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Select item 91459611.

Does Glyphosate Affect the Human Microbiota?

Pere Puigbò, Lyydia I. Leino, Miia J. Rainio, Kari Saikkonen, Irma Saloniemi, Marjo Helander

Life (Basel) 2022 May; 12(5): 707. Published online 2022 May 9. doi: 10.3390/life12050707

PMCID:: PMC9145961

Article PubReader PDF–1023K Cite

Select item 86579542.

Alterations in Metabolome and Microbiome Associated with an Early Stress Stage in Male Wistar Rats: A Multi-Omics Approach

Julia Hernandez-Baixauli, Pere Puigbò, Nerea Abasolo, Hector Palacios-Jordan, Elisabet Foguet-Romero, David Suñol, Mar Galofré, Antoni Caimari, Laura Baselga-Escudero, Josep M. Del Bas, Miquel Mulero

Int J Mol Sci. 2021 Dec; 22(23): 12931. Published online 2021 Nov 29. doi: 10.3390/ijms222312931

PMCID:: PMC8657954

Article PubReader PDF–4.5M Cite

Select item 79229513.

A Pilot Study for Metabolic Profiling of Obesity-Associated Microbial Gut Dysbiosis in Male Wistar Rats

Julia Hernandez-Baixauli, Pere Puigbò, Helena Torrell, Hector Palacios-Jordan, Vicent J. Ribas Ripoll, Antoni Caimari, Josep M Del Bas, Laura Baselga-Escudero, Miquel Mulero

Biomolecules. 2021 Feb; 11(2): 303. Published online 2021 Feb 18. doi: 10.3390/biom11020303

PMCID:: PMC7922951

Article PubReader PDF–1.9M Cite

Select item 56310394.

Inevitability of Genetic Parasites

Jaime Iranzo, Pere Puigbò, Alexander E. Lobkovsky, Yuri I. Wolf, Eugene V. Koonin

Genome Biol Evol. 2016 Sep; 8(9): 2856–2869. Published online 2016 Aug 8. doi: 10.1093/gbe/evw193

PMCID:: PMC5631039

Article PubReader PDF–447K Cite

Select item 41660005.

Genomes in turmoil: quantification of genome dynamics in prokaryote supergenomes

Pere Puigbò, Alexander E Lobkovsky, David M Kristensen, Yuri I Wolf, Eugene V Koonin

BMC Biol. 2014; 12: 66. Published online 2014 Aug 21. doi: 10.1186/s12915-014-0066-4

PMCID:: PMC4166000

Article PubReader PDF–2.4M Cite

Select item 36269086.

Seeing the Tree of Life behind the phylogenetic forest

Pere Puigbò, Yuri I Wolf, Eugene V Koonin

BMC Biol. 2013; 11: 46. Published online 2013 Apr 15. doi: 10.1186/1741-7007-11-46

PMCID:: PMC3626908

Article PubReader PDF–335K Cite

Select item 38426197.

GENOME-WIDE COMPARATIVE ANALYSIS OF PHYLOGENETIC TREES: THE PROKARYOTIC FOREST OF LIFE

Pere Puigbò, Yuri I. Wolf, Eugene V. Koonin

Methods Mol Biol. Author manuscript; available in PMC 2013 Nov 28.

Published in final edited form as: Methods Mol Biol. 2012; 856: 10.1007/978-1-61779-585-5_3. doi: 10.1007/978-1-61779-585-5_3

PMCID:: PMC3842619

Article PubReader PDF–2.6M Cite

Select item 31235308.

Comparison of Phylogenetic Trees and Search for a Central Trend in the “Forest of Life”

Eugene V. Koonin, Pere Puigbò, Yuri I. Wolf

J Comput Biol. 2011 Jul; 18(7): 917–924. doi: 10.1089/cmb.2010.0185

PMCID:: PMC3123530

Article PubReader PDF–991K Cite

Select item 29912639.

Glycosylation Focuses Sequence Variation in the Influenza A Virus H1 Hemagglutinin Globular Domain

Suman R. Das, Pere Puigbò, Scott E. Hensley, Darrell E. Hurt, Jack R. Bennink, Jonathan W. Yewdell

PLoS Pathog. 2010 Nov; 6(11): e1001211. Published online 2010 Nov 24. doi: 10.1371/journal.ppat.1001211

PMCID:: PMC2991263

Article PubReader PDF–1.4M Cite

Select item 299756410.

