Publications Authored by Antonio Del Sol

Modeling Cellular Differentiation and Reprogramming with Gene Regulatory Networks.

Authors:

András Hartmann Srikanth Ravichandran Antonio Del Sol

Methods Mol Biol 2019 ;1975:37-51

Computational Biology Group, Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg, Esch-Belval, Luxembourg.

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http://dx.doi.org/10.1007/978-1-4939-9224-9_2	DOI Listing

September 2019

Single-cell analysis of cardiogenesis reveals basis for organ-level developmental defects.

Authors:

T Yvanka de Soysa Sanjeev S Ranade Satoshi Okawa Srikanth Ravichandran Yu Huang Hazel T Salunga Amelia Schricker Antonio Del Sol Casey A Gifford Deepak Srivastava

Nature 2019 Aug 24;572(7767):120-124. Epub 2019 Jul 24.

Gladstone Institute of Cardiovascular Disease, San Francisco, CA, USA.

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http://www.nature.com/articles/s41586-019-1414-x	Publisher Site
http://dx.doi.org/10.1038/s41586-019-1414-x	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6719697	PMC

August 2019

Computational Strategies for Niche-Dependent Cell Conversion to Assist Stem Cell Therapy.

Authors:

Antonio Del Sol Satoshi Okawa Srikanth Ravichandran

Trends Biotechnol 2019 Jul 16;37(7):687-696. Epub 2019 Feb 16.

Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg,7 Avenue des Hauts-Fourneaux, Esch-sur-Alzette, L-4362 Luxembourg City, Luxembourg.

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http://dx.doi.org/10.1016/j.tibtech.2019.01.005	DOI Listing

July 2019

An integrative method to predict signalling perturbations for cellular transitions.

Authors:

Gaia Zaffaroni Satoshi Okawa Manuel Morales-Ruiz Antonio Del Sol

Nucleic Acids Res 2019 Jul;47(12):e72

Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg, Esch-sur-Alzette L-4362, Luxembourg.

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http://dx.doi.org/10.1093/nar/gkz232	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6614844	PMC

July 2019

A general computational approach to predicting synergistic transcriptional cores that determine cell subpopulation identities.

Authors:

Satoshi Okawa Antonio Del Sol

Nucleic Acids Res 2019 04;47(7):3333-3343

Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg, 6, avenue du Swing, L-4367 Belvaux, Luxembourg.

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http://dx.doi.org/10.1093/nar/gkz147	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6468312	PMC

April 2019

A complex of the ubiquitin ligase TRIM32 and the deubiquitinase USP7 balances the level of c-Myc ubiquitination and thereby determines neural stem cell fate specification.

Authors:

Sarah Nicklas Anna-Lena Hillje Satoshi Okawa Ina-Maria Rudolph Franziska Melanie Collmann Thea van Wuellen Antonio Del Sol Jens C Schwamborn

Cell Death Differ 2019 Mar 13;26(4):728-740. Epub 2018 Jun 13.

Developmental and Cellular Biology Group, Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg, L-4367, Belvaux, Luxembourg.

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http://dx.doi.org/10.1038/s41418-018-0144-1	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6460386	PMC

March 2019

Quiescence Modulates Stem Cell Maintenance and Regenerative Capacity in the Aging Brain.

Cell 2019 Mar 28;176(6):1407-1419.e14. Epub 2019 Feb 28.

Molecular Neurobiology, German Cancer Research Center, 69120 Heidelberg, Germany. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2019.01.040	DOI Listing

March 2019

SeesawPred: A Web Application for Predicting Cell-fate Determinants in Cell Differentiation.

Authors:

András Hartmann Satoshi Okawa Gaia Zaffaroni Antonio Del Sol

Sci Rep 2018 09 6;8(1):13355. Epub 2018 Sep 6.

Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg, 7. avenue des Hauts-Fourneaux, Esch-sur-Alzette, L-4362, Luxembourg City, Luxembourg.

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http://dx.doi.org/10.1038/s41598-018-31688-9	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6127256	PMC

September 2018

Transcriptional synergy as an emergent property defining cell subpopulation identity enables population shift.

Authors:

Satoshi Okawa Carmen Saltó Srikanth Ravichandran Shanzheng Yang Enrique M Toledo Ernest Arenas Antonio Del Sol

Nat Commun 2018 07 3;9(1):2595. Epub 2018 Jul 3.

Computational Biology Group, Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg, 6, avenue du Swing, L-4367, Belvaux, Luxembourg.

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http://www.nature.com/articles/s41467-018-05016-8	Publisher Site
http://dx.doi.org/10.1038/s41467-018-05016-8	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6030214	PMC

July 2018

Signaling-Dependent Control of Apical Membrane Size and Self-Renewal in Rosette-Stage Human Neuroepithelial Stem Cells.

Authors:

Jan-Philip Medelnik Kathleen Roensch Satoshi Okawa Antonio Del Sol Osvaldo Chara Levan Mchedlishvili Elly M Tanaka

Stem Cell Reports 2018 06 17;10(6):1751-1765. Epub 2018 May 17.

