Ioannis Xenarios: search on Z-Library

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1

Plant species distributions along environmental gradients: do belowground interactions with fungi matter?

Pellissier, Loïc, Pinto-Figueroa, Eric, Niculita-Hirzel, Hélène, Moora, Mari, Villard, Lucas, Goudet, Jérome, Guex, Nicolas, Pagni, Marco, Xenarios, Ioannis, Sanders, Ian, Guisan, Antoine

Journal:

Frontiers in Plant Science

Year:

2013

Language:

english

File:

PDF, 860 KB

english, 2013

2

ProteomeXchange provides globally coordinated proteomics data submission and dissemination

Vizcaíno, Juan A, Deutsch, Eric W, Wang, Rui, Csordas, Attila, Reisinger, Florian, Ríos, Daniel, Dianes, José A, Sun, Zhi, Farrah, Terry, Bandeira, Nuno, Binz, Pierre-Alain, Xenarios, Ioannis, Eisenac

Journal:

Nature Biotechnology

Year:

2014

Language:

english

File:

PDF, 516 KB

english, 2014

3

The ins and outs of eukaryotic viruses: Knowledge base and ontology of a viral infection

Hulo, Chantal, Masson, Patrick, de Castro, Edouard, Auchincloss, Andrea H., Foulger, Rebecca, Poux, Sylvain, Lomax, Jane, Bougueleret, Lydie, Xenarios, Ioannis, Le Mercier, Philippe, Alvisi, Gualtiero

Journal:

Year:

2017

Language:

english

File:

PDF, 3.00 MB

english, 2017

4

Bacterial Virus Ontology; Coordinating across Databases

Hulo, Chantal, Masson, Patrick, Toussaint, Ariane, Osumi-Sutherland, David, de Castro, Edouard, Auchincloss, Andrea, Poux, Sylvain, Bougueleret, Lydie, Xenarios, Ioannis, Le Mercier, Philippe

Journal:

Year:

2017

Language:

english

File:

PDF, 3.90 MB

english, 2017

5

Drug Design Workshop: A Web-Based Educational Tool To Introduce Computer-Aided Drug Design to the General Public

Daina, Antoine, Blatter, Marie-Claude, Baillie Gerritsen, Vivienne, Palagi, Patricia M., Marek, Diana, Xenarios, Ioannis, Schwede, Torsten, Michielin, Olivier, Zoete, Vincent

Journal:

Journal of Chemical Education

Year:

2017

Language:

english

File:

PDF, 7.63 MB

english, 2017

6

The UniProtKB/Swiss-Prot Tox-Prot program: A central hub of integrated venom protein data

Florence Jungo, Lydie Bougueleret, Ioannis Xenarios, Sylvain Poux

Journal:

Year:

2012

Language:

english

File:

PDF, 740 KB

english, 2012

7

Protein interaction databases

Ioannis Xenarios, David Eisenberg

Journal:

Current Opinion in Biotechnology

Year:

2001

Language:

english

File:

PDF, 106 KB

english, 2001

8

10.1038/86567

Klein, Michael A., Kaeser, Pascal S., Schwarz, Petra, Weyd, Heiko, Xenarios, Ioannis, Zinkernagel, Rolf M., Carroll, Michael C., Verbeek, J. Sjef, Botto, Marina, Walport, Mark J., Molina, Hector, Kali

Journal:

Nature Medicine

Year:

2001

Language:

english

File:

PDF, 4.62 MB

english, 2001

9

The direct effects of tacrolimus and cyclosporin A on isolated human islets: A functional, survival and gene expression study

Bugliani, Marco, Masini, Matilde, Liechti, Robin, Marselli, Lorella, Xenarios, Ioannis, Boggi, Ugo, Filipponi, Franco, Masiello, Pellegrino, Marchetti, Piero

Journal:

Year:

2009

Language:

english

File:

PDF, 1.04 MB

english, 2009

10

ENFIN – A European network for integrative systems biology

Pascal Kahlem, Andrew Clegg, Florian Reisinger, Ioannis Xenarios, Henning Hermjakob, Christine Orengo, Ewan Birney

Journal:

Comptes Rendus Biologies

Year:

2009

Language:

english

File:

PDF, 973 KB

english, 2009

11

Local auxin production underlies a spatially restricted neighbor-detection response in Arabidopsis

