J
Josef Spidlen
Researcher at BC Cancer Agency
Publications - 38
Citations - 3044
Josef Spidlen is an academic researcher from BC Cancer Agency. The author has contributed to research in topics: Flow Cytometry Standard & FlowJo. The author has an hindex of 15, co-authored 38 publications receiving 2316 citations. Previous affiliations of Josef Spidlen include University of British Columbia & Academy of Sciences of the Czech Republic.
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Journal ArticleDOI
Guidelines for the use of flow cytometry and cell sorting in immunological studies (second edition)
Andrea Cossarizza,Hyun-Dong Chang,Andreas Radbruch,Andreas Acs,Dieter Adam,Sabine Adam-Klages,William W. Agace,William W. Agace,Nima Aghaeepour,Mübeccel Akdis,Matthieu Allez,Larissa Nogueira Almeida,Giorgia Alvisi,Graham Anderson,Immanuel Andrä,Francesco Annunziato,Achille Anselmo,Petra Bacher,Cosima T. Baldari,Sudipto Bari,Vincenzo Barnaba,Vincenzo Barnaba,Joana Barros-Martins,Luca Battistini,Wolfgang Bauer,Sabine Baumgart,Nicole Baumgarth,Dirk Baumjohann,Bianka Baying,Mary Bebawy,Burkhard Becher,Wolfgang Beisker,Vladimir Benes,Rudi Beyaert,Alfonso Blanco,Dominic A. Boardman,Christian Bogdan,Jessica G. Borger,Giovanna Borsellino,Philip E. Boulais,Jolene Bradford,Dirk Brenner,Dirk Brenner,Ryan R. Brinkman,Anna E. S. Brooks,Dirk H. Busch,Martin Büscher,Timothy P. Bushnell,Federica Calzetti,Garth Cameron,Ilenia Cammarata,Xuetao Cao,Susanna Cardell,Stefano Casola,Marco A. Cassatella,Andrea Cavani,Antonio Celada,Lucienne Chatenoud,Pratip K. Chattopadhyay,Sue Chow,Eleni Christakou,Eleni Christakou,Luka Cicin-Sain,Mario Clerici,Federico Colombo,Laura Cook,Anne Cooke,Andrea M. Cooper,Alexandra J. Corbett,Antonio Cosma,Lorenzo Cosmi,Pierre Coulie,Ana Cumano,Ljiljana Cvetkovic,Van Duc Dang,Chantip Dang-Heine,Martin S. Davey,Derek Davies,Sara De Biasi,Genny Del Zotto,Gelo Victoriano Dela Cruz,Michael Delacher,Silvia Della Bella,Paolo Dellabona,Günnur Deniz,Mark C. Dessing,James P. Di Santo,Andreas Diefenbach,Francesco Dieli,Andreas Dolf,Thomas Dörner,Regine J. Dress,Diana Dudziak,Michael L. Dustin,Charles-Antoine Dutertre,Charles-Antoine Dutertre,Friederike Ebner,Sidonia B G Eckle,Matthias Edinger,Pascale Eede,Götz R. A. Ehrhardt,Marcus Eich,Pablo Engel,Britta Engelhardt,Anna Erdei,Charlotte Esser,Bart Everts,Maximilien Evrard,Christine S. Falk,Todd A. Fehniger,Mar Felipo-Benavent,Helen Ferry,Markus Feuerer,Andrew Filby,Kata Filkor,Simon Fillatreau,Marie Follo,Irmgard Förster,John Bellamy Foster,Gemma A. Foulds,Britta Frehse,Paul S. Frenette,Stefan Frischbutter,Wolfgang Fritzsche,David W. Galbraith,David W. Galbraith,Anastasia Gangaev,Natalio Garbi,Brice Gaudilliere,Ricardo T. Gazzinelli,Ricardo T. Gazzinelli,Jens Geginat,Wilhelm Gerner,Nicholas A Gherardin,Kamran Ghoreschi,Lara