Research Institute for Molecular Pathology (IMP), Vienna Biocenter (VBC), Campus-Vienna-Biocenter 1, 1030 Vienna, Austria; DFG Research Center for Regenerative Therapies, Technische Universität Dresden, Fetscherstraße 105, 01307 Dresden, Germany; Max Planck Institute of Molecular Cell Biology and Genetics, Pfotenhauerstraße 108, 01307 Dresden, Germany.

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https://linkinghub.elsevier.com/retrieve/pii/S22136711183018	Publisher Site
http://dx.doi.org/10.1016/j.stemcr.2018.04.018	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5993681	PMC

June 2018

Loss of inter-cellular cooperation by complete epithelial-mesenchymal transition supports favorable outcomes in basal breast cancer patients.

Authors:

Anne Grosse-Wilde Rolf E Kuestner Stephanie M Skelton Ellie MacIntosh Aymeric Fouquier d'Hérouël Gökhan Ertaylan Antonio Del Sol Alexander Skupin Sui Huang

Oncotarget 2018 Apr 13;9(28):20018-20033. Epub 2018 Apr 13.

Institute for Systems Biology, Seattle, WA, USA.

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http://dx.doi.org/10.18632/oncotarget.25034	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5929443	PMC

April 2018

Integrative Computational Network Analysis Reveals Site-Specific Mediators of Inflammation in Alzheimer's Disease.

Authors:

Srikanth Ravichandran Alessandro Michelucci Antonio Del Sol

Front Physiol 2018 2;9:154. Epub 2018 Mar 2.

Computational Biology Group, Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Luxembourg, Luxembourg.

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http://dx.doi.org/10.3389/fphys.2018.00154	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5840953	PMC

March 2018

The RNA Polymerase II Factor RPAP1 Is Critical for Mediator-Driven Transcription and Cell Identity.

Authors:

Cian J Lynch Raquel Bernad Isabel Calvo Sandrina Nóbrega-Pereira Sergio Ruiz Nuria Ibarz Ana Martinez-Val Osvaldo Graña-Castro Gonzalo Gómez-López Eduardo Andrés-León Vladimir Espinosa Angarica Antonio Del Sol Sagrario Ortega Oscar Fernandez-Capetillo Enrique Rojo Javier Munoz Manuel Serrano

Cell Rep 2018 01;22(2):396-410

Tumour Suppression Group, Spanish National Cancer Research Centre (CNIO), Madrid 28029, Spain; Cellular Plasticity and Disease Group, Institute for Research in Biomedicine (IRB Barcelona), Barcelona Institute of Science and Technology (BIST), Barcelona 08028, Spain; Catalan Institution for Research and Advanced Studies (ICREA), Barcelona 08010, Spain. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2017.12.062	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5775503	PMC

January 2018

Regulation of Fn14 Receptor and NF-κB Underlies Inflammation in Meniere's Disease.

Front Immunol 2017 13;8:1739. Epub 2017 Dec 13.

Otology and Neurotology Group CTS495, Department of Genomic Medicine - Centre for Genomics and Oncological Research - Pfizer/Universidad de Granada/Junta de Andalucía (GENYO), Granada, Spain.

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http://dx.doi.org/10.3389/fimmu.2017.01739	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5733484	PMC

December 2017

Single-cell gene expression analysis reveals regulators of distinct cell subpopulations among developing human neurons.

Authors:

Jiaxu Wang Piroon Jenjaroenpun Akshay Bhinge Vladimir Espinosa Angarica Antonio Del Sol Intawat Nookaew Vladimir A Kuznetsov Lawrence W Stanton

Genome Res 2017 11 13;27(11):1783-1794. Epub 2017 Oct 13.

Stem Cell and Regenerative Biology, Genome Institute of Singapore/A-STAR, Singapore 138672.

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http://dx.doi.org/10.1101/gr.223313.117	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5668937	PMC

November 2017

Absence of regulator of G-protein signaling 4 does not protect against dopamine neuron dysfunction and injury in the mouse 6-hydroxydopamine lesion model of Parkinson's disease.

Authors:

Amer Ashrafi Pierre Garcia Heike Kollmus Klaus Schughart Antonio Del Sol Manuel Buttini Enrico Glaab

Neurobiol Aging 2017 10 19;58:30-33. Epub 2017 Jun 19.

Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg, Esch-sur-Alzette, Luxembourg. Electronic address:

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http://dx.doi.org/10.1016/j.neurobiolaging.2017.06.008	DOI Listing

October 2017

Bioinformatics Tools for Genome-Wide Epigenetic Research.

Authors:

Vladimir Espinosa Angarica Antonio Del Sol

Adv Exp Med Biol 2017 ;978:489-512

Computational Biology Group, Luxembourg Centre for Systems Biomedicine, University of Luxembourg, 6 Avenue du Swing, 4366 Belvaux, Luxembourg.

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http://dx.doi.org/10.1007/978-3-319-53889-1_25	DOI Listing

September 2017

RefBool: a reference-based algorithm for discretizing gene expression data.

Authors:

Sascha Jung Andras Hartmann Antonio Del Sol

Bioinformatics 2017 Jul;33(13):1953-1962

Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg, Belvaux, Luxembourg.