The Tree and Net Components of Prokaryote Evolution

Pere Puigbò, Yuri I. Wolf, Eugene V. Koonin

Genome Biol Evol. 2010; 2: 745–756. Published online 2010 Oct 1. doi: 10.1093/gbe/evq062

PMCID:: PMC2997564

Article PubReader PDF–1.7M Cite

Select item 285355011.

RCDI/eRCDI: a web-server to estimate codon usage deoptimization

Pere Puigbò, Lluís Aragonès, Santiago Garcia-Vallvé

BMC Res Notes. 2010; 3: 87. Published online 2010 Mar 31. doi: 10.1186/1756-0500-3-87

PMCID:: PMC2853550

Article PubReader PDF–475K Cite

Select item 255376912.

CAIcal: A combined set of tools to assess codon usage adaptation

Pere Puigbò, Ignacio G Bravo, Santiago Garcia-Vallve

Biol Direct. 2008; 3: 38. Published online 2008 Sep 16. doi: 10.1186/1745-6150-3-38

PMCID:: PMC2553769

Article PubReader PDF–582K Cite

Select item 224615613.

E-CAI: a novel server to estimate an expected value of Codon Adaptation Index (eCAI)

Pere Puigbò, Ignacio G Bravo, Santiago Garcia-Vallvé

BMC Bioinformatics. 2008; 9: 65. Published online 2008 Jan 29. doi: 10.1186/1471-2105-9-65

PMCID:: PMC2246156

Article PubReader PDF–271K Cite

Select item 225507114.

Towards reconstructing a metabolic tree of life

Marina Marcet-Houben, Pere Puigbò, Antoni Romeu, Santiago Garcia-Vallve

Bioinformation. 2007; 2(4): 135–144. Published online 2007 Dec 11. doi: 10.6026/97320630002135

PMCID:: PMC2255071

Article PubReader PDF–130K Cite

Select item 973610715.

Prediction of Recurrent Mutations in SARS-CoV-2 Using Artificial Neural Networks

Bryan Saldivar-Espinoza, Guillem Macip, Pol Garcia-Segura, Júlia Mestres-Truyol, Pere Puigbò, Adrià Cereto-Massagué, Gerard Pujadas, Santiago Garcia-Vallve

Int J Mol Sci. 2022 Dec; 23(23): 14683. Published online 2022 Nov 24. doi: 10.3390/ijms232314683

PMCID:: PMC9736107

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Select item 939440816.

Rethinking the Intrinsic Sensitivity of Fungi to Glyphosate

Tuomas Tall, Pere Puigbò

BioTech (Basel) 2022 Sep; 11(3): 28. Published online 2022 Jul 26. doi: 10.3390/biotech11030028

PMCID:: PMC9394408

Article PubReader PDF–955K Cite

Select item 895443617.

Why Is the UAG (Amber) Stop Codon Almost Absent in Highly Expressed Bacterial Genes?

Dominique Belin, Pere Puigbò

Life (Basel) 2022 Mar; 12(3): 431. Published online 2022 Mar 16. doi: 10.3390/life12030431

PMCID:: PMC8954436

Article PubReader PDF–1.2M Cite

Select item 815710518.

An Unsupervised Algorithm for Host Identification in Flaviviruses

Phuoc Truong Nguyen, Santiago Garcia-Vallvé, Pere Puigbò

Life (Basel) 2021 May; 11(5): 442. Published online 2021 May 14. doi: 10.3390/life11050442

PMCID:: PMC8157105

Article PubReader PDF–982K Cite

Select item 617890219.

Six-Week Endurance Exercise Alters Gut Metagenome That Is not Reflected in Systemic Metabolism in Over-weight Women

Eveliina Munukka, Juha P. Ahtiainen, Pere Puigbó, Sirpa Jalkanen, Katja Pahkala, Anniina Keskitalo, Urho M. Kujala, Sami Pietilä, Maija Hollmén, Laura Elo, Pentti Huovinen, Giuseppe D'Auria, Satu Pekkala

Front Microbiol. 2018; 9: 2323. Published online 2018 Oct 3. doi: 10.3389/fmicb.2018.02323