Matthias Lienhard

Affiliations

Department of Computational Biology, Max Planck Institute for Molecular Genetics, 14195 Berlin, Germany.

Publications (20)

IsoTools: a flexible workflow for long-read transcriptome sequencing analysis.

Bioinformatics (Oxford, England)

Avec: Matthias Lienhard , Twan van den Beucken , Bernd Timmermann , Myriam Hochradel , Stefan Börno , Florian Caiment , Martin Vingron , Ralf Herwig

Combined Targeted Resequencing of Cytosine DNA Methylation and Mutations of DNA Repair Genes with Potential Use for Poly(ADP-Ribose) Polymerase 1 Inhibitor Sensitivity Testing.

The Journal of molecular diagnostics : JMD

Avec: Christina Grimm , Axel Fischer , Angela M Farrelly , Roshni Kalachand , Roberta Castiglione , Elena Wasserburger , Michelle Hussong , Anne M Schultheis , Janine Altmüller , Holger Thiele , H Christian Reinhardt , Kai Hauschulz , Bryan T Hennessy , Ralf Herwig , Matthias Lienhard , Reinhard Buettner , Michal R Schweiger

[Ronald D. Laing's "Radical Trip". Reflection on the Relationship Between Psychiatry, Anti-Psychiatry, and Science in the 1960s].

NTM

Avec: Marina Lienhard

Pre-Training on In Vitro and Fine-Tuning on Patient-Derived Data Improves Deep Neural Networks for Anti-Cancer Drug-Sensitivity Prediction.

Cancers

Avec: Paul Prasse , Pascal Iversen , Matthias Lienhard , Kristina Thedinga , Ralf Herwig , Tobias Scheffer

Network integration and modelling of dynamic drug responses at multi-omics levels.

Communications biology

Avec: Nathalie Selevsek , Florian Caiment , Ramona Nudischer , Hans Gmuender , Irina Agarkova , Francis L Atkinson , Ivo Bachmann , Vanessa Baier , Gal Barel , Chris Bauer , Stefan Boerno , Nicolas Bosc , Olivia Clayton , Henrik Cordes , Sally Deeb , Stefano Gotta , Patrick Guye , Anne Hersey , Fiona M I Hunter , Laura Kunz , Alex Lewalle , Matthias Lienhard , Jort Merken , Jasmine Minguet , Bernardo Oliveira , Carla Pluess , Ugis Sarkans , Yannick Schrooders , Johannes Schuchhardt , Ines Smit , Christoph Thiel , Bernd Timmermann , Marcha Verheijen , Timo Wittenberger , Witold Wolski , Alexandra Zerck , Stephane Heymans , Lars Kuepfer , Adrian Roth , Ralph Schlapbach , Steven Niederer , Ralf Herwig , Jos Kleinjans

Screening Electrocardiograms Have Low Utility in Medical Clearance Before Pediatric Inpatient Psychiatric Admission.

Pediatric emergency care

Avec: Sarah D Becker , Ellis Rochelson , Michael Lienhard , David Silber , Wenzhu B Mowrey , Lisa Hutchison

Cancer drug sensitivity estimation using modular deep Graph Neural Networks.

NAR genomics and bioinformatics

Avec: Pedro A Campana , Paul Prasse , Matthias Lienhard , Kristina Thedinga , Ralf Herwig , Tobias Scheffer

Depletion of TBC1D4 improves the metabolic exercise response by overcoming genetically induced peripheral insulin resistance.

Diabetes

Avec: Christian Springer , Christian Binsch , Deborah Weide , Laura Toska , Anna Lena Cremer , Heiko Backes , Anna K Scheel , Lena Espelage , Jörg Kotzka , Sebastian Sill , Anette Kurowski , Daebin Kim , Sandra Karpinski , Theresia M Schnurr , Torben Hansen , Sonja Hartwig , Stefan Lehr , Sandra Cames , Jens Brüning , Matthias Lienhard , Ralf Herwig , Stefan Börno , Bernd Timmermann , Hadi Al-Hasani , Alexandra Chadt

Long-read transcriptome sequencing of CLL and MDS patients uncovers molecular effects of

Genome research

Avec: Alicja Pacholewska , Matthias Lienhard , Mirko Brueggemann , Heike Haenel , Lorina Bilalli , Anja Koenigs , Felix Hess , Kerstin Becker , Karl Koehrer , Jesko Fabian Kaiser , Holger Gohlke , Norbert Gattermann , Michael Hallek , Carmen Diana Herling , Julian Koenig , Christina Grimm , Ralf Herwig , Kathi Zarnack , Michal R Schweiger

Large-scale literature mining to assess the relation between anti-cancer drugs and cancer types.

