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Items: 28

1.

Evolution of the gut microbiome following acute HIV-1 infection.

Rocafort M, Noguera-Julian M, Rivera J, Pastor L, Guillén Y, Langhorst J, Parera M, Mandomando I, Carrillo J, Urrea V, Rodríguez C, Casadellà M, Calle ML, Clotet B, Blanco J, Naniche D, Paredes R.

Microbiome. 2019 May 11;7(1):73. doi: 10.1186/s40168-019-0687-5.

2.

Statistical Analysis of Metagenomics Data.

Calle ML.

Genomics Inform. 2019 Mar;17(1):e6. doi: 10.5808/GI.2019.17.1.e6. Epub 2019 Mar 31.

3.

Challenges in the Integration of Omics and Non-Omics Data.

López de Maturana E, Alonso L, Alarcón P, Martín-Antoniano IA, Pineda S, Piorno L, Calle ML, Malats N.

Genes (Basel). 2019 Mar 20;10(3). pii: E238. doi: 10.3390/genes10030238. Review.

4.

Low nadir CD4+ T-cell counts predict gut dysbiosis in HIV-1 infection.

Guillén Y, Noguera-Julian M, Rivera J, Casadellà M, Zevin AS, Rocafort M, Parera M, Rodríguez C, Arumí M, Carrillo J, Mothe B, Estany C, Coll J, Bravo I, Herrero C, Saz J, Sirera G, Torrella A, Navarro J, Crespo M, Negredo E, Brander C, Blanco J, Calle ML, Klatt NR, Clotet B, Paredes R.

Mucosal Immunol. 2019 Jan;12(1):232-246. doi: 10.1038/s41385-018-0083-7. Epub 2018 Aug 31.

PMID:
30171206
5.

Balances: a New Perspective for Microbiome Analysis.

Rivera-Pinto J, Egozcue JJ, Pawlowsky-Glahn V, Paredes R, Noguera-Julian M, Calle ML.

mSystems. 2018 Jul 17;3(4). pii: e00053-18. doi: 10.1128/mSystems.00053-18. eCollection 2018 Jul-Aug.

6.

Impact of HLA-DRB1 allele polymorphisms on control of HIV infection in a Peruvian MSM cohort.

Oriol-Tordera B, Llano A, Ganoza C, Cate S, Hildebrand W, Sanchez J, Calle ML, Brander C, Olvera A.

HLA. 2017 Oct;90(4):234-237. doi: 10.1111/tan.13085. Epub 2017 Jul 5.

PMID:
28677168
7.

Efficient and Powerful Method for Combining P-Values in Genome-Wide Association Studies.

Vilor-Tejedor N, Gonzalez JR, Calle ML.

IEEE/ACM Trans Comput Biol Bioinform. 2016 Nov;13(6):1100-1106. doi: 10.1109/TCBB.2015.2509977. Epub 2015 Dec 22.

PMID:
28055892
8.

Comprehensive Transcriptional Analysis of Early-Stage Urothelial Carcinoma.

Hedegaard J, Lamy P, Nordentoft I, Algaba F, Høyer S, Ulhøi BP, Vang S, Reinert T, Hermann GG, Mogensen K, Thomsen MBH, Nielsen MM, Marquez M, Segersten U, Aine M, Höglund M, Birkenkamp-Demtröder K, Fristrup N, Borre M, Hartmann A, Stöhr R, Wach S, Keck B, Seitz AK, Nawroth R, Maurer T, Tulic C, Simic T, Junker K, Horstmann M, Harving N, Petersen AC, Calle ML, Steyerberg EW, Beukers W, van Kessel KEM, Jensen JB, Pedersen JS, Malmström PU, Malats N, Real FX, Zwarthoff EC, Ørntoft TF, Dyrskjøt L.

Cancer Cell. 2016 Jul 11;30(1):27-42. doi: 10.1016/j.ccell.2016.05.004. Epub 2016 Jun 16.

9.

Gut Microbiota Linked to Sexual Preference and HIV Infection.