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http://dx.doi.org/10.1093/bioinformatics/btx111	DOI Listing

July 2017

Prediction of Chromatin Accessibility in Gene-Regulatory Regions from Transcriptomics Data.

Authors:

Sascha Jung Vladimir Espinosa Angarica Miguel A Andrade-Navarro Noel J Buckley Antonio Del Sol

Sci Rep 2017 07 5;7(1):4660. Epub 2017 Jul 5.

Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg, Belvaux, Luxembourg.

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http://www.nature.com/articles/s41598-017-04929-6	Publisher Site
http://dx.doi.org/10.1038/s41598-017-04929-6	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5498635	PMC

July 2017

Wnt/Tcf1 pathway restricts embryonic stem cell cycle through activation of the Ink4/Arf locus.

Authors:

Anchel De Jaime-Soguero Francesco Aulicino Gokhan Ertaylan Anna Griego Aniello Cerrato Aravind Tallam Antonio Del Sol Maria Pia Cosma Frederic Lluis

PLoS Genet 2017 03 27;13(3):e1006682. Epub 2017 Mar 27.

KU Leuven Stem Cell Institute, Department of Development and Regeneration, Stem Cell Signalling laboratory, Herestraat 49, Onderwijs en Navorsing 4, Leuven, Belgium.

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http://dx.doi.org/10.1371/journal.pgen.1006682	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5386305	PMC

March 2017

Identifying niche-mediated regulatory factors of stem cell phenotypic state: a systems biology approach.

Authors:

Srikanth Ravichandran Antonio Del Sol

FEBS Lett 2017 Feb 30;591(3):560-569. Epub 2017 Jan 30.

Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg, Luxembourg.

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http://dx.doi.org/10.1002/1873-3468.12559	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5324585	PMC

February 2017

Big-Data-Driven Stem Cell Science and Tissue Engineering: Vision and Unique Opportunities.

Authors:

Antonio Del Sol Hans J Thiesen Jaime Imitola Rafael E Carazo Salas

Cell Stem Cell 2017 02;20(2):157-160

Pharmacology Department and Cambridge Systems Biology Centre, University of Cambridge, Tennis Court Road, Cambridge CB2 1PD, UK. Electronic address:

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http://dx.doi.org/10.1016/j.stem.2017.01.006	DOI Listing

February 2017

A Generalized Gene-Regulatory Network Model of Stem Cell Differentiation for Predicting Lineage Specifiers.

Authors:

Satoshi Okawa Sarah Nicklas Sascha Zickenrott Jens C Schwamborn Antonio Del Sol

Stem Cell Reports 2016 09 18;7(3):307-315. Epub 2016 Aug 18.

Computational Biology Group, Luxembourg Centre for Systems Biomedicine, University of Luxembourg, 7 Avenue des Hauts Fourneaux, 4362 Esch-sur-Alzette, Luxembourg. Electronic address:

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http://dx.doi.org/10.1016/j.stemcr.2016.07.014	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5034562	PMC

September 2016

A systems biology approach to identify niche determinants of cellular phenotypes.

Authors:

Srikanth Ravichandran Satoshi Okawa Susana Martínez Arbas Antonio Del Sol

Stem Cell Res 2016 09 15;17(2):406-412. Epub 2016 Sep 15.

Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg, 7, Avenue des Hauts-Fourneaux, L-4362 Esch-sur-Alzette, Luxembourg. Electronic address:

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http://dx.doi.org/10.1016/j.scr.2016.09.006	DOI Listing

September 2016

Prox1 Is Required for Oligodendrocyte Cell Identity in Adult Neural Stem Cells of the Subventricular Zone.

Authors:

Eva C Bunk Gökhan Ertaylan Felipe Ortega Maria A Pavlou Laura Gonzalez Cano Athanasios Stergiopoulos Shima Safaiyan Sandra Völs Marianne van Cann Panagiotis K Politis Mikael Simons Benedikt Berninger Antonio Del Sol Jens C Schwamborn

Stem Cells 2016 08 21;34(8):2115-29. Epub 2016 Apr 21.

Institute of Cell Biology, ZMBE, University of Münster, Münster, Germany.

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http://dx.doi.org/10.1002/stem.2374	DOI Listing

August 2016

Modeling heterogeneity in the pluripotent state: A promising strategy for improving the efficiency and fidelity of stem cell differentiation.

Authors:

Vladimir Espinosa Angarica Antonio Del Sol

Bioessays 2016 08 19;38(8):758-68. Epub 2016 Jun 19.

Luxembourg Center for Systems Biomedicine (LCSB), University of Luxembourg, Campus Belval, Belvaux, Luxembourg.

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http://dx.doi.org/10.1002/bies.201600103	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5094535	PMC

August 2016

Gene Regulatory Network Inference of Immunoresponsive Gene 1 (IRG1) Identifies Interferon Regulatory Factor 1 (IRF1) as Its Transcriptional Regulator in Mammalian Macrophages.

Authors:

Aravind Tallam Thaneer M Perumal Paul M Antony Christian Jäger Joëlle V Fritz Laurent Vallar Rudi Balling Antonio Del Sol Alessandro Michelucci

PLoS One 2016 12;11(2):e0149050. Epub 2016 Feb 12.

Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0149050	PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4752512	PMC

July 2016

Stemness of the hybrid Epithelial/Mesenchymal State in Breast Cancer and Its Association with Poor Survival.

Authors:

Anne Grosse-Wilde Aymeric Fouquier d'Hérouël Ellie McIntosh Gökhan Ertaylan Alexander Skupin Rolf E Kuestner Antonio del Sol Kathie-Anne Walters Sui Huang

PLoS One 2015 28;10(5):e0126522. Epub 2015 May 28.

Institute for Systems Biology, Seattle, WA 98109, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0126522	PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4447403	PMC

April 2016

Discrete Logic Modelling Optimization to Contextualize Prior Knowledge Networks Using PRUNET.

Authors:

Ana Rodriguez Isaac Crespo Ganna Androsova Antonio del Sol

PLoS One 2015 9;10(6):e0127216. Epub 2015 Jun 9.

Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg, Luxembourg.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0127216	PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4461287	PMC

April 2016

Identification of large-scale genomic variation in cancer genomes using in silico reference models.

Authors:

Sarah Killcoyne Antonio Del Sol

Nucleic Acids Res 2016 Jan 11;44(1):e5. Epub 2015 Aug 11.

Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg, Campus Belval, 6, Avenue Swing, Belvaux L-4367, Luxembourg

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http://dx.doi.org/10.1093/nar/gkv828	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4705683	PMC

January 2016

A differential network analysis approach for lineage specifier prediction in stem cell subpopulations.

Authors:

Satoshi Okawa Vladimir Espinosa Angarica Ihor Lemischka Kateri Moore Antonio Del Sol

NPJ Syst Biol Appl 2015 12;1:15012. Epub 2015 Nov 12.

Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg, Esch-sur-Alzette, Luxembourg.

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http://dx.doi.org/10.1038/npjsba.2015.12	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5516870	PMC

November 2015

Efficacy and safety of vitamin K-antagonists (VKA) for atrial fibrillation in non-dialysis dependent chronic kidney disease.

Authors:

Judith Kooiman Nienke van Rein Bas Spaans Koen A J van Beers Jonna R Bank Wilke R van de Peppel Antonio Iglesias del Sol Suzanne C Cannegieter Ton J Rabelink Gregory Y H Lip Frederikus A Klok Menno V Huisman

PLoS One 2014 9;9(5):e94420. Epub 2014 May 9.

Department of Thrombosis and Hemostasis, Leiden University Medical Center, Leiden, The Netherlands.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0094420	PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4015895	PMC

October 2015

Transcriptome of human foetal heart compared with cardiomyocytes from pluripotent stem cells.

Authors:

Cathelijne W van den Berg Satoshi Okawa Susana M Chuva de Sousa Lopes Liesbeth van Iperen Robert Passier Stefan R Braam Leon G Tertoolen Antonio del Sol Richard P Davis Christine L Mummery

Development 2015 Sep 24;142(18):3231-8. Epub 2015 Jul 24.

Dept. of Anatomy & Embryology, Leiden University Medical Center, Einthovenweg 20, Leiden 2333 ZC, The Netherlands

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http://dx.doi.org/10.1242/dev.123810	DOI Listing

September 2015

A computational strategy for predicting lineage specifiers in stem cell subpopulations.

Authors:

Satoshi Okawa Antonio del Sol

Stem Cell Res 2015 Sep 2;15(2):427-34. Epub 2015 Sep 2.

Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg, 7, Avenue des Hauts-Fourneaux, L-4362 Esch-sur-Alzette, Luxembourg. Electronic address:

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http://dx.doi.org/10.1016/j.scr.2015.08.006	DOI Listing

September 2015

TRIM32 modulates pluripotency entry and exit by directly regulating Oct4 stability.

Authors:

Lamia'a Bahnassawy Thanneer M Perumal Laura Gonzalez-Cano Anna-Lena Hillje Leila Taher Wojciech Makalowski Yutaka Suzuki Georg Fuellen Antonio del Sol Jens Christian Schwamborn

Sci Rep 2015 Aug 26;5:13456. Epub 2015 Aug 26.

Westfälische Wilhelms-Universität Münster, ZMBE, Institute of Cell Biology, Stem Cell Biology and Regeneration Group, Von-Esmarch-Str. 56, 48149 Münster, Germany.

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http://dx.doi.org/10.1038/srep13456	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4642535	PMC

August 2015

Sorting signal targeting mRNA into hepatic extracellular vesicles.

Authors:

Natalia Szostak Felix Royo Agnieszka Rybarczyk Marta Szachniuk Jacek Blazewicz Antonio del Sol Juan M Falcon-Perez

RNA Biol 2014 12;11(7):836-44. Epub 2014 Jun 12.

Metabolomics Unit; CIC bioGUNE; CIBERehd; Bizkaia Technology Park; Derio, Bizkaia Spain; IKERBASQUE; Basque Foundation for Science; Bilbao, Spain.

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http://dx.doi.org/10.4161/rna.29305	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4179958	PMC

June 2015

The RNA helicase DDX6 regulates cell-fate specification in neural stem cells via miRNAs.