Michaud, Olivier, Fiorucci, Anne-Sophie, Xenarios, Ioannis, Fankhauser, Christian

Journal:

Proceedings of the National Academy of Sciences

Year:

2017

Language:

english

File:

PDF, 1.04 MB

english, 2017

12

A multi-omics digital research object for the genetics of sleep regulation

Jan, Maxime, Gobet, Nastassia, Diessler, Shanaz, Franken, Paul, Xenarios, Ioannis

Journal:

Scientific Data

Year:

2019

Language:

english

File:

PDF, 2.51 MB

english, 2019

13

Incorporating heterogeneous sampling probabilities in continuous phylogeographic inference – application to H5N1 spread in the Mekong region

Dellicour, Simon, Lemey, Philippe, Artois, Jean, Lam, Tommy T, Fusaro, Alice, Monne, Isabella, Cattoli, Giovanni, Kuznetsov, Dmitry, Xenarios, Ioannis, Dauphin, Gwenaelle, Kalpravidh, Wantanee, Von Do

Journal:

Year:

2019

File:

PDF, 3.96 MB

2019

14

Detection and identification of plasma proteins that bind GlialCAM using ProteinChip™ Arrays, SELDI-TOF MS, and nano-LC MS/MS

Linda Favre-Kontula, Pascale Sattonnet-Roche, Edith Magnenat, Amanda E. I. Proudfoot, Ursula Boschert, Ioannis Xenarios, Francis Vilbois, Bruno Antonsson

Journal:

Year:

2008

Language:

english

File:

PDF, 533 KB

english, 2008

15

Three-dimensional cluster analysis identifies interfaces and functional residue clusters in proteins

Ralf Landgraf, Ioannis Xenarios, David Eisenberg

Journal:

Journal of Molecular Biology

Year:

2001

Language:

english

File:

PDF, 660 KB

english, 2001

16

Improving HIV proteome annotation: new features of BioAfrica HIV Proteomics Resource

Druce, Megan, Hulo, Chantal, Masson, Patrick, Sommer, Paula, Xenarios, Ioannis, Le Mercier, Philippe, De Oliveira, Tulio

Journal:

Year:

2016

Language:

english

File:

PDF, 1.53 MB

english, 2016

17

Boolean regulatory network reconstruction using literature based knowledge with a genetic algorithm optimization method

Dorier, Julien, Crespo, Isaac, Niknejad, Anne, Liechti, Robin, Ebeling, Martin, Xenarios, Ioannis

Journal:

BMC Bioinformatics

Year:

2016

Language:

english

File:

PDF, 3.10 MB

english, 2016

18

Integrative knowledge management to enhance pharmaceutical R&D

Marti-Solano, Maria, Birney, Ewan, Bril, Antoine, Pasqua, Oscar Della, Kitano, Hiroaki, Mons, Barend, Xenarios, Ioannis, Sanz, Ferran

Journal:

Nature Reviews Drug Discovery

Year:

2014

Language:

english

File:

PDF, 587 KB

english, 2014

19

Analysis of Stop-Gain and Frameshift Variants in Human Innate Immunity Genes

Rausell, Antonio, Mohammadi, Pejman, McLaren, Paul J., Bartha, Istvan, Xenarios, Ioannis, Fellay, Jacques, Telenti, Amalio, Quintana-Murci, Lluis

Journal:

PLoS Computational Biology

Year:

2014

Language:

english

File:

PDF, 974 KB

english, 2014

20

10.1038/35015694

Eisenberg, David, Marcotte, Edward M., Xenarios, Ioannis, Yeates, Todd O.

Journal:

Year:

2000

Language:

english

File:

PDF, 227 KB

english, 2000

21

Dynamic simulation of regulatory networks using SQUAD

Alessandro Di Cara, Abhishek Garg, Giovanni De Micheli, Ioannis Xenarios, Luis Mendoza

Journal:

BMC Bioinformatics

Year:

2007

Language:

english

File:

PDF, 1.26 MB

english, 2007

22

[IEEE 2007 29th Annual International Conference of the IEEE Engineering in Medicine and Biology Society - Lyon, France (2007.08.22-2007.08.26)] 2007 29th Annual International Conference of the IEEE Engineering in Medicine and Biology Society - Modeling of Multiple Valued Gene Regulatory Networks

