Publications by authors named "Florian Nigsch"

39 Publications

BET bromodomain inhibitors regulate keratinocyte plasticity.

Authors:
Gabi Schutzius Christian Kolter Sebastian Bergling Federico Tortelli Florian Fuchs Steffen Renner Vito Guagnano Simona Cotesta Heinrich Rueeger Michael Faller Laure Bouchez Adrian Salathe Florian Nigsch Shola M Richards Malvina Louis Viktoria Gruber Alexandra Aebi Jonathan Turner Frederic Grandjean Jun Li Chris Dimitri Jason R Thomas Markus Schirle Jutta Blank Peter Drueckes Andrea Vaupel Ralph Tiedt Paul W Manley Julia Klopp Rene Hemmig Florence Zink Nelly Leroy Walter Carbone Guglielmo Roma Caroline Gubser Keller Natalie Dales Armin Beyerbach Alfred Zimmerlin Debora Bonenfant Remi Terranova Amy Berwick Sukhdeep Sahambi Aimee Reynolds Lori L Jennings Heinz Ruffner Peter Tarsa Tewis Bouwmeester Vickie Driver Mathias Frederiksen Felix Lohmann Susan Kirkland

Nat Chem Biol 2021 Mar 18;17(3):280-290. Epub 2021 Jan 18.

Novartis Institutes for BioMedical Research, Basel, Switzerland.

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March 2021

Cell Types of the Human Retina and Its Organoids at Single-Cell Resolution.

Authors:
Cameron S Cowan Magdalena Renner Martina De Gennaro Brigitte Gross-Scherf David Goldblum Yanyan Hou Martin Munz Tiago M Rodrigues Jacek Krol Tamas Szikra Rachel Cuttat Annick Waldt Panagiotis Papasaikas Roland Diggelmann Claudia P Patino-Alvarez Patricia Galliker Stefan E Spirig Dinko Pavlinic Nadine Gerber-Hollbach Sven Schuierer Aldin Srdanovic Marton Balogh Riccardo Panero Akos Kusnyerik Arnold Szabo Michael B Stadler Selim Orgül Simone Picelli Pascal W Hasler Andreas Hierlemann Hendrik P N Scholl Guglielmo Roma Florian Nigsch Botond Roska

Cell 2020 Sep;182(6):1623-1640.e34

Institute of Molecular and Clinical Ophthalmology Basel, 4031 Basel, Switzerland; Friedrich Miescher Institute for Biomedical Research, 4058 Basel, Switzerland; Department of Ophthalmology, University of Basel, 4031 Basel, Switzerland. Electronic address:

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September 2020

Systematic Chemogenetic Library Assembly.

Authors:
Stephen M Canham Yuan Wang Allen Cornett Douglas S Auld Daniel K Baeschlin Maude Patoor Philip R Skaanderup Ayako Honda Luis Llamas Greg Wendel Felipa A Mapa Peter Aspesi Nancy Labbé-Giguère Gabriel G Gamber Daniel S Palacios Ansgar Schuffenhauer Zhan Deng Florian Nigsch Mathias Frederiksen Simon M Bushell Deborah Rothman Rishi K Jain Horst Hemmerle Karin Briner Jeffery A Porter John A Tallarico Jeremy L Jenkins

Cell Chem Biol 2020 Sep 23;27(9):1124-1129. Epub 2020 Jul 23.

Novartis Institute for BioMedical Research, 181 Massachusetts Avenue, Cambridge, MA 02139, USA. Electronic address:

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September 2020

Farnesoid X Receptor Agonism, Acetyl-Coenzyme A Carboxylase Inhibition, and Back Translation of Clinically Observed Endpoints of Lipogenesis in a Murine NASH Model.

Authors:
Berangere Gapp Marie Jourdain Pauline Bringer Benjamin Kueng Delphine Weber Arnaud Osmont Stefan Zurbruegg Judith Knehr Rocco Falchetto Guglielmo Roma William Dietrich Reginald Valdez Nicolau Beckmann Florian Nigsch Arun J Sanyal Iwona Ksiazek

Hepatol Commun 2020 Jan 8;4(1):109-125. Epub 2019 Nov 8.

Disease Area X Novartis Institutes for BioMedical Research Basel Switzerland.

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January 2020

IRF2 is a master regulator of human keratinocyte stem cell fate.