Authors:

Sarah Nicklas Satoshi Okawa Anna-Lena Hillje Laura González-Cano Antonio Del Sol Jens C Schwamborn

Nucleic Acids Res 2015 Mar 26;43(5):2638-54. Epub 2015 Feb 26.

Stem Cell Biology and Regeneration Group, Institute of Cell Biology, ZMBE, Westfälische Wilhelms-Universität Münster, D-48149 Münster, Germany Developmental and Cellular Biology Group, Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg, L-4362 Esch-Belval, Luxembourg

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http://dx.doi.org/10.1093/nar/gkv138	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4357729	PMC

March 2015

Gene regulatory network analysis reveals differences in site-specific cell fate determination in mammalian brain.

Authors:

Gökhan Ertaylan Satoshi Okawa Jens C Schwamborn Antonio Del Sol

Front Cell Neurosci 2014 18;8:437. Epub 2014 Dec 18.

Computational Biology, Luxembourg Centre for Systems Biomedicine, University of Luxembourg Belval, Luxembourg.

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http://dx.doi.org/10.3389/fncel.2014.00437	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4270183	PMC

January 2015

Hippocampal extracellular matrix levels and stochasticity in synaptic protein expression increase with age and are associated with age-dependent cognitive decline.

Authors:

Marlene J Végh Antonio Rausell Maarten Loos Céline M Heldring Wiktor Jurkowski Pim van Nierop Iryna Paliukhovich Ka Wan Li Antonio del Sol August B Smit Sabine Spijker Ronald E van Kesteren

Mol Cell Proteomics 2014 Nov 20;13(11):2975-85. Epub 2014 Jul 20.

From the ‡Center for Neurogenomics and Cognitive Research, Neuroscience Campus Amsterdam, VU University, De Boelelaan 1085, 1081HV Amsterdam, The Netherlands;

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http://dx.doi.org/10.1074/mcp.M113.032086	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4223485	PMC

November 2014

Modelling Fanconi anemia pathogenesis and therapeutics using integration-free patient-derived iPSCs.

Nat Commun 2014 Jul 7;5:4330. Epub 2014 Jul 7.

Gene Expression Laboratory, Salk Institute for Biological Studies, 10010 North Torrey Pines Road, La Jolla, California 92037, USA.

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http://dx.doi.org/10.1038/ncomms5330	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4291073	PMC

July 2014

Concise review: a population shift view of cellular reprogramming.

Authors:

Antonio Del Sol Noel J Buckley

Stem Cells 2014 Jun;32(6):1367-72

Luxembourg Centre for Systems Biomedicine, University of Luxembourg, L-4362 Esch-Belval and Life Sciences Research Unit, University of Luxembourg, Luxembourg, Luxembourg.

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http://dx.doi.org/10.1002/stem.1627	DOI Listing

June 2014

FIGG: simulating populations of whole genome sequences for heterogeneous data analyses.

Authors:

Sarah Killcoyne Antonio del Sol

BMC Bioinformatics 2014 May 19;15:149. Epub 2014 May 19.

Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg, Campus Belval, 7, avenue des Hauts fourneaux, Esch/Alzette L-4362, Luxembourg.

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http://bmcbioinformatics.biomedcentral.com/articles/10.1186/	Publisher Site
http://dx.doi.org/10.1186/1471-2105-15-149	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4039316	PMC

May 2014

Integrating pathways of Parkinson's disease in a molecular interaction map.

Authors:

Kazuhiro A Fujita Marek Ostaszewski Yukiko Matsuoka Samik Ghosh Enrico Glaab Christophe Trefois Isaac Crespo Thanneer M Perumal Wiktor Jurkowski Paul M A Antony Nico Diederich Manuel Buttini Akihiko Kodama Venkata P Satagopam Serge Eifes Antonio Del Sol Reinhard Schneider Hiroaki Kitano Rudi Balling

Mol Neurobiol 2014 Feb 7;49(1):88-102. Epub 2013 Jul 7.

The Systems Biology Institute, Minato-ku, Tokyo, Japan.

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http://dx.doi.org/10.1007/s12035-013-8489-4	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4153395	PMC

February 2014

Global DNA methylation and transcriptional analyses of human ESC-derived cardiomyocytes.

Authors:

Ying Gu Guang-Hui Liu Nongluk Plongthongkum Christopher Benner Fei Yi Jing Qu Keiichiro Suzuki Jiping Yang Weiqi Zhang Mo Li Nuria Montserrat Isaac Crespo Antonio Del Sol Concepcion Rodriguez Esteban Kun Zhang Juan Carlos Izpisua Belmonte

Protein Cell 2014 Jan 29;5(1):59-68. Epub 2014 Jan 29.

Gene Expression Laboratory, Salk Institute for Biological Studies, 10010 North Torrey Pines Road, La Jolla, CA, 92037, USA.

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http://link.springer.com/10.1007/s13238-013-0016-x	Publisher Site
http://dx.doi.org/10.1007/s13238-013-0016-x	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3938846	PMC

January 2014

Detecting cellular reprogramming determinants by differential stability analysis of gene regulatory networks.