Gibellini,Florent Ginhoux,Florent Ginhoux,Florent Ginhoux,Keisuke Goda,Keisuke Goda,Keisuke Goda,Dale I. Godfrey,Christoph Goettlinger,José M. González-Navajas,Carl S. Goodyear,Andrea Gori,Jane L. Grogan,Daryl Grummitt,Andreas Grützkau,Claudia Haftmann,Jonas Hahn,Hamida Hammad,Günter J. Hämmerling,Leo Hansmann,Göran K. Hansson,Christopher M. Harpur,Susanne Hartmann,Andrea Hauser,Anja E. Hauser,David L. Haviland,David W. Hedley,Daniela C. Hernández,Guadalupe Herrera,Martin Herrmann,Christoph Hess,Christoph Hess,Thomas Höfer,Petra Hoffmann,Kristin A. Hogquist,Tristan Holland,Thomas Höllt,Thomas Höllt,Rikard Holmdahl,Pleun Hombrink,Jessica P. Houston,Bimba F. Hoyer,Bo Huang,Fang-Ping Huang,Johanna Huber,Jochen Huehn,Michael Hundemer,Christopher A. Hunter,William Hwang,William Hwang,Anna Iannone,Florian Ingelfinger,Sabine Ivison,Hans-Martin Jäck,Peter K. Jani,Beatriz Jávega,Stipan Jonjić,Toralf Kaiser,Tomas Kalina,Thomas Kamradt,Stefan H. E. Kaufmann,Baerbel Keller,Steven L. C. Ketelaars,Ahad Khalilnezhad,Ahad Khalilnezhad,Srijit Khan,Jan Kisielow,Paul Klenerman,Jasmin Knopf,Hui-Fern Koay,Katja Kobow,Jay K. Kolls,Wan Ting Kong,Manfred Kopf,Thomas Korn,Katharina Kriegsmann,Hendy Kristyanto,Thomas Kroneis,Andreas Krueger,J. Kühne,Christian Kukat,Désirée Kunkel,Heike Kunze-Schumacher,Tomohiro Kurosaki,Christian Kurts,Pia Kvistborg,Immanuel Kwok,Immanuel Kwok,Jonathan J M Landry,Olivier Lantz,Paola Lanuti,Francesca LaRosa,Agnès Lehuen,Salomé LeibundGut-Landmann,Michael D. Leipold,Leslie Y. T. Leung,Megan K. Levings,Andreia C. Lino,Francesco Liotta,Virginia Litwin,Yanling Liu,Hans-Gustaf Ljunggren,Michael Lohoff,Giovanna Lombardi,Lilly Lopez,Miguel López-Botet,Amy E. Lovett-Racke,Erik Lubberts,Hervé Luche,Burkhard Ludewig,Enrico Lugli,Sebastian Lunemann,Holden T. Maecker,Laura Maggi,Orla Maguire,Florian Mair,Kerstin H. Mair,Alberto Mantovani,Rudolf A. Manz,Aaron J. Marshall,Alicia Martínez-Romero,Gloria Martrus,Ivana Marventano,Wlodzimierz Maslinski,Giuseppe Matarese,Anna Vittoria Mattioli,Christian Maueröder,Christian Maueröder,Alessio Mazzoni,James McCluskey,Mairi McGrath,Helen M. McGuire,Iain B. McInnes,Henrik E. Mei,Fritz Melchers,Susanne Melzer,Dirk Mielenz,Stephen D. Miller,Kingston H. G. Mills,Hans Minderman,Jenny Mjösberg,Jenny Mjösberg,Jonni S. Moore,Barry Moran,Lorenzo Moretta,Tim R. Mosmann,Susann Müller,Gabriele Multhoff,Luis E. Muñoz,Christian Münz,Toshinori Nakayama,Milena Nasi,Katrin Neumann,Lai Guan Ng,Antonia Niedobitek,Sussan Nourshargh,Gabriel Núñez,José-Enrique O'Connor,A Ochel,Anna E. Oja,Diana Ordonez,Alberto Orfao,Eva Orlowski-Oliver,Wenjun Ouyang,Annette Oxenius,Raghavendra Palankar,Isabel Panse,Kovit Pattanapanyasat,Malte Paulsen,Dinko Pavlinic,Livius Penter,Pärt Peterson,Christian Peth,Jordi Petriz,Federica Piancone,Winfried F. Pickl,Silvia