Journal of translational medicine

Avec: Chris Bauer , Ralf Herwig , Matthias Lienhard , Paul Prasse , Tobias Scheffer , Johannes Schuchhardt

Epirubicin Alters DNA Methylation Profiles Related to Cardiotoxicity.

Frontiers in bioscience (Landmark edition)

Avec: Nhan Nguyen , Matthias Lienhard , Ralf Herwig , Jos Kleinjans , Danyel Jennen

Deletion of Tbc1d4/As160 abrogates cardiac glucose uptake and increases myocardial damage after ischemia/reperfusion.

Cardiovascular diabetology

Avec: C Binsch , D M Barbosa , G Hansen-Dille , M Hubert , S M Hodge , M Kolasa , K Jeruschke , J Weiß , C Springer , S Gorressen , J W Fischer , M Lienhard , R Herwig , S Börno , B Timmermann , A L Cremer , H Backes , A Chadt , H Al-Hasani

Systematic assessment of long-read RNA-seq methods for transcript identification and quantification.

bioRxiv : the preprint server for biology

Avec: Francisco J Pardo-Palacios , Dingjie Wang , Fairlie Reese , Mark Diekhans , Sílvia Carbonell-Sala , Brian Williams , Jane E Loveland , Maite De María , Matthew S Adams , Gabriela Balderrama-Gutierrez , Amit K Behera , Jose M Gonzalez , Toby Hunt , Julien Lagarde , Cindy E Liang , Haoran Li , Marcus Jerryd Meade , David A Moraga Amador , Andrey D Prjibelski , Inanc Birol , Hamed Bostan , Ashley M Brooks , Muhammed Hasan Çelik , Ying Chen , Mei R M Du , Colette Felton , Jonathan Göke , Saber Hafezqorani , Ralf Herwig , Hideya Kawaji , Joseph Lee , Jian Liang Li , Matthias Lienhard , Alla Mikheenko , Dennis Mulligan , Ka Ming Nip , Mihaela Pertea , Matthew E Ritchie , Andre D Sim , Alison D Tang , Yuk Kei Wan , Changqing Wang , Brandon Y Wong , Chen Yang , If Barnes , Andrew Berry , Salvador Capella , Namrita Dhillon , Jose M Fernandez-Gonzalez , Luis Ferrández-Peral , Natàlia Garcia-Reyero , Stefan Goetz , Carles Hernández-Ferrer , Liudmyla Kondratova , Tianyuan Liu , Alessandra Martinez-Martin , Carlos Menor , Jorge Mestre-Tomás , Jonathan M Mudge , Nedka G Panayotova , Alejandro Paniagua , Dmitry Repchevsky , Eric Rouchka , Brandon Saint-John , Enrique Sapena , Leon Sheynkman , Melissa Laird Smith , Marie-Marthe Suner , Hazuki Takahashi , Ingrid Ashley Youngworth , Piero Carninci , Nancy D Denslow , Roderic Guigó , Margaret E Hunter , Hagen U Tilgner , Barbara J Wold , Christopher Vollmers , Adam Frankish , Kin Fai Au , Gloria M Sheynkman , Ali Mortazavi , Ana Conesa , Angela N Brooks

Neurofibromin 1 controls metabolic balance and Notch-dependent quiescence of murine juvenile myogenic progenitors.

Nature communications

Avec: Xiaoyan Wei , Angelos Rigopoulos , Matthias Lienhard , Sophie Pöhle-Kronawitter , Georgios Kotsaris , Julia Franke , Nikolaus Berndt , Joy Orezimena Mejedo , Hao Wu , Stefan Börno , Bernd Timmermann , Arunima Murgai , Rainer Glauben , Sigmar Stricker

DMSO induces drastic changes in human cellular processes and epigenetic landscape in vitro.