Authors:

Isaac Crespo Thanneer M Perumal Wiktor Jurkowski Antonio del Sol

BMC Syst Biol 2013 Dec 19;7:140. Epub 2013 Dec 19.

Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg, L-4362, Esch-Belval, Luxembourg.

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http://dx.doi.org/10.1186/1752-0509-7-140	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3878265	PMC

December 2013

A general strategy for cellular reprogramming: the importance of transcription factor cross-repression.

Authors:

Isaac Crespo Antonio Del Sol

Stem Cells 2013 Oct;31(10):2127-35

Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg, L-4362 Esch-Belval, University of Luxembourg, L-1511, Luxembourg, Luxembourg.

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http://doi.wiley.com/10.1002/stem.1473	Publisher Site
http://dx.doi.org/10.1002/stem.1473	DOI Listing

October 2013

Global DNA methylation and transcriptional analyses of human ESC-derived cardiomyocytes.

Authors:

Ying Gu Guang-Hui Liu Nongluk Plongthongkum Christopher Benner Fei Yi Jing Qu Keiichiro Suzuki Jiping Yang Weiqi Zhang Mo Li Nuria Montserrat Isaac Crespo Antonio Del Sol Concepcion Rodriguez Esteban Kun Zhang Juan Carlos Izpisua Belmonte

Protein Cell 2013 Aug 27. Epub 2013 Aug 27.

Gene Expression Laboratory, Salk Institute for Biological Studies, 10010 North Torrey Pines Road, La Jolla, CA, 92037, USA.

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http://dx.doi.org/10.1007/s13238-013-3911-2	DOI Listing

August 2013

Predicting missing expression values in gene regulatory networks using a discrete logic modeling optimization guided by network stable states.

Authors:

Isaac Crespo Abhimanyu Krishna Antony Le Béchec Antonio del Sol

Nucleic Acids Res 2013 Jan 31;41(1):e8. Epub 2012 Aug 31.

Luxembourg Centre for Systems Biomedicine, University of Luxembourg, L-4362 Esch-Belval and Life Sciences Research Unit, University of Luxembourg, L-1511 Luxembourg, Luxembourg.

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https://academic.oup.com/nar/article/41/1/e8/1162106	Publisher Site
http://dx.doi.org/10.1093/nar/gks785	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3592407	PMC

January 2013

PLAU inferred from a correlation network is critical for suppressor function of regulatory T cells.

Authors:

Feng He Hairong Chen Michael Probst-Kepper Robert Geffers Serge Eifes Antonio Del Sol Klaus Schughart An-Ping Zeng Rudi Balling

Mol Syst Biol 2012 ;8:624

Department of Infection Genetics, Helmholtz Centre for Infection Research (HZI), University of Veterinary Medicine Hannover, Braunschweig, Germany.

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http://dx.doi.org/10.1038/msb.2012.56	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3531908	PMC

January 2013

Gene regulatory network analysis supports inflammation as a key neurodegeneration process in prion disease.

Authors:

Isaac Crespo Kirsten Roomp Wiktor Jurkowski Hiroaki Kitano Antonio del Sol

BMC Syst Biol 2012 Oct 15;6:132. Epub 2012 Oct 15.

Luxembourg Center for Systems Biomedicine (LCSB), University of Luxembourg, Campus Belval, 7, avenue des Hauts fourneaux, Luxembourg L-4362, Luxembourg.

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http://bmcsystbiol.biomedcentral.com/articles/10.1186/1752-0	Publisher Site
http://dx.doi.org/10.1186/1752-0509-6-132	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3607922	PMC

October 2012

Evolutionary conservation and network structure characterize genes of phenotypic relevance for mitosis in human.

Authors:

Marek Ostaszewski Serge Eifes Antonio del Sol

PLoS One 2012 2;7(5):e36488. Epub 2012 May 2.

Luxembourg Centre for Systems Biomedicine, Luxembourg, Luxembourg.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0036488	PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3342260	PMC

September 2012

A novel network integrating a miRNA-203/SNAI1 feedback loop which regulates epithelial to mesenchymal transition.

Authors:

Michèle Moes Antony Le Béchec Isaac Crespo Christina Laurini Aliaksandr Halavatyi Guillaume Vetter Antonio Del Sol Evelyne Friederich

PLoS One 2012 13;7(4):e35440. Epub 2012 Apr 13.

Cytoskeleton and Cell Plasticity Lab, Life Sciences Research Unit-FSCT, University of Luxembourg, Luxembourg, Luxembourg.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0035440	PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3325969	PMC

August 2012

Diseases as network perturbations.

Authors:

Antonio del Sol Rudi Balling Lee Hood David Galas

Curr Opin Biotechnol 2010 Aug 13;21(4):566-71. Epub 2010 Aug 13.

Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg, Luxembourg.

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https://linkinghub.elsevier.com/retrieve/pii/S09581669100012	Publisher Site
http://dx.doi.org/10.1016/j.copbio.2010.07.010	DOI Listing

August 2010

Methyl side-chain dynamics prediction based on protein structure.

Authors:

Pablo Carbonell Antonio del Sol

Bioinformatics 2009 Oct 30;25(19):2552-8. Epub 2009 Jul 30.