Piconese,Marcello Pinti,A. Graham Pockley,Malgorzata J. Podolska,Zhiyong Poon,Katharina Pracht,Immo Prinz,Carlo Pucillo,Sally A. Quataert,Linda Quatrini,Kylie M. Quinn,Kylie M. Quinn,Helena Radbruch,Tim R. Radstake,Susann Rahmig,Hans-Peter Rahn,Bartek Rajwa,Gevitha Ravichandran,Yotam Raz,Jonathan Rebhahn,Diether J. Recktenwald,Dorothea Reimer,Caetano Reis e Sousa,Ester B. M. Remmerswaal,Lisa Richter,Laura G. Rico,Andy Riddell,Aja M. Rieger,J. Paul Robinson,Chiara Romagnani,Anna Rubartelli,Jürgen Ruland,Armin Saalmüller,Yvan Saeys,Takashi Saito,Shimon Sakaguchi,Francisco Sala-de-Oyanguren,Yvonne Samstag,Sharon Sanderson,Inga Sandrock,Angela Santoni,Ramon Bellmas Sanz,Marina Saresella,Catherine Sautès-Fridman,Birgit Sawitzki,Linda Schadt,Alexander Scheffold,Hans Scherer,Matthias Schiemann,Frank A. Schildberg,Esther Schimisky,Andreas Schlitzer,Josephine Schlosser,S Schmid,Steffen Schmitt,Kilian Schober,Daniel Schraivogel,Wolfgang Schuh,Thomas Schüler,Reiner Schulte,Axel Schulz,Sebastian R. Schulz,Cristiano Scottà,Daniel Scott-Algara,David P. Sester,T. Vincent Shankey,Bruno Silva-Santos,Anna Katharina Simon,Katarzyna M. Sitnik,Silvano Sozzani,Daniel E. Speiser,Josef Spidlen,Anders Ståhlberg,Alan M. Stall,Natalie Stanley,Regina Stark,Christina Stehle,Tobit Steinmetz,Hannes Stockinger,Yousuke Takahama,Kiyoshi Takeda,Leonard Tan,Leonard Tan,Attila Tárnok,Attila Tárnok,Attila Tárnok,Gisa Tiegs,Gergely Toldi,Julia Tornack,Elisabetta Traggiai,Mohamed Trebak,Timothy Tree,Timothy Tree,Joe Trotter,John Trowsdale,Maria Tsoumakidou,Henning Ulrich,Sophia Urbanczyk,Willem van de Veen,Maries van den Broek,Edwin van der Pol,Sofie Van Gassen,Gert Van Isterdael,René A. W. van Lier,Marc Veldhoen,Salvador Vento-Asturias,Paulo Vieira,David Voehringer,Hans-Dieter Volk,Anouk von Borstel,Konrad von Volkmann,Ari Waisman,Rachael C. Walker,Paul K. Wallace,Sa A. Wang,Xin M. Wang,Michael D. Ward,Kirsten A. Ward-Hartstonge,Klaus Warnatz,Gary Warnes,Sarah Warth,Claudia Waskow,Claudia Waskow,James V. Watson,Carsten Watzl,Leonie Wegener,Thomas Weisenburger,Annika Wiedemann,Jürgen Wienands,Anneke Wilharm,Robert J. Wilkinson,Robert J. Wilkinson,Robert J. Wilkinson,Gerald Willimsky,James B. Wing,Rieke Winkelmann,Thomas Winkler,Oliver F. Wirz,Alicia Wong,Peter Wurst,Jennie H M Yang,Jennie H M Yang,Juhao Yang,Maria Yazdanbakhsh,Liping Yu,Alice Yue,Hanlin Zhang,Yi Zhao,Susanne Ziegler,Christina E. Zielinski,Jakob Zimmermann,Arturo Zychlinsky +462 more
TL;DR: These guidelines are a consensus work of a considerable number of members of the immunology and flow cytometry community providing the theory and key practical aspects offlow cytometry enabling immunologists to avoid the common errors that often undermine immunological data.
Journal ArticleDOI
flowCore: a Bioconductor package for high throughput flow cytometry.
