Alex S Baras

Affiliations

The Johns Hopkins Greenberg Bladder Cancer Institute, Baltimore, MD, USA.
Department of Pathology, Johns Hopkins University School of Medicine, Baltimore, MD, USA.

Publications (24)

Tumor immune microenvironment in non-muscle-invasive urothelial carcinoma of the bladder.

Human pathology

Avec: Marie-Lisa Eich , Alcides Chaux , Gunes Guner , Diana Taheri , Maria Angélica Mendoza Rodriguez , Maria Del Carmen Rodriguez Peña , Alexander S Baras , Noah M Hahn , Charles Drake , Rajni Sharma , Trinity J Bivalacqua , Katayoon Rezaei , George J Netto

College of American Pathologists Cancer Protocols: From Optimizing Cancer Patient Care to Facilitating Interoperable Reporting and Downstream Data Use.

JCO clinical cancer informatics

Avec: Vanda F Torous , Ross W Simpson , Jyoti P Balani , Alexander S Baras , Michael A Berman , George G Birdsong , Giovanna A Giannico , Gladell P Paner , Jason R Pettus , Zack Sessions , S Joseph Sirintrapun , John R Srigley , Samantha Spencer

Deep learning for diagnosis of acute promyelocytic leukemia via recognition of genomically imprinted morphologic features.

NPJ precision oncology

Avec: John-William Sidhom , Ingharan J Siddarthan , Bo-Shiun Lai , Adam Luo , Bryan C Hambley , Jennifer Bynum , Amy S Duffield , Michael B Streiff , Alison R Moliterno , Philip Imus , Christian B Gocke , Lukasz P Gondek , Amy E DeZern , Alexander S Baras , Thomas Kickler , Mark J Levis , Eugene Shenderov

Deep learning identifies antigenic determinants of severe SARS-CoV-2 infection within T-cell repertoires.

Scientific reports

Avec: John-William Sidhom , Alexander S Baras

Multiple-instance learning of somatic mutations for the classification of tumour type and the prediction of microsatellite status.

Nature biomedical engineering

Avec: Jordan Anaya , John-William Sidhom , Faisal Mahmood , Alexander S Baras

Neoadjuvant Cisplatin, Gemcitabine, and Docetaxel in Sarcomatoid Bladder Cancer: Clinical Activity and Whole Transcriptome Analysis.

Bladder cancer (Amsterdam, Netherlands)

Avec: Burles A Johnson Iii , Benjamin A Teply , Catherine Kagemann , Bridget McGuire , Kara Lombardo , Yuezhou Jing , William Langbo , Jonathan I Epstein , George J Netto , Alex S Baras , Andres Matoso , David J McConkey , Amol Gupta , Nita Ahuja , Ashley E Ross , Phillip M Pierorazio , Eva Comperat , Jean Hoffman-Censits , Nirmish Singla , Sunil H Patel , Max Kates , Woonyoung Choi , Trinity J Bivalacqua , Noah M Hahn

Evaluation of a task specific self-supervised learning framework in digital pathology relative to transfer learning approaches and existing foundation models.

Modern pathology : an official journal of the United States and Canadian Academy of Pathology, Inc

Avec: Tawsifur Rahman , Alexander S Baras , Rama Chellappa

Identification of BXDC2 as a Key Downstream Effector of the Androgen Receptor in Modulating Cisplatin Sensitivity in Bladder Cancer.

Cancers

Avec: Guiyang Jiang , Yuki Teramoto , Takuro Goto , Taichi Mizushima , Satoshi Inoue , Hiroki Ide , Yujiro Nagata , Eiji Kashiwagi , Alexander S Baras , George J Netto , Zhiming Yang , Hiroshi Miyamoto

Multimodal genomic features predict outcome of immune checkpoint blockade in non-small-cell lung cancer.