Garg, Abhishek, Mendoza, Luis, Xenarios, Ioannis, DeMicheli, Giovanni

Year:

2007

Language:

english

File:

PDF, 403 KB

english, 2007

23

Unraveling modulators of platelet reactivity in cardiovascular patients using omics strategies: Towards a network biology paradigm

Zufferey, Anne, Ibberson, Mark, Reny, Jean-Luc, Xenarios, Ioannis, Sanchez, Jean-Charles, Fontana, Pierre

Journal:

Advances in Integrative Medicine

Year:

2013

Language:

english

File:

PDF, 2.45 MB

english, 2013

24

Identifying biological mechanisms for favorable cancer prognosis using non-hypothesis-driven iterative survival analysis

Crespo, Isaac, Götz, Lou, Liechti, Robin, Coukos, George, Doucey, Marie-Agnès, Xenarios, Ioannis

Journal:

npj Systems Biology and Applications

Year:

2016

Language:

english

File:

PDF, 2.90 MB

english, 2016

25

Enhanced metabolite annotation via dynamic retention time prediction: steroidogenesis alterations as a case study

Randazzo, Giuseppe Marco, Tonoli, David, Strajhar, Petra, Xenarios, Ioannis, Odermatt, Alexn, Boccard, Julien, Rudaz, Serge

Journal:

Journal of Chromatography B

Year:

2017

Language:

english

File:

PDF, 501 KB

english, 2017

26

Predicting combinations of immunomodulators to enhance dendritic cell-based vaccination based on a hybrid experimental and computational platform

Ahmed, Rita, Crespo, Isaac, Tuyaerts, Sandra, Bekkar, Amel, Graciotti, Michele, Xenarios, Ioannis, Kandalaft, Lana E.

Journal:

Computational and Structural Biotechnology Journal

Year:

2020

File:

PDF, 2.59 MB

2020

27

TBC1D7 Mutations are Associated with Intellectual Disability, Macrocrania, Patellar Dislocation, and Celiac Disease

Alfaiz, Ali Abdullah, Micale, Lucia, Mandriani, Barbara, Augello, Bartolomeo, Pellico, Maria Teresa, Chrast, Jacqueline, Xenarios, Ioannis, Zelante, Leopoldo, Merla, Giuseppe, Reymond, Alexandre

Journal:

Year:

2014

Language:

english

File:

PDF, 797 KB

english, 2014

28

Genetic Variations and Diseases in UniProtKB/Swiss-Prot: The Ins and Outs of Expert Manual Curation

Famiglietti, Maria Livia, Estreicher, Anne, Gos, Arnaud, Bolleman, Jerven, Géhant, Sébastien, Breuza, Lionel, Bridge, Alan, Poux, Sylvain, Redaschi, Nicole, Bougueleret, Lydie, Xenarios, Ioannis

Journal:

Year:

2014

Language:

english

File:

PDF, 1.12 MB

english, 2014

29

Quest for Orthologs Entails Quest for Tree of Life: In Search of the Gene Stream

Boeckmann, Brigitte, Marcet-Houben, Marina, Rees, Jonathan A., Forslund, Kristoffer, Huerta-Cepas, Jaime, Muffato, Matthieu, Yilmaz, Pelin, Xenarios, Ioannis, Bork, Peer, Lewis, Suzanna E., Gabaldón,

Journal:

Genome Biology and Evolution

Year:

2015

Language:

english

File:

PDF, 507 KB

english, 2015

30

Social networks help to infer causality in the tumor microenvironment

Crespo, Isaac, Doucey, Marie-Agnès, Xenarios, Ioannis

Journal:

BMC Research Notes

Year:

2016

Language:

english

File:

PDF, 2.03 MB

english, 2016

31

Estimating the Contribution of Proteasomal Spliced Peptides to the HLA-I Ligandome

Mylonas, Roman, Beer, Ilan, Iseli, Christian, Chong, Chloe, Pak, Hui-Song, Gfeller, David, Coukos, George, Xenarios, Ioannis, Müller, Markus, Bassani-Sternberg, Michal

Journal:

Molecular & Cellular Proteomics

Year:

2018

Language:

english

File:

PDF, 1.56 MB

english, 2018

32

Virosaurus A Reference to Explore and Capture Virus Genetic Diversity

Gleizes, Anne, Laubscher, Florian, Guex, Nicolas, Iseli, Christian, Junier, Thomas, Cordey, Samuel, Fellay, Jacques, Xenarios, Ioannis, Kaiser, Laurent, Mercier, Philippe Le

Journal:

Year:

2020

File:

PDF, 2.46 MB

2020

33

Transcriptional response to cardiac injury in the zebrafish: systematic identification of genes with highly concordant activity across in vivo models

Rodius, Sophie, Nazarov, Petr V, Nepomuceno-Chamorro, Isabel A, Jeanty, Céline, González-Rosa, Juan, Ibberson, Mark, da Costa, Ricardo M, Xenarios, Ioannis, Mercader, Nadia, Azuaje, Francisco

Journal:

Year:

2014

Language:

english

File:

PDF, 1.44 MB

english, 2014

34

A Clb/Cdk1-mediated regulation of Fkh2 synchronizes CLB expression in the budding yeast cell cycle

Linke, Christian, Chasapi, Anastasia, González-Novo, Alberto, Al Sawad, Istabrak, Tognetti, Silvia, Klipp, Edda, Loog, Mart, Krobitsch, Sylvia, Posas, Francesc, Xenarios, Ioannis, Barberis, Matteo

Journal:

npj Systems Biology and Applications

Year:

2017

Language:

english

File:

PDF, 2.29 MB

english, 2017

35

Three-dimensional chromatin interactions remain stable upon CAG/CTG repeat expansion

Ruiz BuendÃa, Gustavo A., Leleu, Marion, Marzetta, Flavia, Vanzan, Ludovica, Tan, Jennifer Y., Ythier, Victor, Randall, Emma L., Marques, Ana C., Baubec, Tuncay, Murr, Rabih, Xenarios, Ioannis, Dion,

Journal:

Science Advances

Year:

2020

File:

PDF, 1.02 MB

2020

36

Efficient computation of minimal perturbation sets in gene regulatory networks

Garg, Abhishek, Mohanram, Kartik, Di Cara, Alessandro, Degueurce, Gwendoline, Ibberson, Mark, Dorier, Julien, Xenarios, Ioannis

Journal:

Frontiers in Physiology

Year:

2013

Language:

english

File:

PDF, 4.13 MB

english, 2013

37

SourceData: a semantic platform for curating and searching figures

Liechti, Robin, George, Nancy, Götz, Lou, El-Gebali, Sara, Chasapi, Anastasia, Crespo, Isaac, Xenarios, Ioannis, Lemberger, Thomas

Journal:

Year:

2017

Language:

english

File:

PDF, 257 KB

english, 2017

38

Evolution of the Ferric Reductase Domain (FRD) Superfamily: Modularity, Functional Diversification, and Signature Motifs

Zhang, Xuezhi, Krause, Karl-Heinz, Xenarios, Ioannis, Soldati, Thierry, Boeckmann, Brigitte, Haslam, Niall James

Journal:

Year:

2013

Language:

english

File:

PDF, 2.79 MB

english, 2013

39

Scaling up data curation using deep learning: An application to literature triage in genomic variation resources

Lee, Kyubum, Famiglietti, Maria Livia, McMahon, Aoife, Wei, Chih-Hsuan, MacArthur, Jacqueline Ann Langdon, Poux, Sylvain, Breuza, Lionel, Bridge, Alan, Cunningham, Fiona, Xenarios, Ioannis, Lu, Zhiyon

Journal:

PLoS Computational Biology

Year:

2018

Language:

english

File:

PDF, 1.62 MB

english, 2018

40

Genome-Wide Identification of microRNAs Regulating the Human Prion Protein

Pease, Daniel, Scheckel, Claudia, Schaper, Elke, Eckhardt, Valeria, Emmenegger, Marc, Xenarios, Ioannis, Aguzzi, Adriano

Journal:

Brain Pathology

Year:

2018

Language:

english

File:

PDF, 1.06 MB

english, 2018

41

Expert curation for building network-based dynamical models: a case study on atherosclerotic plaque formation

Bekkar, Amel, Estreicher, Anne, Niknejad, Anne, Casals-Casas, Cristina, Bridge, Alan, Xenarios, Ioannis, Dorier, Julien, Crespo, Isaac

Journal:

Year:

2018

Language:

english

File:

PDF, 810 KB

english, 2018

42

Microarray analysis of isolated human islet transcriptome in type 2 diabetes and the role of the ubiquitin–proteasome system in pancreatic beta cell dysfunction

Bugliani, Marco, Liechti, Robin, Cheon, Hwanju, Suleiman, Mara, Marselli, Lorella, Kirkpatrick, Clare, Filipponi, Franco, Boggi, Ugo, Xenarios, Ioannis, Syed, Farooq, Ladriere, Laurence, Wollheim, Cla

Journal:

Molecular and Cellular Endocrinology

Year:

2013

Language:

english

File:

PDF, 917 KB

english, 2013

43

Clade-level Spatial Modelling of HPAI H5N1 Dynamics in the Mekong Region Reveals New Patterns and Associations with Agro-Ecological Factors

Artois, Jean, Newman, Scott H., Dhingra, Madhur S., Chaiban, Celia, Linard, Catherine, Cattoli, Giovanni, Monne, Isabella, Fusaro, Alice, Xenarios, Ioannis, Engler, Robin, Liechti, Robin, Kuznetsov, D

Journal:

Scientific Reports

Year:

2016

Language:

english

File:

PDF, 1.51 MB

english, 2016

44

MsViz: A Graphical Software Tool for In-Depth Manual Validation and Quantitation of Post-translational Modifications

Martín-Campos, Trinidad, Mylonas, Roman, Masselot, Alexandre, Waridel, Patrice, Petricevic, Tanja, Xenarios, Ioannis, Quadroni, Manfredo

Journal:

Journal of Proteome Research

Year:

2017

Language:

english

File:

PDF, 1.67 MB

english, 2017

45

Neutrophils and Snail Orchestrate the Establishment of a Pro-tumor Microenvironment in Lung Cancer

Faget, Julien, Groeneveld, Svenja, Boivin, Gael, Sankar, Martial, Zangger, Nadine, Garcia, Miguel, Guex, Nicolas, Zlobec, Inti, Steiner, Loïc, Piersigilli, Alessandra, Xenarios, Ioannis, Meylan, Etien

Journal:

Year:

2017

Language:

english

File:

PDF, 6.72 MB

english, 2017

46

Updates in Rhea: SPARQLing biochemical reaction data

Lombardot, Thierry, Morgat, Anne, Axelsen, Kristian B, Aimo, Lucila, Hyka-Nouspikel, Nevila, Niknejad, Anne, Ignatchenko, Alex, Xenarios, Ioannis, Coudert, Elisabeth, Redaschi, Nicole, Bridge, Alan

Journal:

Nucleic Acids Research

Year:

2018

Language:

english

File:

PDF, 1.56 MB

english, 2018

47

Cell-free DNA testing of an extended range of chromosomal anomalies: clinical experience with 6,388 consecutive cases

Pescia, Graziano, Guex, Nicolas, Iseli, Christian, Brennan, Liam, Osteras, Magne, Xenarios, Ioannis, Farinelli, Laurent, Conrad, Bernard

Journal:

Genetics in Medicine

Year:

2016

Language:

english

File:

PDF, 618 KB

english, 2016

48

Improving the sensitivity of the sequence profile method

Roland Lüthy, Ioannis Xenarios, Philipp Bucher

Journal:

Protein Science

Year:

1994

Language:

english

File:

PDF, 632 KB

english, 1994

49

CDK9 Regulates AR Promoter Selectivity and Cell Growth through Serine 81 Phosphorylation

Gordon, Vicki, Bhadel, Shriti, Wunderlich, Winfried, Zhang, JoAnn, Ficarro, Scott B., Mollah, Sahana A., Shabanowitz, Jeffrey, Hunt, Donald F., Xenarios, Ioannis, Hahn, William C., Conaway, Mark, Care

Journal:

Molecular Endocrinology

Year:

2010

Language:

english

File:

PDF, 450 KB

english, 2010

50

New molecular insights into modulation of platelet reactivity in aspirin-treated patients using a network-based approach

Zufferey, Anne, Ibberson, Mark, Reny, Jean-Luc, Nolli, Séverine, Schvartz, Domitille, Docquier, Mylène, Xenarios, Ioannis, Sanchez, Jean-Charles, Fontana, Pierre

Journal:

Year:

2016

Language:

english

File:

PDF, 1.25 MB

english, 2016

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