Theodore Sakellaropoulos

Affiliations

Department of Pathology, NYU Grossman School of Medicine, New York, USA.

Publications (21)

Inflammation in the tumor-adjacent lung as a predictor of clinical outcome in lung adenocarcinoma.

Nature communications

Avec: Igor Dolgalev , Hua Zhou , Nina Murrell , Hortense Le , Theodore Sakellaropoulos , Nicolas Coudray , Kelsey Zhu , Varshini Vasudevaraja , Anna Yeaton , Chandra Goparaju , Yonghua Li , Imran Sulaiman , Jun-Chieh J Tsay , Peter Meyn , Hussein Mohamed , Iris Sydney , Tomoe Shiomi , Sitharam Ramaswami , Navneet Narula , Ruth Kulicke , Fred P Davis , Nicolas Stransky , Gromoslaw A Smolen , Wei-Yi Cheng , James Cai , Salman Punekar , Vamsidhar Velcheti , Daniel H Sterman , J T Poirier , Ben Neel , Kwok-Kin Wong , Luis Chiriboga , Adriana Heguy , Thales Papagiannakopoulos , Bettina Nadorp , Matija Snuderl , Leopoldo N Segal , Andre L Moreira , Harvey I Pass , Aristotelis Tsirigos

H3K27ac bookmarking promotes rapid post-mitotic activation of the pluripotent stem cell program without impacting 3D chromatin reorganization.

Molecular cell

Avec: Bobbie Pelham-Webb , Alexander Polyzos , Luke Wojenski , Andreas Kloetgen , Jiexi Li , Dafne Campigli Di Giammartino , Theodore Sakellaropoulos , Aristotelis Tsirigos , Leighton Core , Effie Apostolou

Phosphoprotein patterns predict trametinib responsiveness and optimal trametinib sensitisation strategies in melanoma.

Cell death and differentiation

Avec: Jan Rožanc , Theodore Sakellaropoulos , Asier Antoranz , Cristiano Guttà , Biswajit Podder , Vesna Vetma , Nicole Rufo , Patrizia Agostinis , Vaia Pliaka , Thomas Sauter , Dagmar Kulms , Markus Rehm , Leonidas G Alexopoulos

Deep Learning and Pathomics Analyses Reveal Cell Nuclei as Important Features for Mutation Prediction of BRAF-Mutated Melanomas.

The Journal of investigative dermatology

Avec: Randie H Kim , Sofia Nomikou , Nicolas Coudray , George Jour , Zarmeena Dawood , Runyu Hong , Eduardo Esteva , Theodore Sakellaropoulos , Douglas Donnelly , Una Moran , Aristides Hatzimemos , Jeffrey S Weber , Narges Razavian , Iannis Aifantis , David Fenyo , Matija Snuderl , Richard Shapiro , Russell S Berman , Iman Osman , Aristotelis Tsirigos

MethNet: a robust approach to identify regulatory hubs and their distal targets in cancer.

Research square

Avec: Theodore Sakellaropoulos , Catherine Do , Guimei Jiang , Giulia Cova , Peter Meyn , Dacia Dimartino , Sitharam Ramaswami , Adriana Heguy , Aristotelis Tsirigos , Jane A Skok

Self-Supervised Learning Reveals Clinically Relevant Histomorphological Patterns for Therapeutic Strategies in Colon Cancer.

bioRxiv : the preprint server for biology

Avec: Bojing Liu , Meaghan Polack , Nicolas Coudray , Adalberto Claudio Quiros , Theodore Sakellaropoulos , Augustinus S L P Crobach , J Han J M van Krieken , Ke Yuan , Rob A E M Tollenaar , Wilma E Mesker , Aristotelis Tsirigos

Targeting Mitochondrial Structure Sensitizes Acute Myeloid Leukemia to Venetoclax Treatment.

Cancer discovery

Avec: Xufeng Chen , Christina Glytsou , Hua Zhou , Sonali Narang , Denis E Reyna , Andrea Lopez , Theodore Sakellaropoulos , Yixiao Gong , Andreas Kloetgen , Yoon Sing Yap , Eric Wang , Evripidis Gavathiotis , Aristotelis Tsirigos , Raoul Tibes , Iannis Aifantis

Cell-type-specific prediction of 3D chromatin organization enables high-throughput in silico genetic screening.