Noguera-Julian M, Rocafort M, Guillén Y, Rivera J, Casadellà M, Nowak P, Hildebrand F, Zeller G, Parera M, Bellido R, Rodríguez C, Carrillo J, Mothe B, Coll J, Bravo I, Estany C, Herrero C, Saz J, Sirera G, Torrela A, Navarro J, Crespo M, Brander C, Negredo E, Blanco J, Guarner F, Calle ML, Bork P, Sönnerborg A, Clotet B, Paredes R.

EBioMedicine. 2016 Jan 28;5:135-46. doi: 10.1016/j.ebiom.2016.01.032. eCollection 2016 Mar.

10.

Global adaptive rank truncated product method for gene-set analysis in association studies.

Vilor-Tejedor N, Calle ML.

Biom J. 2014 Sep;56(5):901-11. doi: 10.1002/bimj.201300192. Epub 2014 Aug 1.

PMID:
25082012
11.

Risk prediction scores for recurrence and progression of non-muscle invasive bladder cancer: an international validation in primary tumours.

Vedder MM, Márquez M, de Bekker-Grob EW, Calle ML, Dyrskjøt L, Kogevinas M, Segersten U, Malmström PU, Algaba F, Beukers W, Ørntoft TF, Zwarthoff E, Real FX, Malats N, Steyerberg EW.

PLoS One. 2014 Jun 6;9(6):e96849. doi: 10.1371/journal.pone.0096849. eCollection 2014.

12.

Genetic variation in the TP53 pathway and bladder cancer risk. a comprehensive analysis.

Pineda S, Milne RL, Calle ML, Rothman N, López de Maturana E, Herranz J, Kogevinas M, Chanock SJ, Tardón A, Márquez M, Guey LT, García-Closas M, Lloreta J, Baum E, González-Neira A, Carrato A, Navarro A, Silverman DT, Real FX, Malats N.

PLoS One. 2014 May 12;9(5):e89952. doi: 10.1371/journal.pone.0089952. eCollection 2014.

13.

Whole genome prediction of bladder cancer risk with the Bayesian LASSO.

de Maturana EL, Chanok SJ, Picornell AC, Rothman N, Herranz J, Calle ML, García-Closas M, Marenne G, Brand A, Tardón A, Carrato A, Silverman DT, Kogevinas M, Gianola D, Real FX, Malats N.

Genet Epidemiol. 2014 Jul;38(5):467-76. doi: 10.1002/gepi.21809. Epub 2014 May 5.

PMID:
24796258
14.

Application of multi-SNP approaches Bayesian LASSO and AUC-RF to detect main effects of inflammatory-gene variants associated with bladder cancer risk.

de Maturana EL, Ye Y, Calle ML, Rothman N, Urrea V, Kogevinas M, Petrus S, Chanock SJ, Tardón A, García-Closas M, González-Neira A, Vellalta G, Carrato A, Navarro A, Lorente-Galdós B, Silverman DT, Real FX, Wu X, Malats N.

PLoS One. 2013 Dec 31;8(12):e83745. doi: 10.1371/journal.pone.0083745. eCollection 2013.

15.

An efficient algorithm to perform multiple testing in epistasis screening.

Van Lishout F, Mahachie John JM, Gusareva ES, Urrea V, Cleynen I, Théâtre E, Charloteaux B, Calle ML, Wehenkel L, Van Steen K.

BMC Bioinformatics. 2013 Apr 24;14:138. doi: 10.1186/1471-2105-14-138.

16.

A dynamic model for the risk of bladder cancer progression.

Porta N, Calle ML, Malats N, Gómez G.

Stat Med. 2012 Feb 10;31(3):287-300. doi: 10.1002/sim.4433. Epub 2011 Dec 9.

PMID:
22161505
17.

AUC-RF: a new strategy for genomic profiling with random forest.

Calle ML, Urrea V, Boulesteix AL, Malats N.

Hum Hered. 2011;72(2):121-32. doi: 10.1159/000330778. Epub 2011 Oct 11.

18.

[In-hospital ischemic strokes in patients admitted to Cardiology and Cardiac Surgery departments. Multi-centre registry].

Vera R, Lago A, Fuentes B, Gállego J, Tejada J, Casado I, Purroy F, Delgado P, Simal P, Martí-Fábregas J, Vivancos J, Díaz-Otero F, Freijo M, Díez-Tejedor E, Gil-Núñez A, Egido J, Reig G, Calle ML, Alonso de Leciñana M, Masjuan J; Proyecto Ictus del Grupo de Estudio de Enfermedades Cerebrovasculares de la Sociedad Española de Neurología.