Nature cancer

Avec: Valsamo Anagnostou , Noushin Niknafs , Kristen Marrone , Daniel C Bruhm , James R White , Jarushka Naidoo , Karlijn Hummelink , Kim Monkhorst , Ferry Lalezari , Mara Lanis , Samuel Rosner , Joshua E Reuss , Kellie N Smith , Vilmos Adleff , Kristen Rodgers , Zineb Belcaid , Lamia Rhymee , Benjamin Levy , Josephine Feliciano , Christine L Hann , David S Ettinger , Christos Georgiades , Franco Verde , Peter Illei , Qing Kay Li , Alexander S Baras , Edward Gabrielson , Malcolm V Brock , Rachel Karchin , Drew M Pardoll , Stephen B Baylin , Julie R Brahmer , Robert B Scharpf , Patrick M Forde , Victor E Velculescu

Improved bladder cancer antitumor efficacy with a recombinant BCG that releases a STING agonist.

bioRxiv : the preprint server for biology

Avec: Peter K Um , Monali Praharaj , Kara A Lombardo , Takahiro Yoshida , Andres Matoso , Alex S Baras , Liang Zhao , Geetha Srikrishna , Joy Huang , Pankaj Prasad , Max Kates , David McConkey , Drew M Pardoll , William R Bishai , Trinity J Bivalacqua

Estrogen receptor-β signaling induces cisplatin resistance in bladder cancer.

American journal of cancer research

Avec: Takuro Goto , Eiji Kashiwagi , Guiyang Jiang , Yujiro Nagata , Yuki Teramoto , Alexander S Baras , Shinichi Yamashita , Akihiro Ito , Yoichi Arai , Hiroshi Miyamoto

Clinical cancer research : an official journal of the American Association for Cancer Research

Avec: Farzana A Faisal , Sanjana Murali , Harsimar Kaur , Thiago Vidotto , Liana B Guedes , Daniela Correia Salles , Vishal Kothari , Jeffrey J Tosoian , Sumin Han , Daniel H Hovelson , Kevin Hu , Daniel E Spratt , Alexander S Baras , Scott A Tomlins , Edward M Schaeffer , Tamara L Lotan

Prevalence of DNA repair gene mutations in localized prostate cancer according to clinical and pathologic features: association of Gleason score and tumor stage.

Prostate cancer and prostatic diseases

Avec: Catherine Handy Marshall , Wei Fu , Hao Wang , Alexander S Baras , Tamara L Lotan , Emmanuel S Antonarakis

Adaptive Immune Resistance to Intravesical BCG in Non-Muscle Invasive Bladder Cancer: Implications for Prospective BCG-Unresponsive Trials.

Clinical cancer research : an official journal of the American Association for Cancer Research

Avec: Max Kates , Andres Matoso , Woonyoung Choi , Alexander S Baras , Marcus J Daniels , Kara Lombardo , Aaron Brant , Nina Mikkilineni , David J McConkey , Ashish M Kamat , Robert S Svatek , Sima P Porten , Joshua J Meeks , Seth P Lerner , Colin P Dinney , Peter C Black , James M McKiernan , Chris Anderson , Charles G Drake , Trinity J Bivalacqua

Spatial UMAP and Image Cytometry for Topographic Immuno-oncology Biomarker Discovery.

Cancer immunology research

Avec: Nicolas A Giraldo , Sneha Berry , Etienne Becht , Deniz Ates , Kara M Schenk , Elizabeth L Engle , Benjamin Green , Peter Nguyen , Abha Soni , Julie E Stein , Farah Succaria , Aleksandra Ogurtsova , Haiying Xu , Raphael Gottardo , Robert A Anders , Evan J Lipson , Ludmila Danilova , Alexander S Baras , Janis M Taube

Predictive models of response to neoadjuvant chemotherapy in muscle-invasive bladder cancer using nuclear morphology and tissue architecture.

Cell reports. Medicine

Avec: Haoyang Mi , Trinity J Bivalacqua , Max Kates , Roland Seiler , Peter C Black , Aleksander S Popel , Alexander S Baras

Integrative Tumor and Immune Cell Multi-omic Analyses Predict Response to Immune Checkpoint Blockade in Melanoma.