Scientific reports

Avec: M Verheijen , M Lienhard , Y Schrooders , O Clayton , R Nudischer , S Boerno , B Timmermann , N Selevsek , R Schlapbach , H Gmuender , S Gotta , J Geraedts , R Herwig , J Kleinjans , F Caiment

Matching anticancer compounds and tumor cell lines by neural networks with ranking loss.

NAR genomics and bioinformatics

Avec: Paul Prasse , Pascal Iversen , Matthias Lienhard , Kristina Thedinga , Chris Bauer , Ralf Herwig , Tobias Scheffer

PWD/Ph-Encoded Genetic Variants Modulate the Cellular Wnt/β-Catenin Response to Suppress

Cancer research

Avec: Alexandra L Farrall , Matthias Lienhard , Christina Grimm , Heiner Kuhl , Susanna H M Sluka , Marta Caparros , Jiri Forejt , Bernd Timmermann , Ralf Herwig , Bernhard G Herrmann , Markus Morkel

Altered DNA Methylation Profiles in

International journal of molecular sciences

Avec: Alicja Pacholewska , Christina Grimm , Carmen D Herling , Matthias Lienhard , Anja Königs , Bernd Timmermann , Janine Altmüller , Oliver Mücke , Hans Christian Reinhardt , Christoph Plass , Ralf Herwig , Michael Hallek , Michal R Schweiger

Deregulation and epigenetic modification of BCL2-family genes cause resistance to venetoclax in hematologic malignancies.

Blood

Avec: D Thomalla , L Beckmann , C Grimm , M Oliverio , L Meder , C D Herling , P Nieper , T Feldmann , O Merkel , E Lorsy , A da Palma Guerreiro , J von Jan , I Kisis , E Wasserburger , J Claasen , E Faitschuk-Meyer , J Altmüller , P Nürnberg , T-P Yang , M Lienhard , R Herwig , K-A Kreuzer , C P Pallasch , R Büttner , S C Schäfer , J Hartley , H Abken , M Peifer , H Kashkar , G Knittel , B Eichhorst , R T Ullrich , M Herling , H C Reinhardt , M Hallek , M R Schweiger , L P Frenzel

Systematic assessment of long-read RNA-seq methods for transcript identification and quantification.

Nature methods

Avec: Francisco J Pardo-Palacios , Dingjie Wang , Fairlie Reese , Mark Diekhans , Sílvia Carbonell-Sala , Brian Williams , Jane E Loveland , Maite De María , Matthew S Adams , Gabriela Balderrama-Gutierrez , Amit K Behera , Jose M Gonzalez Martinez , Toby Hunt , Julien Lagarde , Cindy E Liang , Haoran Li , Marcus Jerryd Meade , David A Moraga Amador , Andrey D Prjibelski , Inanc Birol , Hamed Bostan , Ashley M Brooks , Muhammed Hasan Çelik , Ying Chen , Mei R M Du , Colette Felton , Jonathan Göke , Saber Hafezqorani , Ralf Herwig , Hideya Kawaji , Joseph Lee , Jian-Liang Li , Matthias Lienhard , Alla Mikheenko , Dennis Mulligan , Ka Ming Nip , Mihaela Pertea , Matthew E Ritchie , Andre D Sim , Alison D Tang , Yuk Kei Wan , Changqing Wang , Brandon Y Wong , Chen Yang , If Barnes , Andrew E Berry , Salvador Capella-Gutierrez , Alyssa Cousineau , Namrita Dhillon , Jose M Fernandez-Gonzalez , Luis Ferrández-Peral , Natàlia Garcia-Reyero , Stefan Götz , Carles Hernández-Ferrer , Liudmyla Kondratova , Tianyuan Liu , Alessandra Martinez-Martin , Carlos Menor , Jorge Mestre-Tomás , Jonathan M Mudge , Nedka G Panayotova , Alejandro Paniagua , Dmitry Repchevsky , Xingjie Ren , Eric Rouchka , Brandon Saint-John , Enrique Sapena , Leon Sheynkman , Melissa Laird Smith , Marie-Marthe Suner , Hazuki Takahashi , Ingrid A Youngworth , Piero Carninci , Nancy D Denslow , Roderic Guigó , Margaret E Hunter , Rene Maehr , Yin Shen , Hagen U Tilgner , Barbara J Wold , Christopher Vollmers , Adam Frankish , Kin Fai Au , Gloria M Sheynkman , Ali Mortazavi , Ana Conesa , Angela N Brooks