Authors:
Nicolas Mercado Gabi Schutzius Christian Kolter David Estoppey Sebastian Bergling Guglielmo Roma Caroline Gubser Keller Florian Nigsch Adrian Salathe Remi Terranova John Reece-Hoyes John Alford Carsten Russ Judith Knehr Dominic Hoepfner Alexandra Aebi Heinz Ruffner Tanner C Beck Sajjeev Jagannathan Calla M Olson Hadley E Sheppard Selma Z Elsarrag Tewis Bouwmeester Mathias Frederiksen Felix Lohmann Charles Y Lin Susan Kirkland

Nat Commun 2019 10 14;10(1):4676. Epub 2019 Oct 14.

Chemical Biology & Therapeutics, Novartis Institutes for Biomedical Research, Novartis Pharma AG, Forum 1 Novartis Campus, CH-4056, Basel, Switzerland.

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October 2019

CellSIUS provides sensitive and specific detection of rare cell populations from complex single-cell RNA-seq data.

Authors:
Rebekka Wegmann Marilisa Neri Sven Schuierer Bilada Bilican Huyen Hartkopf Florian Nigsch Felipa Mapa Annick Waldt Rachel Cuttat Max R Salick Joe Raymond Ajamete Kaykas Guglielmo Roma Caroline Gubser Keller

Genome Biol 2019 07 17;20(1):142. Epub 2019 Jul 17.

Novartis Institutes for Biomedical Research, Basel, Switzerland.

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July 2019

YAP, but Not RSPO-LGR4/5, Signaling in Biliary Epithelial Cells Promotes a Ductular Reaction in Response to Liver Injury.

Authors:
Lara Planas-Paz Tianliang Sun Monika Pikiolek Nadire R Cochran Sebastian Bergling Vanessa Orsini Zinger Yang Frederic Sigoillot Jasna Jetzer Maryam Syed Marilisa Neri Sven Schuierer Lapo Morelli Philipp S Hoppe Wibke Schwarzer Carlos M Cobos John L Alford Le Zhang Rachel Cuttat Annick Waldt Nicole Carballido-Perrig Florian Nigsch Bernd Kinzel Thomas B Nicholson Yi Yang Xiaohong Mao Luigi M Terracciano Carsten Russ John S Reece-Hoyes Caroline Gubser Keller Andreas W Sailer Tewis Bouwmeester Linda E Greenbaum Jesse J Lugus Feng Cong Gregory McAllister Gregory R Hoffman Guglielmo Roma Jan S Tchorz

Cell Stem Cell 2019 07 9;25(1):39-53.e10. Epub 2019 May 9.

Novartis Institutes for BioMedical Research, Novartis Pharma AG, Basel, Switzerland. Electronic address:

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July 2019

Transcriptomic analysis reveals reduced transcriptional activity in the malaria parasite during progression into dormancy.

Authors:
Nicole L Bertschi Annemarie Voorberg-van der Wel Anne-Marie Zeeman Sven Schuierer Florian Nigsch Walter Carbone Judith Knehr Devendra K Gupta Sam O Hofman Nicole van der Werff Ivonne Nieuwenhuis Els Klooster Bart W Faber Erika L Flannery Sebastian A Mikolajczak Vorada Chuenchob Binesh Shrestha Martin Beibel Tewis Bouwmeester Niwat Kangwanrangsan Jetsumon Sattabongkot Thierry T Diagana Clemens Hm Kocken Guglielmo Roma

Elife 2018 12 27;7. Epub 2018 Dec 27.

Novartis Institutes for BioMedical Research, Novartis Pharma AG, Basel, Europe.

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December 2018

Genome-wide CRISPR screen for PARKIN regulators reveals transcriptional repression as a determinant of mitophagy.

Authors:
Christoph Potting Christophe Crochemore Francesca Moretti Florian Nigsch Isabel Schmidt Carole Manneville Walter Carbone Judith Knehr Rowena DeJesus Alicia Lindeman Rob Maher Carsten Russ Gregory McAllister John S Reece-Hoyes Gregory R Hoffman Guglielmo Roma Matthias Müller Andreas W Sailer Stephen B Helliwell

Proc Natl Acad Sci U S A 2018 01 21;115(2):E180-E189. Epub 2017 Dec 21.

Novartis Institutes for BioMedical Research, Basel CH 4002, Switzerland;

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January 2018

A comparative transcriptomic analysis of replicating and dormant liver stages of the relapsing malaria parasite .