Nature biotechnology

Avec: Jimin Tan , Nina Shenker-Tauris , Javier Rodriguez-Hernaez , Eric Wang , Theodore Sakellaropoulos , Francesco Boccalatte , Palaniraja Thandapani , Jane Skok , Iannis Aifantis , David Fenyö , Bo Xia , Aristotelis Tsirigos

Non-lethal proteasome inhibition activates pro-tumorigenic pathways in multiple myeloma cells.

Journal of cellular and molecular medicine

Avec: Aikaterini Skorda , Aimilia D Sklirou , Theodore Sakellaropoulos , Despoina D Gianniou , Efstathios Kastritis , Evangelos Terpos , Ourania E Tsitsilonis , Bogdan I Florea , Herman S Overkleeft , Meletios A Dimopoulos , Leonidas G Alexopoulos , Ioannis P Trougakos

Machine learning and data mining frameworks for predicting drug response in cancer: An overview and a novel in silico screening process based on association rule mining.

Pharmacology & therapeutics

Avec: Konstantinos Vougas , Theodore Sakellaropoulos , Athanassios Kotsinas , George-Romanos P Foukas , Andreas Ntargaras , Filippos Koinis , Alexander Polyzos , Vassilios Myrianthopoulos , Hua Zhou , Sonali Narang , Vassilis Georgoulias , Leonidas Alexopoulos , Iannis Aifantis , Paul A Townsend , Petros Sfikakis , Rebecca Fitzgerald , Dimitris Thanos , Jiri Bartek , Russell Petty , Aristotelis Tsirigos , Vassilis G Gorgoulis

NSD2 overexpression drives clustered chromatin and transcriptional changes in a subset of insulated domains.

Nature communications

Avec: Priscillia Lhoumaud , Sana Badri , Javier Rodriguez-Hernaez , Theodore Sakellaropoulos , Gunjan Sethia , Andreas Kloetgen , MacIntosh Cornwell , Sourya Bhattacharyya , Ferhat Ay , Richard Bonneau , Aristotelis Tsirigos , Jane A Skok

Prediction of combination therapies based on topological modeling of the immune signaling network in multiple sclerosis.

Genome medicine

Avec: Marti Bernardo-Faura , Melanie Rinas , Jakob Wirbel , Inna Pertsovskaya , Vicky Pliaka , Dimitris E Messinis , Gemma Vila , Theodore Sakellaropoulos , Wolfgang Faigle , Pernilla Stridh , Janina R Behrens , Tomas Olsson , Roland Martin , Friedemann Paul , Leonidas G Alexopoulos , Pablo Villoslada , Julio Saez-Rodriguez

Brain and cancer associated binding domain mutations provide insight into CTCF's relationship with chromatin and its ability to act as a chromatin organizer.

bioRxiv : the preprint server for biology

Avec: Catherine Do , Guimei Jiang , Giulia Cova , Christos C Katsifis , Domenic N Narducci , Jie Yang , Theodore Sakellaropoulos , Raphael Vidal , Priscillia Lhoumaud , Faye Fara Regis , Nata Kakabadze , Elphege P Nora , Marcus Noyes , Xiaodong Cheng , Anders S Hansen , Jane A Skok

A Deep Learning Framework for Predicting Response to Therapy in Cancer.

Cell reports

Avec: Theodore Sakellaropoulos , Konstantinos Vougas , Sonali Narang , Filippos Koinis , Athanassios Kotsinas , Alexander Polyzos , Tyler J Moss , Sarina Piha-Paul , Hua Zhou , Eleni Kardala , Eleni Damianidou , Leonidas G Alexopoulos , Iannis Aifantis , Paul A Townsend , Mihalis I Panayiotidis , Petros Sfikakis , Jiri Bartek , Rebecca C Fitzgerald , Dimitris Thanos , Kenna R Mills Shaw , Russell Petty , Aristotelis Tsirigos , Vassilis G Gorgoulis

EpiMethylTag: simultaneous detection of ATAC-seq or ChIP-seq signals with DNA methylation.