Cell reports. Medicine

Avec: Valsamo Anagnostou , Daniel C Bruhm , Noushin Niknafs , James R White , Xiaoshan M Shao , John William Sidhom , Julie Stein , Hua-Ling Tsai , Hao Wang , Zineb Belcaid , Joseph Murray , Archana Balan , Leonardo Ferreira , Petra Ross-Macdonald , Megan Wind-Rotolo , Alexander S Baras , Janis Taube , Rachel Karchin , Robert B Scharpf , Catherine Grasso , Antoni Ribas , Drew M Pardoll , Suzanne L Topalian , Victor E Velculescu

Re-engineered BCG overexpressing cyclic di-AMP augments trained immunity and exhibits improved efficacy against bladder cancer.

Nature communications

Avec: Alok Kumar Singh , Monali Praharaj , Kara A Lombardo , Takahiro Yoshida , Andres Matoso , Alex S Baras , Liang Zhao , Geetha Srikrishna , Joy Huang , Pankaj Prasad , Jonathan D Powell , Max Kates , David McConkey , Drew M Pardoll , William R Bishai , Trinity J Bivalacqua

Genomic Landscapes and Hallmarks of Mutant RAS in Human Cancers.

Cancer research

Avec: Robert B Scharpf , Archana Balan , Biagio Ricciuti , Jacob Fiksel , Christopher Cherry , Chenguang Wang , Michele L Lenoue-Newton , Hira A Rizvi , James R White , Alexander S Baras , Jordan Anaya , Blair V Landon , Marta Majcherska-Agrawal , Paola Ghanem , Jocelyn Lee , Leon Raskin , Andrew S Park , Huakang Tu , Hil Hsu , Kathryn C Arbour , Mark M Awad , Gregory J Riely , Christine M Lovly , Valsamo Anagnostou

Probabilistic Mixture Models Improve Calibration of Panel-derived Tumor Mutational Burden in the Context of both Tumor-normal and Tumor-only Sequencing.

Cancer research communications

Avec: Jordan Anaya , John-William Sidhom , Craig A Cummings , Alexander S Baras , Auteur inconnu

Precision Oncology Core Data Model to Support Clinical Genomics Decision Making.

JCO clinical cancer informatics

Avec: Taxiarchis Botsis , Joseph C Murray , Paola Ghanem , Archana Balan , Alexander Kernagis , Kent Hardart , Ting He , Jonathan Spiker , Kory Kreimeyer , Jessica Tao , Alexander S Baras , Srinivasan Yegnasubramanian , Jenna Canzoniero , Valsamo Anagnostou , Auteur inconnu

Concordance of whole slide imaging and conventional light microscopy for assessment of pathologic response following neoadjuvant therapy for lung cancer.

Laboratory investigation; a journal of technical methods and pathology

Avec: Julie Stein Deutsch , Daphne Wang , Krista Y Chen , Ashley Cimino-Mathews , Elizabeth D Thompson , Jaroslaw Jedrych , Robert A Anders , Edward Gabrielson , Peter B Illei , Sonali Uttam , Alexa Fiorante , Emily Cohen , Michael Fotheringham , Logan L Engle , Joel C Sunshine , Hao Wang , Dimple Pandya , Vipul Baxi , Joseph Fiore , Kurex Sidik , James Pratt , Alexander S Baras , Tricia R Cottrell , Janis M Taube

FOXO1 inactivation induces cisplatin resistance in bladder cancer.

Cancer science

Avec: Hiroki Ide , Takuro Goto , Yuki Teramoto , Taichi Mizushima , Guiyang Jiang , Yujiro Nagata , Satoshi Inoue , Alexander S Baras , Eiji Kashiwagi , Hiroshi Miyamoto

Reporting Practices and Resource Utilization in the Era of Intraductal Carcinoma of the Prostate: A Survey of Genitourinary Subspecialists.