Authors:
Annemarie Voorberg-van der Wel Guglielmo Roma Devendra Kumar Gupta Sven Schuierer Florian Nigsch Walter Carbone Anne-Marie Zeeman Boon Heng Lee Sam O Hofman Bart W Faber Judith Knehr Erica Pasini Bernd Kinzel Pablo Bifani Ghislain M C Bonamy Tewis Bouwmeester Clemens H M Kocken Thierry Tidiane Diagana

Elife 2017 12 7;6. Epub 2017 Dec 7.

Novartis Institute for Tropical Diseases, Singapore, Singapore.

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December 2017

Multidimensional pooled shRNA screens in human THP-1 cells identify candidate modulators of macrophage polarization.

Authors:
Ewa Surdziel Ieuan Clay Florian Nigsch Anke Thiemeyer Cyril Allard Gregory Hoffman John S Reece-Hoyes Tanushree Phadke Romain Gambert Caroline Gubser Keller Marie-Gabrielle Ludwig Birgit Baumgarten Mathias Frederiksen Dirk Schübeler Klaus Seuwen Tewis Bouwmeester Barna D Fodor

PLoS One 2017 24;12(8):e0183679. Epub 2017 Aug 24.

Novartis Institutes for Biomedical Research, Basel, Switzerland.

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October 2017

Screening of Intestinal Crypt Organoids: A Simple Readout for Complex Biology.

Authors:
Svenja Ley Olaf Galuba Adrian Salathe Nicolas Melin Alexandra Aebi Monika Pikiolek Judith Knehr Walter Carbone Martin Beibel Florian Nigsch Guglielmo Roma Giovanni d'Ario Susan Kirkland Laure C Bouchez Caroline Gubser Keller Tewis Bouwmeester Christian N Parker Heinz Ruffner

SLAS Discov 2017 06 6;22(5):571-582. Epub 2017 Jan 6.

1 Novartis Institutes for BioMedical Research (NIBR), Developmental and Molecular Pathways (DMP), Basel, Switzerland.

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June 2017

Corrigendum: The RSPO-LGR4/5-ZNRF3/RNF43 module controls liver zonation and size.

Authors:
Lara Planas-Paz Vanessa Orsini Luke Boulter Diego Calabrese Monika Pikiolek Florian Nigsch Yang Xie Guglielmo Roma Adriana Donovan Patricia Marti Nicolau Beckmann Michael T Dill Walter Carbone Sebastian Bergling Andrea Isken Matthias Mueller Bernd Kinzel Yi Yang Xiaohong Mao Thomas B Nicholson Raffaella Zamponi Paola Capodieci Reginald Valdez Daniel Rivera Andreas Loew Chinweike Ukomadu Luigi M Terracciano Tewis Bouwmeester Feng Cong Markus H Heim Stuart J Forbes Heinz Ruffner Jan S Tchorz

Nat Cell Biol 2016 10;18(11):1260

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October 2016

Data-Driven Derivation of an "Informer Compound Set" for Improved Selection of Active Compounds in High-Throughput Screening.

Authors:
Shardul Paricharak Adriaan P IJzerman Jeremy L Jenkins Andreas Bender Florian Nigsch

J Chem Inf Model 2016 09 16;56(9):1622-30. Epub 2016 Aug 16.

Developmental & Molecular Pathways, Novartis Institutes for BioMedical Research , Novartis Pharma AG, Novartis Campus, 4056 Basel, Switzerland.

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September 2016

Evidence-Based and Quantitative Prioritization of Tool Compounds in Phenotypic Drug Discovery.

Authors:
Yuan Wang Allen Cornett Fred J King Yi Mao Florian Nigsch C Gregory Paris Gregory McAllister Jeremy L Jenkins

Cell Chem Biol 2016 07 14;23(7):862-874. Epub 2016 Jul 14.

Novartis Institutes for BioMedical Research Inc., 250 Massachusetts Avenue, Cambridge, MA 02139, USA. Electronic address:

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July 2016

The RSPO-LGR4/5-ZNRF3/RNF43 module controls liver zonation and size.