Florian Hahne,Nolwenn LeMeur,Nolwenn LeMeur,Ryan R. Brinkman,Byron Ellis,Perry D. Haaland,Deepayan Sarkar,Josef Spidlen,Errol Strain,Robert Gentleman +9 more
TL;DR: A set of flexible open source computational tools in the R package flowCore that constitutes a shared and extensible research platform that enables collaboration between bioinformaticians, computer scientists, statisticians, biologists and clinicians will foster the development of novel analytic methods for flow cytometry.
Journal ArticleDOI
Guidelines for the use of flow cytometry and cell sorting in immunological studies
Andrea Cossarizza,Hyun-Dong Chang,Andreas Radbruch,Mübeccel Akdis,Immanuel Andrä,Francesco Annunziato,Petra Bacher,Vincenzo Barnaba,Luca Battistini,Wolfgang Bauer,Sabine Baumgart,Burkhard Becher,Wolfgang Beisker,Claudia Berek,Alfonso Blanco,Giovanna Borsellino,Philip E. Boulais,Ryan R. Brinkman,Ryan R. Brinkman,Martin Büscher,Dirk H. Busch,Timothy P. Bushnell,Xuetao Cao,Xuetao Cao,Xuetao Cao,Andrea Cavani,Pratip K. Chattopadhyay,Qingyu Cheng,Sue Chow,Mario Clerici,Anne Cooke,Antonio Cosma,Lorenzo Cosmi,Ana Cumano,Van Duc Dang,Derek Davies,Sara De Biasi,Genny Del Zotto,Silvia Della Bella,Paolo Dellabona,Günnur Deniz,Mark C. Dessing,Andreas Diefenbach,James P. Di Santo,Francesco Dieli,Andreas Dolf,Vera S. Donnenberg,Thomas Dörner,Götz R. A. Ehrhardt,Elmar Endl,Pablo Engel,Britta Engelhardt,Charlotte Esser,Bart Everts,Anita Dreher,Christine S. Falk,Todd A. Fehniger,Andrew Filby,Simon Fillatreau,Simon Fillatreau,Simon Fillatreau,Marie Follo,Irmgard Förster,John Bellamy Foster,Gemma A. Foulds,Paul S. Frenette,David W. Galbraith,Natalio Garbi,Maria Dolores García-Godoy,Jens Geginat,Kamran Ghoreschi,Lara Gibellini,Christoph Goettlinger,Carl S. Goodyear,Andrea Gori,Jane L. Grogan,Mor Gross,Andreas Grützkau,Daryl Grummitt,Jonas Hahn,Quirin Hammer,Anja E. Hauser,David L. Haviland,David W. Hedley,Guadalupe Herrera,Martin Herrmann,Falk Hiepe,Tristan Holland,Pleun Hombrink,Jessica P. Houston,Bimba F. Hoyer,Bo Huang,Bo Huang,Christopher A. Hunter,Anna Iannone,Hans-Martin Jäck,Beatriz Jávega,Stipan Jonjić,Kerstin Juelke,Steffen Jung,Toralf Kaiser,Tomas Kalina,Baerbel Keller,Srijit Khan,Deborah Kienhöfer,Thomas Kroneis,Désirée Kunkel,Christian Kurts,Pia Kvistborg,Joanne Lannigan,Olivier Lantz,Anis Larbi,Salomé LeibundGut-Landmann,Michael D. Leipold,Megan K. Levings,Virginia Litwin,Yanling Liu,Michael Lohoff,Giovanna Lombardi,Lilly Lopez,Amy E. Lovett-Racke,Erik Lubberts,Burkhard Ludewig,Enrico Lugli,Holden T. Maecker,Gloria Martrus,Giuseppe Matarese,Christian Maueröder,Mairi McGrath,Iain B. McInnes,Henrik E. Mei,Fritz Melchers,Susanne Melzer,Dirk Mielenz,Kingston H. G. Mills,David Mirrer,Jenny Mjösberg,Jenny Mjösberg,Jonni S. Moore,Barry Moran,Alessandro Moretta,Lorenzo Moretta,Tim R. Mosmann,Susann Müller,Werner Müller,Christian Münz,Gabriele Multhoff,Luis E. Muñoz,Kenneth M. Murphy,Toshinori Nakayama,Milena Nasi,C. Neudörfl,John P. Nolan,Sussan Nourshargh,José-Enrique O'Connor,Wenjun Ouyang,Annette Oxenius,Raghav Palankar,Isabel Panse,Pärt