The American journal of surgical pathology

Avec: Jatin S Gandhi , Steven C Smith , Gladell P Paner , Jesse K McKenney , Radhika Sekhri , Adeboye O Osunkoya , Alexander S Baras , Angelo M DeMarzo , John C Cheville , Rafael E Jimenez , Kiril Trpkov , Maurizio Colecchia , Jae Y Ro , Rodolfo Montironi , Santosh Menon , Ondrej Hes , Sean R Williamson , Michelle S Hirsch , George J Netto , Samson W Fine , Deepika Sirohi , Seema Kaushal , Ankur Sangoi , Brian D Robinson , Charlotte F Kweldam , Peter A Humphrey , Donna E Hansel , Luciana Schultz , Cristina Magi-Galluzzi , Christopher G Przybycin , Rajal B Shah , Rohit Mehra , Lakshmi P Kunju , Manju Aron , Oleksandr N Kryvenko , James G Kench , Naoto Kuroda , Fabio Tavora , Theodorus van der Kwast , David J Grignon , Jonathan I Epstein , Victor E Reuter , Mahul B Amin

Réseau de co-auteurs

Alexander S Baras 21 collaborations

Trinity J Bivalacqua 6 collaborations

Max Kates 5 collaborations

George J Netto 4 collaborations

John-William Sidhom 4 collaborations

Andres Matoso 4 collaborations

Valsamo Anagnostou 4 collaborations

Drew M Pardoll 4 collaborations

Jordan Anaya 3 collaborations

Guiyang Jiang 3 collaborations

Yuki Teramoto 3 collaborations

Takuro Goto 3 collaborations

Yujiro Nagata 3 collaborations

Eiji Kashiwagi 3 collaborations

Hiroshi Miyamoto 3 collaborations

James R White 3 collaborations

Robert B Scharpf 3 collaborations

Hao Wang 3 collaborations

Archana Balan 3 collaborations

Noah M Hahn 2 collaborations

Gladell P Paner 2 collaborations

Kara Lombardo 2 collaborations

Jonathan I Epstein 2 collaborations

David J McConkey 2 collaborations

Woonyoung Choi 2 collaborations

Taichi Mizushima 2 collaborations

Satoshi Inoue 2 collaborations

Hiroki Ide 2 collaborations

Noushin Niknafs 2 collaborations

Daniel C Bruhm 2 collaborations

Zineb Belcaid 2 collaborations

Edward Gabrielson 2 collaborations

Rachel Karchin 2 collaborations

Victor E Velculescu 2 collaborations

Monali Praharaj 2 collaborations

Kara A Lombardo 2 collaborations

Takahiro Yoshida 2 collaborations

Liang Zhao 2 collaborations

Geetha Srikrishna 2 collaborations

Joy Huang 2 collaborations

Pankaj Prasad 2 collaborations

David McConkey 2 collaborations

William R Bishai 2 collaborations

Tamara L Lotan 2 collaborations

Peter C Black 2 collaborations

Robert A Anders 2 collaborations

Janis M Taube 2 collaborations

Paola Ghanem 2 collaborations

None None 2 collaborations

Marie-Lisa Eich 1 collaboration

Alcides Chaux 1 collaboration

Gunes Guner 1 collaboration

Diana Taheri 1 collaboration

Maria Angélica Mendoza Rodriguez 1 collaboration

Maria Del Carmen Rodriguez Peña 1 collaboration

Charles Drake 1 collaboration

Rajni Sharma 1 collaboration

Katayoon Rezaei 1 collaboration

Vanda F Torous 1 collaboration

Ross W Simpson 1 collaboration

Jyoti P Balani 1 collaboration

Michael A Berman 1 collaboration

George G Birdsong 1 collaboration

Giovanna A Giannico 1 collaboration

Jason R Pettus 1 collaboration

Zack Sessions 1 collaboration

S Joseph Sirintrapun 1 collaboration

John R Srigley 1 collaboration

Samantha Spencer 1 collaboration

Ingharan J Siddarthan 1 collaboration

Bo-Shiun Lai 1 collaboration

Adam Luo 1 collaboration

Bryan C Hambley 1 collaboration

Jennifer Bynum 1 collaboration