Authors:
Lara Planas-Paz Vanessa Orsini Luke Boulter Diego Calabrese Monika Pikiolek Florian Nigsch Yang Xie Guglielmo Roma Adriana Donovan Patricia Marti Nicolau Beckmann Michael T Dill Walter Carbone Sebastian Bergling Andrea Isken Matthias Mueller Bernd Kinzel Yi Yang Xiaohong Mao Thomas B Nicholson Raffaella Zamponi Paola Capodieci Reginald Valdez Daniel Rivera Andreas Loew Chinweike Ukomadu Luigi M Terracciano Tewis Bouwmeester Feng Cong Markus H Heim Stuart J Forbes Heinz Ruffner Jan S Tchorz

Nat Cell Biol 2016 05 18;18(5):467-79. Epub 2016 Apr 18.

Novartis Institutes for BioMedical Research, Novartis Pharma AG, 4056 Basel, Switzerland.

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May 2016

Analysis of Iterative Screening with Stepwise Compound Selection Based on Novartis In-house HTS Data.

Authors:
Shardul Paricharak Adriaan P IJzerman Andreas Bender Florian Nigsch

ACS Chem Biol 2016 05 26;11(5):1255-64. Epub 2016 Feb 26.

Novartis Institutes for BioMedical Research, Novartis Pharma AG , Novartis Campus, 4056 Basel, Switzerland.

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May 2016

Causal Network Models for Predicting Compound Targets and Driving Pathways in Cancer.

Authors:
Savina Jaeger Junxia Min Florian Nigsch Miguel Camargo Janna Hutz Allen Cornett Stephen Cleaver Alan Buckler Jeremy L Jenkins

J Biomol Screen 2014 Jun 11;19(5):791-802. Epub 2014 Feb 11.

Developmental & Molecular Pathways, Novartis Institutes for BioMedical Research, Inc., Cambridge, MA, USA.

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June 2014

High-resolution chemical dissection of a model eukaryote reveals targets, pathways and gene functions.

Authors:
Dominic Hoepfner Stephen B Helliwell Heather Sadlish Sven Schuierer Ireos Filipuzzi Sophie Brachat Bhupinder Bhullar Uwe Plikat Yann Abraham Marc Altorfer Thomas Aust Lukas Baeriswyl Raffaele Cerino Lena Chang David Estoppey Juerg Eichenberger Mathias Frederiksen Nicole Hartmann Annika Hohendahl Britta Knapp Philipp Krastel Nicolas Melin Florian Nigsch Edward J Oakeley Virginie Petitjean Frank Petersen Ralph Riedl Esther K Schmitt Frank Staedtler Christian Studer John A Tallarico Stefan Wetzel Mark C Fishman Jeffrey A Porter N Rao Movva

Microbiol Res 2014 Feb-Mar;169(2-3):107-20. Epub 2013 Dec 1.

Novartis Institutes for BioMedical Research, Novartis Campus, CH-4056 Basel, Switzerland.

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September 2014

The multidimensional perturbation value: a single metric to measure similarity and activity of treatments in high-throughput multidimensional screens.

Authors:
Janna E Hutz Thomas Nelson Hua Wu Gregory McAllister Ioannis Moutsatsos Savina A Jaeger Somnath Bandyopadhyay Florian Nigsch Ben Cornett Jeremy L Jenkins Douglas W Selinger

J Biomol Screen 2013 Apr 29;18(4):367-77. Epub 2012 Nov 29.

Novartis Institutes for Biomedical Research, Cambridge, MA 02139, USA.

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April 2013

Rethinking molecular similarity: comparing compounds on the basis of biological activity.

Authors:
Paula M Petrone Benjamin Simms Florian Nigsch Eugen Lounkine Peter Kutchukian Allen Cornett Zhan Deng John W Davies Jeremy L Jenkins Meir Glick

ACS Chem Biol 2012 Aug 31;7(8):1399-409. Epub 2012 May 31.

Center for Proteomic Chemistry, Novartis Institutes for Biomedical Research Inc., 250 Massachusetts Avenue, Cambridge, MA 02139, USA.

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August 2012

Determination of minimal transcriptional signatures of compounds for target prediction.

Authors:
Florian Nigsch Janna Hutz Ben Cornett Douglas W Selinger Gregory McAllister Somnath Bandyopadhyay Joseph Loureiro Jeremy L Jenkins

EURASIP J Bioinform Syst Biol 2012 May 10;2012(1). Epub 2012 May 10.

Developmental and Molecular Pathways, Novartis Institutes for BioMedical Research, Forum 1, Novartis Campus Basel, CH-4056, Basel, Switzerland.

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May 2012

Predicting the mechanism of phospholipidosis.