Fujirebio Inc., Bioinformatics Research Unit, Research and Development Division, Komiya-cho, Hachioji-shi, Tokyo 192-0031, Japan.

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http://dx.doi.org/10.1093/bioinformatics/btp463	DOI Listing

October 2009

The origin of allosteric functional modulation: multiple pre-existing pathways.

Authors:

Antonio del Sol Chung-Jung Tsai Buyong Ma Ruth Nussinov

Structure 2009 Aug;17(8):1042-50

Bioinformatics Research Unit, Research and Development Division, Fujirebio Inc., Hachioji-shi, Tokyo, Japan.

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http://linkinghub.elsevier.com/retrieve/pii/S096921260900250	Publisher Site
http://dx.doi.org/10.1016/j.str.2009.06.008	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2749652	PMC

August 2009

Energetic determinants of protein binding specificity: insights into protein interaction networks.

Authors:

Pablo Carbonell Ruth Nussinov Antonio del Sol

Proteomics 2009 Apr;9(7):1744-53

Bioinformatics Research Unit, Research and Development Division, Fujirebio, Inc., Komiya-cho, Hachioji-shi, Tokyo, Japan.

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http://dx.doi.org/10.1002/pmic.200800425	DOI Listing

April 2009

Protein allostery, signal transmission and dynamics: a classification scheme of allosteric mechanisms.

Authors:

Chung-Jung Tsai Antonio Del Sol Ruth Nussinov

Mol Biosyst 2009 Mar 6;5(3):207-16. Epub 2009 Jan 6.

Basic Research Program, SAIC-Frederick, Inc., Center for Cancer Research Nanobiology Program, NCI-Frederick, Frederick, MD 21702, USA.

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http://dx.doi.org/10.1039/b819720b	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2898650	PMC

March 2009

Pravastatin: an evidence-based statin?

Authors:

Antonio Iglesias del Sol Prabath W B Nanayakkara

Expert Opin Drug Metab Toxicol 2008 Jun;4(6):821-5

VU University Medical Center, Department of Internal Medicine, De Boelelaan 1117, 1081 HV Amsterdam, The Netherlands.

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http://dx.doi.org/10.1517/17425255.4.6.821	DOI Listing

June 2008

Allostery: absence of a change in shape does not imply that allostery is not at play.

Authors:

Chung-Jung Tsai Antonio del Sol Ruth Nussinov

J Mol Biol 2008 Apr 29;378(1):1-11. Epub 2008 Feb 29.

Basic Research Program, SAIC-Frederick, Inc., Center for Cancer Research Nanobiology Program, NCI-Frederick, Frederick, MD 21702, USA.

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http://dx.doi.org/10.1016/j.jmb.2008.02.034	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2684958	PMC

April 2008

The modular organization of domain structures: insights into protein-protein binding.

Authors:

Antonio del Sol Pablo Carbonell

PLoS Comput Biol 2007 Dec;3(12):e239

Bioinformatics Research Unit, Research and Development Division, Fujirebio, Tokyo, Japan.

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https://dx.plos.org/10.1371/journal.pcbi.0030239	Publisher Site
http://dx.doi.org/10.1371/journal.pcbi.0030239	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2134966	PMC

December 2007

Modular architecture of protein structures and allosteric communications: potential implications for signaling proteins and regulatory linkages.

Authors:

Antonio Del Sol Marcos J Araúzo-Bravo Dolors Amoros Ruth Nussinov

Genome Biol 2007 ;8(5):R92

Bioinformatics Research Unit, Research and Development Division, Fujirebio Inc, Komiya-cho, Hachioji-shi, Tokyo 192-0031, Japan.

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http://dx.doi.org/10.1186/gb-2007-8-5-r92	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1929157	PMC

September 2007

Ligand binding and circular permutation modify residue interaction network in DHFR.

Authors:

Zengjian Hu Donnell Bowen William M Southerland Antonio del Sol Yongping Pan Ruth Nussinov Buyong Ma

PLoS Comput Biol 2007 Jun 11;3(6):e117. Epub 2007 May 11.

Department of Biochemistry and Molecular Biology, Howard University College of Medicine, Washington, District of Columbia, United States of America.

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https://dx.plos.org/10.1371/journal.pcbi.0030117	Publisher Site
http://dx.doi.org/10.1371/journal.pcbi.0030117	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1892607	PMC

June 2007

Residue centrality, functionally important residues, and active site shape: analysis of enzyme and non-enzyme families.

Authors:

Antonio del Sol Hirotomo Fujihashi Dolors Amoros Ruth Nussinov

Protein Sci 2006 Sep 1;15(9):2120-8. Epub 2006 Aug 1.

Bioinformatics Research Unit, Research and Development Division, Tokyo, Japan.

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http://doi.wiley.com/10.1110/ps.062249106	Publisher Site
http://dx.doi.org/10.1110/ps.062249106	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2242611	PMC

September 2006

Residues crucial for maintaining short paths in network communication mediate signaling in proteins.

Authors:

Antonio del Sol Hirotomo Fujihashi Dolors Amoros Ruth Nussinov

Mol Syst Biol 2006 2;2:2006.0019. Epub 2006 May 2.