Amy S Duffield 1 collaboration

Michael B Streiff 1 collaboration

Alison R Moliterno 1 collaboration

Philip Imus 1 collaboration

Christian B Gocke 1 collaboration

Lukasz P Gondek 1 collaboration

Amy E DeZern 1 collaboration

Thomas Kickler 1 collaboration

Mark J Levis 1 collaboration

Eugene Shenderov 1 collaboration

Faisal Mahmood 1 collaboration

Burles A Johnson Iii 1 collaboration

Benjamin A Teply 1 collaboration

Catherine Kagemann 1 collaboration

Bridget McGuire 1 collaboration

Yuezhou Jing 1 collaboration

William Langbo 1 collaboration

Amol Gupta 1 collaboration

Nita Ahuja 1 collaboration

Ashley E Ross 1 collaboration

Phillip M Pierorazio 1 collaboration

Eva Comperat 1 collaboration

Jean Hoffman-Censits 1 collaboration

Nirmish Singla 1 collaboration

Sunil H Patel 1 collaboration

Tawsifur Rahman 1 collaboration

Rama Chellappa 1 collaboration

Zhiming Yang 1 collaboration

Kristen Marrone 1 collaboration

Jarushka Naidoo 1 collaboration

Karlijn Hummelink 1 collaboration

Kim Monkhorst 1 collaboration

Ferry Lalezari 1 collaboration

Mara Lanis 1 collaboration

Samuel Rosner 1 collaboration

Joshua E Reuss 1 collaboration

Kellie N Smith 1 collaboration

Vilmos Adleff 1 collaboration

Kristen Rodgers 1 collaboration

Lamia Rhymee 1 collaboration

Benjamin Levy 1 collaboration

Josephine Feliciano 1 collaboration

Christine L Hann 1 collaboration

David S Ettinger 1 collaboration

Christos Georgiades 1 collaboration

Franco Verde 1 collaboration

Peter Illei 1 collaboration

Qing Kay Li 1 collaboration

Malcolm V Brock 1 collaboration

Stephen B Baylin 1 collaboration

Julie R Brahmer 1 collaboration

Patrick M Forde 1 collaboration

Peter K Um 1 collaboration

Shinichi Yamashita 1 collaboration

Akihiro Ito 1 collaboration

Yoichi Arai 1 collaboration

Farzana A Faisal 1 collaboration

Sanjana Murali 1 collaboration

Harsimar Kaur 1 collaboration

Thiago Vidotto 1 collaboration

Liana B Guedes 1 collaboration

Daniela Correia Salles 1 collaboration

Vishal Kothari 1 collaboration

Jeffrey J Tosoian 1 collaboration

Sumin Han 1 collaboration

Daniel H Hovelson 1 collaboration

Kevin Hu 1 collaboration

Daniel E Spratt 1 collaboration

Scott A Tomlins 1 collaboration

Edward M Schaeffer 1 collaboration

Catherine Handy Marshall 1 collaboration

Wei Fu 1 collaboration

Emmanuel S Antonarakis 1 collaboration

Marcus J Daniels 1 collaboration

Aaron Brant 1 collaboration

Nina Mikkilineni 1 collaboration

Ashish M Kamat 1 collaboration

Robert S Svatek 1 collaboration

Sima P Porten 1 collaboration

Joshua J Meeks 1 collaboration

Seth P Lerner 1 collaboration

Colin P Dinney 1 collaboration

James M McKiernan 1 collaboration

Chris Anderson 1 collaboration

Charles G Drake 1 collaboration

Nicolas A Giraldo 1 collaboration

Sneha Berry 1 collaboration

Etienne Becht 1 collaboration

Deniz Ates 1 collaboration

Kara M Schenk 1 collaboration

Elizabeth L Engle 1 collaboration

Benjamin Green 1 collaboration

Peter Nguyen 1 collaboration

Abha Soni 1 collaboration

Julie E Stein 1 collaboration

Farah Succaria 1 collaboration

Aleksandra Ogurtsova 1 collaboration

Haiying Xu 1 collaboration

Raphael Gottardo 1 collaboration

Evan J Lipson 1 collaboration

Ludmila Danilova 1 collaboration

Haoyang Mi 1 collaboration

Roland Seiler 1 collaboration