Authors:
Robert Lowe Hamse Y Mussa Florian Nigsch Robert C Glen John Bo Mitchell

J Cheminform 2012 Jan 26;4. Epub 2012 Jan 26.

Biomedical Sciences Research Complex and EaStCHEM School of Chemistry, Purdie Building, University of St Andrews, North Haugh, St Andrews, Scotland KY16 9ST, UK.

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January 2012

Activity-aware clustering of high throughput screening data and elucidation of orthogonal structure-activity relationships.

Authors:
Eugen Lounkine Florian Nigsch Jeremy L Jenkins Meir Glick

J Chem Inf Model 2011 Dec 7;51(12):3158-68. Epub 2011 Dec 7.

Novartis Institutes for Biomedical Research, 250 Massachusetts Ave., Cambridge, Massachusetts 02139, USA.

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December 2011

Computational methods for early predictive safety assessment from biological and chemical data.

Authors:
Florian Nigsch Eugen Lounkine Patrick McCarren Ben Cornett Meir Glick Kamal Azzaoui Laszlo Urban Philippe Marc Arne Müller Florian Hahne David J Heard Jeremy L Jenkins

Expert Opin Drug Metab Toxicol 2011 Dec 4;7(12):1497-511. Epub 2011 Nov 4.

Novartis Institutes for BioMedical Research, Inc., Chemical Biology Informatics, Quantitative Biology, Developmental and Molecular Pathways, 220 Massachusetts Avenue, 02139 Cambridge, MA, USA.

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December 2011

Online chemical modeling environment (OCHEM): web platform for data storage, model development and publishing of chemical information.

Authors:
Iurii Sushko Sergii Novotarskyi Robert Körner Anil Kumar Pandey Matthias Rupp Wolfram Teetz Stefan Brandmaier Ahmed Abdelaziz Volodymyr V Prokopenko Vsevolod Y Tanchuk Roberto Todeschini Alexandre Varnek Gilles Marcou Peter Ertl Vladimir Potemkin Maria Grishina Johann Gasteiger Christof Schwab Igor I Baskin Vladimir A Palyulin Eugene V Radchenko William J Welsh Vladyslav Kholodovych Dmitriy Chekmarev Artem Cherkasov Joao Aires-de-Sousa Qing-You Zhang Andreas Bender Florian Nigsch Luc Patiny Antony Williams Valery Tkachenko Igor V Tetko

J Comput Aided Mol Des 2011 Jun 10;25(6):533-54. Epub 2011 Jun 10.

eADMET GmbH, Ingolstädter Landstraße 1, 85764, Neuherberg, Germany.

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June 2011

Recent trends and observations in the design of high-quality screening collections.

Authors:
Steffen Renner Maxim Popov Ansgar Schuffenhauer Hans-Joerg Roth Werner Breitenstein Andreas Marzinzik Ian Lewis Philipp Krastel Florian Nigsch Jeremy Jenkins Edgar Jacoby

Future Med Chem 2011 Apr;3(6):751-66

Novartis Institutes for BioMedical Research, Center for Proteomic Chemistry, Forum 1, Novartis Campus, CH-4056 Basel, Switzerland.

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April 2011

Classifying large chemical data sets: using a regularized potential function method.

Authors:
Hamse Y Mussa Lezan Hawizy Florian Nigsch Robert C Glen

J Chem Inf Model 2011 Jan 15;51(1):4-14. Epub 2010 Dec 15.

Unilever Centre for Molecular Sciences Informatics, Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, United Kingdom.

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January 2011

A lead discovery strategy driven by a comprehensive analysis of proteases in the peptide substrate space.

Authors:
Sai Chetan K Sukuru Florian Nigsch Jean Quancard Martin Renatus Rajiv Chopra Natasja Brooijmans Dmitri Mikhailov Zhan Deng Allen Cornett Jeremy L Jenkins Ulrich Hommel John W Davies Meir Glick

Protein Sci 2010 Nov;19(11):2096-109

Lead Discovery Informatics, Lead Finding Platform, Novartis Institutes for BioMedical Research, Inc., 250 Massachusetts Avenue, Cambridge, Massachusetts 02139, USA.

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November 2010

Computational toxicology: an overview of the sources of data and of modelling methods.

Authors:
Florian Nigsch N J Maximilan Macaluso John B O Mitchell Donatas Zmuidinavicius

Expert Opin Drug Metab Toxicol 2009 Jan;5(1):1-14

Unilever Centre for Molecular Science Informatics, Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, UK.

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January 2009