Genome biology

Avec: Priscillia Lhoumaud , Gunjan Sethia , Franco Izzo , Theodore Sakellaropoulos , Valentina Snetkova , Simon Vidal , Sana Badri , Macintosh Cornwell , Dafne Campigli Di Giammartino , Kyu-Tae Kim , Effie Apostolou , Matthias Stadtfeld , Dan Avi Landau , Jane Skok

MAPK pathway and B cells overactivation in multiple sclerosis revealed by phosphoproteomics and genomic analysis.

Proceedings of the National Academy of Sciences of the United States of America

Avec: Ekaterina Kotelnikova , Narsis A Kiani , Dimitris Messinis , Inna Pertsovskaya , Vicky Pliaka , Marti Bernardo-Faura , Melanie Rinas , Gemma Vila , Irati Zubizarreta , Irene Pulido-Valdeolivas , Theodore Sakellaropoulos , Wolfgang Faigle , Gilad Silberberg , Mar Masso , Pernilla Stridh , Janina Behrens , Tomas Olsson , Roland Martin , Friedemann Paul , Leonidas G Alexopoulos , Julio Saez-Rodriguez , Jesper Tegner , Pablo Villoslada

A Computational Platform and Guide for Acceleration of Novel Medicines and Personalized Medicine.

Methods in molecular biology (Clifton, N.J.)

Avec: Ioannis N Melas , Theodore Sakellaropoulos , Junguk Hur , Dimitris Messinis , Ellen Y Guo , Leonidas G Alexopoulos , Jane P F Bai

Lysophosphatidic Acid Is a Proinflammatory Stimulus of Renal Tubular Epithelial Cells.

International journal of molecular sciences

Avec: Christiana Magkrioti , Georgia Antonopoulou , Dionysios Fanidis , Vaia Pliaka , Theodore Sakellaropoulos , Leonidas G Alexopoulos , Christoph Ullmer , Vassilis Aidinis

MethNet: a robust approach to identify regulatory hubs and their distal targets from cancer data.

Nature communications

Avec: Theodore Sakellaropoulos , Catherine Do , Guimei Jiang , Giulia Cova , Peter Meyn , Dacia Dimartino , Sitharam Ramaswami , Adriana Heguy , Aristotelis Tsirigos , Jane A Skok

The stress response regulator HSF1 modulates natural killer cell anti-tumour immunity.

Nature cell biology

Avec: Kathryn Hockemeyer , Theodore Sakellaropoulos , Xufeng Chen , Olha Ivashkiv , Maria Sirenko , Hua Zhou , Giovanni Gambi , Elena Battistello , Kleopatra Avrampou , Zhengxi Sun , Maria Guillamot , Luis Chiriboga , George Jour , Igor Dolgalev , Kate Corrigan , Kamala Bhatt , Iman Osman , Aristotelis Tsirigos , Nikos Kourtis , Iannis Aifantis

Brain and cancer associated binding domain mutations provide insight into CTCF's relationship with chromatin and its ability to act as a chromatin organizer.

Research square

Avec: Jane Skok , Catherine do , Guimei Jiang , Giulia Cova , Christos Katsifis , Domenic Narducci , Jie Yang , Theodore Sakellaropoulos , Raphael Vidal , Priscillia Lhoumaud , Aristotelis Tsirigos , Faye Fara Regis , Nata Kakabadze , Elphège Nora , Marcus Noyes , Xiaodong Cheng , Anders Hansen