Aleksander S Popel 1 collaboration

Xiaoshan M Shao 1 collaboration

John William Sidhom 1 collaboration

Julie Stein 1 collaboration

Hua-Ling Tsai 1 collaboration

Joseph Murray 1 collaboration

Leonardo Ferreira 1 collaboration

Petra Ross-Macdonald 1 collaboration

Megan Wind-Rotolo 1 collaboration

Janis Taube 1 collaboration

Catherine Grasso 1 collaboration

Antoni Ribas 1 collaboration

Suzanne L Topalian 1 collaboration

Alok Kumar Singh 1 collaboration

Jonathan D Powell 1 collaboration

Biagio Ricciuti 1 collaboration

Jacob Fiksel 1 collaboration

Christopher Cherry 1 collaboration

Chenguang Wang 1 collaboration

Michele L Lenoue-Newton 1 collaboration

Hira A Rizvi 1 collaboration

Blair V Landon 1 collaboration

Marta Majcherska-Agrawal 1 collaboration

Jocelyn Lee 1 collaboration

Leon Raskin 1 collaboration

Andrew S Park 1 collaboration

Huakang Tu 1 collaboration

Hil Hsu 1 collaboration

Kathryn C Arbour 1 collaboration

Mark M Awad 1 collaboration

Gregory J Riely 1 collaboration

Christine M Lovly 1 collaboration

Craig A Cummings 1 collaboration

Taxiarchis Botsis 1 collaboration

Joseph C Murray 1 collaboration

Alexander Kernagis 1 collaboration

Kent Hardart 1 collaboration

Ting He 1 collaboration

Jonathan Spiker 1 collaboration

Kory Kreimeyer 1 collaboration

Jessica Tao 1 collaboration

Srinivasan Yegnasubramanian 1 collaboration

Jenna Canzoniero 1 collaboration

Julie Stein Deutsch 1 collaboration

Daphne Wang 1 collaboration

Krista Y Chen 1 collaboration

Ashley Cimino-Mathews 1 collaboration

Elizabeth D Thompson 1 collaboration

Jaroslaw Jedrych 1 collaboration

Peter B Illei 1 collaboration

Sonali Uttam 1 collaboration

Alexa Fiorante 1 collaboration

Emily Cohen 1 collaboration

Michael Fotheringham 1 collaboration

Logan L Engle 1 collaboration

Joel C Sunshine 1 collaboration

Dimple Pandya 1 collaboration

Vipul Baxi 1 collaboration

Joseph Fiore 1 collaboration

Kurex Sidik 1 collaboration

James Pratt 1 collaboration

Tricia R Cottrell 1 collaboration

Jatin S Gandhi 1 collaboration

Steven C Smith 1 collaboration

Jesse K McKenney 1 collaboration

Radhika Sekhri 1 collaboration

Adeboye O Osunkoya 1 collaboration

Angelo M DeMarzo 1 collaboration

John C Cheville 1 collaboration

Rafael E Jimenez 1 collaboration

Kiril Trpkov 1 collaboration

Maurizio Colecchia 1 collaboration

Jae Y Ro 1 collaboration

Rodolfo Montironi 1 collaboration

Santosh Menon 1 collaboration

Ondrej Hes 1 collaboration

Sean R Williamson 1 collaboration

Michelle S Hirsch 1 collaboration

Samson W Fine 1 collaboration

Deepika Sirohi 1 collaboration

Seema Kaushal 1 collaboration

Ankur Sangoi 1 collaboration

Brian D Robinson 1 collaboration

Charlotte F Kweldam 1 collaboration

Peter A Humphrey 1 collaboration

Donna E Hansel 1 collaboration

Luciana Schultz 1 collaboration

Cristina Magi-Galluzzi 1 collaboration

Christopher G Przybycin 1 collaboration

Rajal B Shah 1 collaboration

Rohit Mehra 1 collaboration

Lakshmi P Kunju 1 collaboration

Manju Aron 1 collaboration

Oleksandr N Kryvenko 1 collaboration

James G Kench 1 collaboration

Naoto Kuroda 1 collaboration

Fabio Tavora 1 collaboration

Theodorus van der Kwast 1 collaboration

David J Grignon 1 collaboration

Victor E Reuter 1 collaboration

Mahul B Amin 1 collaboration