Bioinformatics Research Unit, Research and Development Division, Fujirebio Inc., Hachioji-shi, Tokyo, Japan.

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http://msb.embopress.org/cgi/doi/10.1038/msb4100063	Publisher Site
http://dx.doi.org/10.1038/msb4100063	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1681495	PMC

August 2006

TreeDet: a web server to explore sequence space.

Authors:

Angel Carro Michael Tress David de Juan Florencio Pazos Pedro Lopez-Romero Antonio del Sol Alfonso Valencia Ana M Rojas

Nucleic Acids Res 2006 Jul;34(Web Server issue):W110-5

Protein Design Group, CNB-CSIC C/Darwin n.3, 28049, Madrid, Spain.

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http://dx.doi.org/10.1093/nar/gkl203	DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1538789	PMC

July 2006

A framework for computational and experimental methods: identifying dimerization residues in CCR chemokine receptors.

Authors:

David de Juan Mario Mellado José Miguel Rodríguez-Frade Patricia Hernanz-Falcón Antonio Serrano Antonio del Sol Alfonso Valencia Carlos Martínez-A Ana María Rojas

Bioinformatics 2005 Sep;21 Suppl 2:ii13-8

Protein Design Group, National Center of Biotechnology (CNB-CSIC) Cantoblanco, Madrid, Spain.

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http://bioinformatics.oxfordjournals.org/content/21/suppl_2/	Web Search
http://bioinformatics.oxfordjournals.org/cgi/doi/10.1093/bio	Publisher Site
http://dx.doi.org/10.1093/bioinformatics/bti1101	DOI Listing

September 2005

Topology of small-world networks of protein-protein complex structures.

Authors:

Antonio del Sol Hirotomo Fujihashi Paul O'Meara

Bioinformatics 2005 Apr 19;21(8):1311-5. Epub 2005 Jan 19.

Bioinformatics Research Project, Research and Development Division, Fujirebio Inc., 51 Komiya-cho, Hachioji-shi, Tokyo 192-0031, Japan.

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https://academic.oup.com/bioinformatics/article-lookup/doi/1	Publisher Site
http://dx.doi.org/10.1093/bioinformatics/bti167	DOI Listing

April 2005

Small-world network approach to identify key residues in protein-protein interaction.

Authors:

Antonio del Sol Paul O'Meara

Proteins 2005 Feb;58(3):672-82

Bioinformatics Research Project, Frontier Research Division, Fujirebio Inc., 51 Komiya-cho, Hachioji-shi, Tokyo 192-0031, Japan.

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http://dx.doi.org/10.1002/prot.20348	DOI Listing

February 2005

Predictive value of noninvasive measures of atherosclerosis for incident myocardial infarction: the Rotterdam Study.

Authors:

Irene M van der Meer Michiel L Bots Albert Hofman Antonio Iglesias del Sol Deirdre A M van der Kuip Jacqueline C M Witteman

Circulation 2004 Mar 1;109(9):1089-94. Epub 2004 Mar 1.

Department of Epidemiology and Biostatistics, Erasmus MC, University Medical Center, Rotterdam, The Netherlands.

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https://www.ahajournals.org/doi/10.1161/01.CIR.0000120708.59	Publisher Site
http://dx.doi.org/10.1161/01.CIR.0000120708.59903.1B	DOI Listing

March 2004

Identification of amino acid residues crucial for chemokine receptor dimerization.

Authors:

Patricia Hernanz-Falcón José Miguel Rodríguez-Frade Antonio Serrano David Juan Antonio del Sol Silvia F Soriano Fernando Roncal Lucio Gómez Alfonso Valencia Carlos Martínez-A Mario Mellado

Nat Immunol 2004 Feb 11;5(2):216-23. Epub 2004 Jan 11.

Department of Immunology and Oncology, National Center of Biotechnology, Campus Universitario de Cantoblanco, E-28049 Madrid, Spain.

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http://www.nature.com/articles/ni1027	Publisher Site
http://dx.doi.org/10.1038/ni1027	DOI Listing

February 2004

Automatic methods for predicting functionally important residues.

Authors:

Antonio del Sol Antonio del Sol Mesa Florencio Pazos Alfonso Valencia

J Mol Biol 2003 Feb;326(4):1289-302

Protein Design Group, National Center for Biotechnology, Cantoblanco, Madrid 28049, Spain.

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http://dx.doi.org/10.1016/s0022-2836(02)01451-1	DOI Listing

February 2003

C-reactive protein predicts progression of atherosclerosis measured at various sites in the arterial tree: the Rotterdam Study.

Authors:

Irene M Van Der Meer Moniek P M De Maat A Elisabeth Hak Amanda J Kiliaan Antonio Iglesias Del Sol Deirdre A M Van Der Kuip Rogier L G Nijhuis Albert Hofman Jacqueline C M Witteman

Stroke 2002 Dec;33(12):2750-5

Department of Epidemiology and Biostatistics, Erasmus Medical Center, Rotterdam, The Netherlands.

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http://dx.doi.org/10.1161/01.str.0000044168.00485.02	DOI Listing

December 2002

Antonio Del Sol

Antonio Del Sol

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