Réseau de co-auteurs

Aristotelis Tsirigos 13 collaborations

Leonidas G Alexopoulos 7 collaborations

Iannis Aifantis 6 collaborations

Hua Zhou 5 collaborations

Guimei Jiang 4 collaborations

Giulia Cova 4 collaborations

Jane A Skok 4 collaborations

Priscillia Lhoumaud 4 collaborations

Nicolas Coudray 3 collaborations

Peter Meyn 3 collaborations

Sitharam Ramaswami 3 collaborations

Adriana Heguy 3 collaborations

Alexander Polyzos 3 collaborations

Andreas Kloetgen 3 collaborations

Catherine Do 3 collaborations

Sonali Narang 3 collaborations

Jane Skok 3 collaborations

Igor Dolgalev 2 collaborations

Luis Chiriboga 2 collaborations

Matija Snuderl 2 collaborations

Dafne Campigli Di Giammartino 2 collaborations

Effie Apostolou 2 collaborations

Vaia Pliaka 2 collaborations

George Jour 2 collaborations

Iman Osman 2 collaborations

Dacia Dimartino 2 collaborations

Xufeng Chen 2 collaborations

Eric Wang 2 collaborations

Javier Rodriguez-Hernaez 2 collaborations

Konstantinos Vougas 2 collaborations

Athanassios Kotsinas 2 collaborations

Filippos Koinis 2 collaborations

Paul A Townsend 2 collaborations

Petros Sfikakis 2 collaborations

Dimitris Thanos 2 collaborations

Jiri Bartek 2 collaborations

Russell Petty 2 collaborations

Vassilis G Gorgoulis 2 collaborations

Sana Badri 2 collaborations

Gunjan Sethia 2 collaborations

Marti Bernardo-Faura 2 collaborations

Melanie Rinas 2 collaborations

Inna Pertsovskaya 2 collaborations

Vicky Pliaka 2 collaborations

Gemma Vila 2 collaborations

Wolfgang Faigle 2 collaborations

Pernilla Stridh 2 collaborations

Tomas Olsson 2 collaborations

Roland Martin 2 collaborations

Friedemann Paul 2 collaborations

Pablo Villoslada 2 collaborations

Julio Saez-Rodriguez 2 collaborations

Jie Yang 2 collaborations

Raphael Vidal 2 collaborations

Faye Fara Regis 2 collaborations

Nata Kakabadze 2 collaborations

Marcus Noyes 2 collaborations

Xiaodong Cheng 2 collaborations

Dimitris Messinis 2 collaborations

Nina Murrell 1 collaboration

Hortense Le 1 collaboration

Kelsey Zhu 1 collaboration

Varshini Vasudevaraja 1 collaboration

Anna Yeaton 1 collaboration

Chandra Goparaju 1 collaboration

Yonghua Li 1 collaboration

Imran Sulaiman 1 collaboration

Jun-Chieh J Tsay 1 collaboration

Hussein Mohamed 1 collaboration

Iris Sydney 1 collaboration

Tomoe Shiomi 1 collaboration

Navneet Narula 1 collaboration

Ruth Kulicke 1 collaboration

Fred P Davis 1 collaboration

Nicolas Stransky 1 collaboration

Gromoslaw A Smolen 1 collaboration

Wei-Yi Cheng 1 collaboration

James Cai 1 collaboration

Salman Punekar 1 collaboration

Vamsidhar Velcheti 1 collaboration

Daniel H Sterman 1 collaboration

J T Poirier 1 collaboration

Ben Neel 1 collaboration

Kwok-Kin Wong 1 collaboration

Thales Papagiannakopoulos 1 collaboration

Bettina Nadorp 1 collaboration

Leopoldo N Segal 1 collaboration

Andre L Moreira 1 collaboration

Harvey I Pass 1 collaboration

Bobbie Pelham-Webb 1 collaboration

Luke Wojenski 1 collaboration

Jiexi Li 1 collaboration

Leighton Core 1 collaboration

Jan Rožanc 1 collaboration

Asier Antoranz 1 collaboration

Cristiano Guttà 1 collaboration

Biswajit Podder 1 collaboration

Vesna Vetma 1 collaboration

Nicole Rufo 1 collaboration

Patrizia Agostinis 1 collaboration

Thomas Sauter 1 collaboration

Dagmar Kulms 1 collaboration

Markus Rehm 1 collaboration

Randie H Kim 1 collaboration

Sofia Nomikou 1 collaboration

Zarmeena Dawood 1 collaboration

Runyu Hong 1 collaboration