Réseau de co-auteurs

Ralf Herwig 14 collaborations

Bernd Timmermann 6 collaborations

Christina Grimm 4 collaborations

Paul Prasse 4 collaborations

Tobias Scheffer 4 collaborations

Stefan Börno 3 collaborations

Michal R Schweiger 3 collaborations

Kristina Thedinga 3 collaborations

Chris Bauer 3 collaborations

M Lienhard 3 collaborations

R Herwig 3 collaborations

Florian Caiment 2 collaborations

Janine Altmüller 2 collaborations

Pascal Iversen 2 collaborations

Johannes Schuchhardt 2 collaborations

Jos Kleinjans 2 collaborations

Alicja Pacholewska 2 collaborations

Michael Hallek 2 collaborations

B Timmermann 2 collaborations

Francisco J Pardo-Palacios 2 collaborations

Dingjie Wang 2 collaborations

Fairlie Reese 2 collaborations

Mark Diekhans 2 collaborations

Sílvia Carbonell-Sala 2 collaborations

Brian Williams 2 collaborations

Jane E Loveland 2 collaborations

Maite De María 2 collaborations

Matthew S Adams 2 collaborations

Gabriela Balderrama-Gutierrez 2 collaborations

Amit K Behera 2 collaborations

Toby Hunt 2 collaborations

Julien Lagarde 2 collaborations

Cindy E Liang 2 collaborations

Haoran Li 2 collaborations

Marcus Jerryd Meade 2 collaborations

David A Moraga Amador 2 collaborations

Andrey D Prjibelski 2 collaborations

Inanc Birol 2 collaborations

Hamed Bostan 2 collaborations

Ashley M Brooks 2 collaborations

Muhammed Hasan Çelik 2 collaborations

Ying Chen 2 collaborations

Mei R M Du 2 collaborations

Colette Felton 2 collaborations

Jonathan Göke 2 collaborations

Saber Hafezqorani 2 collaborations

Hideya Kawaji 2 collaborations

Joseph Lee 2 collaborations

Alla Mikheenko 2 collaborations

Dennis Mulligan 2 collaborations

Ka Ming Nip 2 collaborations

Mihaela Pertea 2 collaborations

Matthew E Ritchie 2 collaborations

Andre D Sim 2 collaborations

Alison D Tang 2 collaborations

Yuk Kei Wan 2 collaborations

Changqing Wang 2 collaborations

Brandon Y Wong 2 collaborations

Chen Yang 2 collaborations

If Barnes 2 collaborations

Namrita Dhillon 2 collaborations

Jose M Fernandez-Gonzalez 2 collaborations

Luis Ferrández-Peral 2 collaborations

Natàlia Garcia-Reyero 2 collaborations

Carles Hernández-Ferrer 2 collaborations

Liudmyla Kondratova 2 collaborations

Tianyuan Liu 2 collaborations

Alessandra Martinez-Martin 2 collaborations

Carlos Menor 2 collaborations

Jorge Mestre-Tomás 2 collaborations

Jonathan M Mudge 2 collaborations

Nedka G Panayotova 2 collaborations

Alejandro Paniagua 2 collaborations

Dmitry Repchevsky 2 collaborations

Eric Rouchka 2 collaborations

Brandon Saint-John 2 collaborations

Enrique Sapena 2 collaborations

Leon Sheynkman 2 collaborations

Melissa Laird Smith 2 collaborations

Marie-Marthe Suner 2 collaborations

Hazuki Takahashi 2 collaborations

Piero Carninci 2 collaborations

Nancy D Denslow 2 collaborations

Roderic Guigó 2 collaborations

Margaret E Hunter 2 collaborations

Hagen U Tilgner 2 collaborations

Barbara J Wold 2 collaborations

Christopher Vollmers 2 collaborations

Adam Frankish 2 collaborations

Kin Fai Au 2 collaborations

Gloria M Sheynkman 2 collaborations