Peterson,Christian Peth,Jordi Petriz,Daisy Philips,Winfried F. Pickl,Silvia Piconese,Marcello Pinti,A. Graham Pockley,Malgorzata J. Podolska,Carlo Pucillo,Sally A. Quataert,Timothy R D J Radstake,Bartek Rajwa,Jonathan Rebhahn,Diether J. Recktenwald,Ester B. M. Remmerswaal,Katy Rezvani,Laura G. Rico,J. Paul Robinson,Chiara Romagnani,Anna Rubartelli,Beate Rückert,Jürgen Ruland,Jürgen Ruland,Shimon Sakaguchi,Shimon Sakaguchi,Francisco Sala-de-Oyanguren,Yvonne Samstag,Sharon Sanderson,Birgit Sawitzki,Alexander Scheffold,Matthias Schiemann,Frank A. Schildberg,Esther Schimisky,S Schmid,Steffen Schmitt,Kilian Schober,Thomas Schüler,Axel R. Schulz,Ton N. Schumacher,Cristiano Scottà,T. Vincent Shankey,Anat Shemer,Anna Katharina Simon,Josef Spidlen,Alan M. Stall,Regina Stark,Christina Stehle,Merle Stein,Tobit Steinmetz,Hannes Stockinger,Yousuke Takahama,Attila Tárnok,Zhigang Tian,Zhigang Tian,Gergely Toldi,Julia Tornack,Elisabetta Traggiai,Joe Trotter,Henning Ulrich,Marlous van der Braber,René A. W. van Lier,Marcello Veldhoen,Salvador Vento-Asturias,Paulo Vieira,David Voehringer,Hans-Dieter Volk,Konrad von Volkmann,Ari Waisman,Rachael C. Walker,Michael D. Ward,Klaus Warnatz,Sarah Warth,James V. Watson,Carsten Watzl,Leonie Wegener,Annika Wiedemann,Jürgen Wienands,Gerald Willimsky,James B. Wing,James B. Wing,Peter Wurst,Liping Yu,Alice Yue,Qianjun Zhang,Yi Zhao,Susanne Ziegler,Jakob Zimmermann +246 more
TL;DR: A rapid search in PubMed shows that using "flow cytometry immunology" as a search term yields more than 68 000 articles, the first of which is not about lymphocytes as mentioned in this paper.
Journal ArticleDOI
MIFlowCyt: the minimum information about a Flow Cytometry Experiment.
Jamie A. Lee,Josef Spidlen,Keith S. Boyce,Jennifer Cai,Nicholas D. Crosbie,Mark E. Dalphin,Jeff Furlong,Maura Gasparetto,M. W. Goldberg,Elizabeth M. Goralczyk,Bill Hyun,Kirstin Jansen,Tobias R. Kollmann,Megan Kong,Robert C. Leif,Shannon K. McWeeney,Thomas D. Moloshok,Wayne A. Moore,Garry P. Nolan,John P. Nolan,Janko Nikolich-Zugich,David Parrish,Barclay Purcell,Yu Qian,Biruntha Selvaraj,Clayton A. Smith,Olga Tchuvatkina,Anne M. Wertheimer,Peter Wilkinson,Christopher B. Wilson,James C. S. Wood,Robert Zigon,Richard H. Scheuermann,Ryan R. Brinkman +33 more
TL;DR: The MIFlowCyt standard includes recommendations about descriptions of the specimens and reagents included in the FCM experiment, the configuration of the instrument used to perform the assays, and the data processing approaches used to interpret the primary output data.
Journal ArticleDOI
Automated optimized parameters for T-distributed stochastic neighbor embedding improve visualization and analysis of large datasets.
Anna C. Belkina,Christopher O. Ciccolella,Rina Anno,Richard Halpert,Josef Spidlen,Jennifer E. Snyder-Cappione +5 more
TL;DR: In this article, an automated toolkit for t-SNE parameter selection was developed that utilizes Kullback-Leibler divergence evaluation in real time to tailor the early exaggeration and overall number of gradient descent iterations in a dataset-specific manner.