Med Clin (Barc). 2011 Oct 22;137(11):479-83. doi: 10.1016/j.medcli.2011.02.033. Epub 2011 May 28. Spanish.

PMID:
21621229
19.

Model-based multifactor dimensionality reduction for detecting epistasis in case-control data in the presence of noise.

Cattaert T, Calle ML, Dudek SM, Mahachie John JM, Van Lishout F, Urrea V, Ritchie MD, Van Steen K.

Ann Hum Genet. 2011 Jan;75(1):78-89. doi: 10.1111/j.1469-1809.2010.00604.x. Epub 2010 Sep 8.

20.

Intravenous thrombolysis for acute stroke in patients with cancer.

Casado-Naranjo I, Calle ML, Falcón A, Serrano A, Portilla JC, Ramírez-Moreno JM.

J Neurol Neurosurg Psychiatry. 2011 Dec;82(12):1404-5. doi: 10.1136/jnnp.2010.207472. Epub 2010 Nov 8. No abstract available.

PMID:
21084264
21.

mbmdr: an R package for exploring gene-gene interactions associated with binary or quantitative traits.

Calle ML, Urrea V, Malats N, Van Steen K.

Bioinformatics. 2010 Sep 1;26(17):2198-9. doi: 10.1093/bioinformatics/btq352. Epub 2010 Jul 1.

PMID:
20595460
22.

FAM-MDR: a flexible family-based multifactor dimensionality reduction technique to detect epistasis using related individuals.

Cattaert T, Urrea V, Naj AC, De Lobel L, De Wit V, Fu M, Mahachie John JM, Shen H, Calle ML, Ritchie MD, Edwards TL, Van Steen K.

PLoS One. 2010 Apr 22;5(4):e10304. doi: 10.1371/journal.pone.0010304.

23.

Letter to the editor: Stability of Random Forest importance measures.

Calle ML, Urrea V.

Brief Bioinform. 2011 Jan;12(1):86-9. doi: 10.1093/bib/bbq011. Epub 2010 Mar 31.

PMID:
20360022
24.

Genetic susceptibility to distinct bladder cancer subphenotypes.

Guey LT, García-Closas M, Murta-Nascimento C, Lloreta J, Palencia L, Kogevinas M, Rothman N, Vellalta G, Calle ML, Marenne G, Tardón A, Carrato A, García-Closas R, Serra C, Silverman DT, Chanock S, Real FX, Malats N; EPICURO/Spanish Bladder Cancer Study investigators.

Eur Urol. 2010 Feb;57(2):283-92. doi: 10.1016/j.eururo.2009.08.001. Epub 2009 Aug 12.

25.

Serum cholesterol LDL and 90-day mortality in patients with intracerebral hemorrhage.

Ramírez-Moreno JM, Casado-Naranjo I, Portilla JC, Calle ML, Tena D, Falcón A, Serrano A.

Stroke. 2009 May;40(5):1917-20. doi: 10.1161/STROKEAHA.108.536698. Epub 2009 Mar 19.

PMID:
19299638
26.

Improving strategies for detecting genetic patterns of disease susceptibility in association studies.

Calle ML, Urrea V, Vellalta G, Malats N, Steen KV.

Stat Med. 2008 Dec 30;27(30):6532-46. doi: 10.1002/sim.3431.

PMID:
18837071
27.

[Classification trees and regression in biomedical research].

Calle ML, Sánchez-Espigares JA.

Med Clin (Barc). 2007 Nov 17;129(18):702-6. Spanish. No abstract available.

PMID:
18021613
28.

Skewed expression and up-regulation of the IL-12 and IL-18 receptors in resting and activated CD4 T cells from HIV-1-infected patients.

de Arquer GR, Peña R, Cabrera C, Coma G, Ruiz-Hernandez R, Guerola R, Clotet B, Ruiz L, Esté JA, Calle ML, Bofill M.

J Leukoc Biol. 2007 Jul;82(1):72-8. Epub 2007 Apr 2.

PMID:
17403771

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