Eduardo Esteva 1 collaboration

Douglas Donnelly 1 collaboration

Una Moran 1 collaboration

Aristides Hatzimemos 1 collaboration

Jeffrey S Weber 1 collaboration

Narges Razavian 1 collaboration

David Fenyo 1 collaboration

Richard Shapiro 1 collaboration

Russell S Berman 1 collaboration

Bojing Liu 1 collaboration

Meaghan Polack 1 collaboration

Adalberto Claudio Quiros 1 collaboration

Augustinus S L P Crobach 1 collaboration

J Han J M van Krieken 1 collaboration

Ke Yuan 1 collaboration

Rob A E M Tollenaar 1 collaboration

Wilma E Mesker 1 collaboration

Christina Glytsou 1 collaboration

Denis E Reyna 1 collaboration

Andrea Lopez 1 collaboration

Yixiao Gong 1 collaboration

Yoon Sing Yap 1 collaboration

Evripidis Gavathiotis 1 collaboration

Raoul Tibes 1 collaboration

Jimin Tan 1 collaboration

Nina Shenker-Tauris 1 collaboration

Francesco Boccalatte 1 collaboration

Palaniraja Thandapani 1 collaboration

David Fenyö 1 collaboration

Bo Xia 1 collaboration

Aikaterini Skorda 1 collaboration

Aimilia D Sklirou 1 collaboration

Despoina D Gianniou 1 collaboration

Efstathios Kastritis 1 collaboration

Evangelos Terpos 1 collaboration

Ourania E Tsitsilonis 1 collaboration

Bogdan I Florea 1 collaboration

Herman S Overkleeft 1 collaboration

Meletios A Dimopoulos 1 collaboration

Ioannis P Trougakos 1 collaboration

George-Romanos P Foukas 1 collaboration

Andreas Ntargaras 1 collaboration

Vassilios Myrianthopoulos 1 collaboration

Vassilis Georgoulias 1 collaboration

Leonidas Alexopoulos 1 collaboration

Rebecca Fitzgerald 1 collaboration

MacIntosh Cornwell 1 collaboration

Sourya Bhattacharyya 1 collaboration

Ferhat Ay 1 collaboration

Richard Bonneau 1 collaboration

Jakob Wirbel 1 collaboration

Dimitris E Messinis 1 collaboration

Janina R Behrens 1 collaboration

Christos C Katsifis 1 collaboration

Domenic N Narducci 1 collaboration

Elphege P Nora 1 collaboration

Anders S Hansen 1 collaboration

Tyler J Moss 1 collaboration

Sarina Piha-Paul 1 collaboration

Eleni Kardala 1 collaboration

Eleni Damianidou 1 collaboration

Mihalis I Panayiotidis 1 collaboration

Rebecca C Fitzgerald 1 collaboration

Kenna R Mills Shaw 1 collaboration

Franco Izzo 1 collaboration

Valentina Snetkova 1 collaboration

Simon Vidal 1 collaboration

Macintosh Cornwell 1 collaboration

Kyu-Tae Kim 1 collaboration

Matthias Stadtfeld 1 collaboration

Dan Avi Landau 1 collaboration

Ekaterina Kotelnikova 1 collaboration

Narsis A Kiani 1 collaboration

Irati Zubizarreta 1 collaboration

Irene Pulido-Valdeolivas 1 collaboration

Gilad Silberberg 1 collaboration

Mar Masso 1 collaboration

Janina Behrens 1 collaboration

Jesper Tegner 1 collaboration

Ioannis N Melas 1 collaboration

Junguk Hur 1 collaboration

Ellen Y Guo 1 collaboration

Jane P F Bai 1 collaboration

Christiana Magkrioti 1 collaboration

Georgia Antonopoulou 1 collaboration

Dionysios Fanidis 1 collaboration

Christoph Ullmer 1 collaboration

Vassilis Aidinis 1 collaboration

Kathryn Hockemeyer 1 collaboration

Olha Ivashkiv 1 collaboration

Maria Sirenko 1 collaboration

Giovanni Gambi 1 collaboration

Elena Battistello 1 collaboration

Kleopatra Avrampou 1 collaboration

Zhengxi Sun 1 collaboration

Maria Guillamot 1 collaboration

Kate Corrigan 1 collaboration

Kamala Bhatt 1 collaboration

Nikos Kourtis 1 collaboration

Catherine do 1 collaboration

Christos Katsifis 1 collaboration

Domenic Narducci 1 collaboration

Elphège Nora 1 collaboration

Anders Hansen 1 collaboration