Ali Mortazavi 2 collaborations

Ana Conesa 2 collaborations

Angela N Brooks 2 collaborations

Twan van den Beucken 1 collaboration

Myriam Hochradel 1 collaboration

Martin Vingron 1 collaboration

Axel Fischer 1 collaboration

Angela M Farrelly 1 collaboration

Roshni Kalachand 1 collaboration

Roberta Castiglione 1 collaboration

Elena Wasserburger 1 collaboration

Michelle Hussong 1 collaboration

Anne M Schultheis 1 collaboration

Holger Thiele 1 collaboration

H Christian Reinhardt 1 collaboration

Kai Hauschulz 1 collaboration

Bryan T Hennessy 1 collaboration

Reinhard Buettner 1 collaboration

Marina Lienhard 1 collaboration

Nathalie Selevsek 1 collaboration

Ramona Nudischer 1 collaboration

Hans Gmuender 1 collaboration

Irina Agarkova 1 collaboration

Francis L Atkinson 1 collaboration

Ivo Bachmann 1 collaboration

Vanessa Baier 1 collaboration

Gal Barel 1 collaboration

Stefan Boerno 1 collaboration

Nicolas Bosc 1 collaboration

Olivia Clayton 1 collaboration

Henrik Cordes 1 collaboration

Sally Deeb 1 collaboration

Stefano Gotta 1 collaboration

Patrick Guye 1 collaboration

Anne Hersey 1 collaboration

Fiona M I Hunter 1 collaboration

Laura Kunz 1 collaboration

Alex Lewalle 1 collaboration

Jort Merken 1 collaboration

Jasmine Minguet 1 collaboration

Bernardo Oliveira 1 collaboration

Carla Pluess 1 collaboration

Ugis Sarkans 1 collaboration

Yannick Schrooders 1 collaboration

Ines Smit 1 collaboration

Christoph Thiel 1 collaboration

Marcha Verheijen 1 collaboration

Timo Wittenberger 1 collaboration

Witold Wolski 1 collaboration

Alexandra Zerck 1 collaboration

Stephane Heymans 1 collaboration

Lars Kuepfer 1 collaboration

Adrian Roth 1 collaboration

Ralph Schlapbach 1 collaboration

Steven Niederer 1 collaboration

Sarah D Becker 1 collaboration

Ellis Rochelson 1 collaboration

Michael Lienhard 1 collaboration

David Silber 1 collaboration

Wenzhu B Mowrey 1 collaboration

Lisa Hutchison 1 collaboration

Pedro A Campana 1 collaboration

Christian Springer 1 collaboration

Christian Binsch 1 collaboration

Deborah Weide 1 collaboration

Laura Toska 1 collaboration

Anna Lena Cremer 1 collaboration

Heiko Backes 1 collaboration

Anna K Scheel 1 collaboration

Lena Espelage 1 collaboration

Jörg Kotzka 1 collaboration

Sebastian Sill 1 collaboration

Anette Kurowski 1 collaboration

Daebin Kim 1 collaboration

Sandra Karpinski 1 collaboration

Theresia M Schnurr 1 collaboration

Torben Hansen 1 collaboration

Sonja Hartwig 1 collaboration

Stefan Lehr 1 collaboration

Sandra Cames 1 collaboration

Jens Brüning 1 collaboration

Hadi Al-Hasani 1 collaboration

Alexandra Chadt 1 collaboration

Mirko Brueggemann 1 collaboration

Heike Haenel 1 collaboration

Lorina Bilalli 1 collaboration

Anja Koenigs 1 collaboration

Felix Hess 1 collaboration

Kerstin Becker 1 collaboration

Karl Koehrer 1 collaboration

Jesko Fabian Kaiser 1 collaboration

Holger Gohlke 1 collaboration

Norbert Gattermann 1 collaboration

Carmen Diana Herling 1 collaboration

Julian Koenig 1 collaboration

Kathi Zarnack 1 collaboration

