex;
Bentley, Barry L.;
Spindler, Ralf;
Pawlik, Piotr;
Cordeiro, José L.;
Bauer, Roman;
de Magalhães, João Pedro

Publication type:

Literature Review

Transcriptomics age acceleration in prolonged treated HIV infection.

Published in:

Aging Cell, 2023, v. 22, n. 10, p. 1, doi. 10.1111/acel.13951

By:

Mikaeloff, Flora;
Gelpi, Marco;
Escos, Alejandra;
Knudsen, Andreas D.;
Høgh, Julie;
Benfield, Thomas;
de Magalhães, João Pedro;
Nielsen, Susanne D.;
Neogi, Ujjwal

Publication type:

Article

Rilmenidine extends lifespan and healthspan in Caenorhabditis elegans via a nischarin I1‐imidazoline receptor.

Published in:

Aging Cell, 2023, v. 22, n. 2, p. 1, doi. 10.1111/acel.13774

By:

Bennett, Dominic F.;
Goyala, Anita;
Statzer, Cyril;
Beckett, Charles W.;
Tyshkovskiy, Alexander;
Gladyshev, Vadim N.;
Ewald, Collin Y.;
de Magalhães, João Pedro

Publication type:

Article

Sex-specific aging in animals: Perspective and future directions.

Published in:

Aging Cell, 2022, v. 21, n. 2, p. 1, doi. 10.1111/acel.13542

By:

Bronikowski, Anne M.;
Meisel, Richard P.;
Biga, Peggy R.;
Walters, James R.;
Mank, Judith E.;
Larschan, Erica;
Wilkinson, Gerald S.;
Valenzuela, Nicole;
Conard, Ashley Mae;
de Magalhães, João Pedro;
Duan, Jingyue (Ellie);
Elias, Amy E.;
Gamble, Tony;
Graze, Rita M.;
Gribble, Kristin E.;
Kreiling, Jill A.;
Riddle, Nicole C.

Publication type:

Article

Mitochondrially encoded methionine is inversely related to longevity in mammals.

Published in:

Aging Cell, 2011, v. 10, n. 2, p. 198, doi. 10.1111/j.1474-9726.2010.00657.x

By:

Aledo, Juan Carlos;
Li, Yang;
de Magalhães, João Pedro;
Ruíz-Camacho, Manuel;
Pérez-Claros, Juan Antonio

Publication type:

Article

The Human Ageing Genomic Resources: online databases and tools for biogerontologists.

Published in:

Aging Cell, 2009, v. 8, n. 1, p. 65, doi. 10.1111/j.1474-9726.2008.00442.x

By:

de Magalhães, João Pedro;
Budovsky, Arie;
Lehmann, Gilad;
Costa, Joana;
Li, Yang;
Fraifeld, Vadim;
Church, George M.

Publication type:

Article

Intercellular communication analysis of the human retinal pigment epithelial and choroidal cells predicts pathways associated with aging, cellular senescence and age-related macular degeneration.

Published in:

Frontiers in Aging Neuroscience, 2022, v. 14, p. 1, doi. 10.3389/fnagi.2022.1016293

By:

Dhirachaikulpanich, Dhanach;
Lagger, Cyril;
Chatsirisupachai, Kasit;
de Magalhães, João Pedro;
Paraoan, Luminita

Publication type:

Article

Human Ageing Genomic Resources: updates on key databases in ageing research.

Published in:

Nucleic Acids Research, 2024, v. 52, n. D1, p. D900, doi. 10.1093/nar/gkad927

By:

de Magalhães, João Pedro;
Abidi, Zoya;
dos Santos, Gabriel Arantes;
Avelar, Roberto A;
Barardo, Diogo;
Chatsirisupachai, Kasit;
Clark, Peter;
De-Souza, Evandro A;
Johnson, Emily J;
Lopes, Inês;
Novoa, Guy;
Senez, Ludovic;
Talay, Angelo;
Thornton, Daniel;
To, Paul Ka Po

Publication type:

Article

m7GHub V2.0: an updated database for decoding the N7-methylguanosine (m7G) epitranscriptome.

Published in:

Nucleic Acids Research, 2024, v. 52, n. D1, p. D203, doi. 10.1093/nar/gkad789

By:

Wang, Xuan;
Zhang, Yuxin;
Chen, Kunqi;
Liang, Zhanmin;
Ma, Jiongming;
Xia, Rong;
de Magalhães, João Pedro;
Rigden, Daniel J;
Meng, Jia;
Song, Bowen

Publication type:

Article

RMDisease V2.0: an updated database of genetic variants that affect RNA modifications with disease and trait implication.

Published in:

Nucleic Acids Research, 2023, v. 51, n. D1, p. D1388, doi. 10.1093/nar/gkac750

By:

Song, Bowen;
Wang, Xuan;
Liang, Zhanmin;
Ma, Jiongming;
Huang, Daiyun;
Wang, Yue;
de Magalhães, João Pedro;
Rigden, Daniel J;
Meng, Jia;
Liu, Gang;
Chen, Kunqi;
Wei, Zhen

Publication type:

Article

DirectRMDB: a database of post-transcriptional RNA modifications unveiled from direct RNA sequencing technology.

Published in:

Nucleic Acids Research, 2023, v. 51, n. D1, p. D106, doi. 10.1093/nar/gkac1061

By:

Zhang, Yuxin;
Jiang, Jie;
Ma, Jiongming;
Wei, Zhen;
Wang, Yue;
Song, Bowen;
Meng, Jia;
Jia, Guifang;
de Magalhães, João Pedro;
Rigden, Daniel J;
Hang, Daiyun;
Chen, Kunqi

Publication type:

Article

GeneFriends: gene co-expression databases and tools for humans and model organisms.

Published in:

Nucleic Acids Research, 2023, v. 51, n. D1, p. D145, doi. 10.1093/nar/gkac1031

By:

Raina, Priyanka;
Guinea, Rodrigo;
Chatsirisupachai, Kasit;
Lopes, Inês;
Farooq, Zoya;
Guinea, Cristina;
Solyom, Csaba-Attila;
de Magalhães, João Pedro

Publication type:

Article

Geographic encoding of transcripts enabled high-accuracy and isoform-aware deep learning of RNA methylation.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 18, p. 10290, doi. 10.1093/nar/gkac830

By:

Huang, Daiyun;
Chen, Kunqi;
Song, Bowen;
Wei, Zhen;
Su, Jionglong;
Coenen, Frans;
de Magalhães, João Pedro;
Rigden, Daniel J;
Meng, Jia

Publication type:

Article