Nhan Nguyen 1 collaboration

Danyel Jennen 1 collaboration

C Binsch 1 collaboration

D M Barbosa 1 collaboration

G Hansen-Dille 1 collaboration

M Hubert 1 collaboration

S M Hodge 1 collaboration

M Kolasa 1 collaboration

K Jeruschke 1 collaboration

J Weiß 1 collaboration

C Springer 1 collaboration

S Gorressen 1 collaboration

J W Fischer 1 collaboration

S Börno 1 collaboration

A L Cremer 1 collaboration

H Backes 1 collaboration

A Chadt 1 collaboration

H Al-Hasani 1 collaboration

Jose M Gonzalez 1 collaboration

Jian Liang Li 1 collaboration

Andrew Berry 1 collaboration

Salvador Capella 1 collaboration

Stefan Goetz 1 collaboration

Ingrid Ashley Youngworth 1 collaboration

Xiaoyan Wei 1 collaboration

Angelos Rigopoulos 1 collaboration

Sophie Pöhle-Kronawitter 1 collaboration

Georgios Kotsaris 1 collaboration

Julia Franke 1 collaboration

Nikolaus Berndt 1 collaboration

Joy Orezimena Mejedo 1 collaboration

Hao Wu 1 collaboration

Arunima Murgai 1 collaboration

Rainer Glauben 1 collaboration

Sigmar Stricker 1 collaboration

M Verheijen 1 collaboration

Y Schrooders 1 collaboration

O Clayton 1 collaboration

R Nudischer 1 collaboration

S Boerno 1 collaboration

N Selevsek 1 collaboration

R Schlapbach 1 collaboration

H Gmuender 1 collaboration

S Gotta 1 collaboration

J Geraedts 1 collaboration

J Kleinjans 1 collaboration

F Caiment 1 collaboration

Alexandra L Farrall 1 collaboration

Heiner Kuhl 1 collaboration

Susanna H M Sluka 1 collaboration

Marta Caparros 1 collaboration

Jiri Forejt 1 collaboration

Bernhard G Herrmann 1 collaboration

Markus Morkel 1 collaboration

Carmen D Herling 1 collaboration

Anja Königs 1 collaboration

Oliver Mücke 1 collaboration

Hans Christian Reinhardt 1 collaboration

Christoph Plass 1 collaboration

D Thomalla 1 collaboration

L Beckmann 1 collaboration

C Grimm 1 collaboration

M Oliverio 1 collaboration

L Meder 1 collaboration

C D Herling 1 collaboration

P Nieper 1 collaboration

T Feldmann 1 collaboration

O Merkel 1 collaboration

E Lorsy 1 collaboration

A da Palma Guerreiro 1 collaboration

J von Jan 1 collaboration

I Kisis 1 collaboration

E Wasserburger 1 collaboration

J Claasen 1 collaboration

E Faitschuk-Meyer 1 collaboration

J Altmüller 1 collaboration

P Nürnberg 1 collaboration

T-P Yang 1 collaboration

K-A Kreuzer 1 collaboration

C P Pallasch 1 collaboration

R Büttner 1 collaboration

S C Schäfer 1 collaboration

J Hartley 1 collaboration

H Abken 1 collaboration

M Peifer 1 collaboration

H Kashkar 1 collaboration

G Knittel 1 collaboration

B Eichhorst 1 collaboration

R T Ullrich 1 collaboration

M Herling 1 collaboration

H C Reinhardt 1 collaboration

M Hallek 1 collaboration

M R Schweiger 1 collaboration

L P Frenzel 1 collaboration

Jose M Gonzalez Martinez 1 collaboration

Jian-Liang Li 1 collaboration

Andrew E Berry 1 collaboration

Salvador Capella-Gutierrez 1 collaboration

Alyssa Cousineau 1 collaboration

Stefan Götz 1 collaboration

Xingjie Ren 1 collaboration

Ingrid A Youngworth 1 collaboration

Rene Maehr 1 collaboration

Yin Shen 1 collaboration