Signature-driven repurposing of Midostaurin for combination with MEK1/2 and KRASG12C inhibitors in lung cancer

Authors: Irati Macaya, Marta Roman, Connor Welch, Rodrigo Entrialgo-Cadierno, Marina Salmon, Alba Santos, Iker Feliu, Joanna Kovalski, Ines Lopez, Maria Rodriguez-Remirez, Sara Palomino-Echeverria, Shane M. Lonfgren, Macarena Ferrero, Silvia Calabuig, Iziar A. Ludwig, David Lara-Astiaso, Eloisa Jantus-Lewintre, Elizabeth Guruceaga, Shruthi Narayanan, Mariano Ponz-Sarvise, Antonio Pineda-Lucena, Fernando Lecanda, Davide Ruggero, Purvesh Khatri, Enrique Santamaria, Joaquin Fernandez-Irigoyen, Irene Ferrer, Luis Paz-Ares, Matthias Drosten, Mariano Barbacid, Ignacio Gil-Bazo, Silve Vicent

Source: Nature Communications, Vol 14, Iss 1, Pp 1-19 (2023)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/e4df0207a07b4df791d9fb4bec0b4c62

A machine learning classifier using 33 host immune response mRNAs accurately distinguishes viral and non-viral acute respiratory illnesses in nasal swab samples

Authors: Rushika Pandya, Yudong D. He, Timothy E. Sweeney, Yehudit Hasin-Brumshtein, Purvesh Khatri

Source: Genome Medicine, Vol 15, Iss 1, Pp 1-13 (2023)

Subject Terms: Medicine, Genetics, QH426-470

File Description: electronic resource

Relation: https://doaj.org/toc/1756-994X

Access URL: https://doaj.org/article/e35765f48c964693b946ba09ce295eec

Integrative systems biology reveals NKG2A-biased immune responses correlate with protection in infectious disease, autoimmune disease, and cancer

Authors: Daniel G. Chen, Jingyi Xie, Jongchan Choi, Rachel H. Ng, Rongyu Zhang, Sarah Li, Rick Edmark, Hong Zheng, Ben Solomon, Katie M. Campbell, Egmidio Medina, Antoni Ribas, Purvesh Khatri, Lewis L. Lanier, Philip J. Mease, Jason D. Goldman, Yapeng Su, James R. Heath

Source: Cell Reports, Vol 43, Iss 3, Pp 113872- (2024)

Subject Terms: CP: Immunology, Biology (General), QH301-705.5

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2211124724002006; https://doaj.org/toc/2211-1247

Access URL: https://doaj.org/article/66da9e46dc354e898aea61faa116e5ae

Corrigendum: Advances and potential of omics studies for understanding the development of food allergy

Authors: Sayantani B. Sindher, Andrew R. Chin, Nima Aghaeepour, Lawrence Prince, Holden Maecker, Gary M. Shaw, David Stevenson, Kari C. Nadeau, Michael Snyder, Purvesh Khatri, Scott D. Boyd, Virginia D. Winn, Martin S. Angst, R. Sharon Chinthrajah

Source: Frontiers in Allergy, Vol 5 (2024)

Subject Terms: food allergy (FA), genomics, proteomics, transcriptomics, metabolomics, disease development, Immunologic diseases. Allergy, RC581-607

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/falgy.2024.1373485/full; https://doaj.org/toc/2673-6101

Access URL: https://doaj.org/article/5fe6a9b44b404832b67e55e9d8bff4b7

Systems immunology of transcriptional responses to viral infection identifies conserved antiviral pathways across macaques and humans

Authors: Kalani Ratnasiri, Hong Zheng, Jiaying Toh, Zhiyuan Yao, Veronica Duran, Michele Donato, Mario Roederer, Megha Kamath, John-Paul M. Todd, Matthew Gagne, Kathryn E. Foulds, Joseph R. Francica, Kizzmekia S. Corbett, Daniel C. Douek, Robert A. Seder, Shirit Einav, Catherine A. Blish, Purvesh Khatri

Source: Cell Reports, Vol 43, Iss 2, Pp 113706- (2024)

Subject Terms: CP: Immunology, Biology (General), QH301-705.5

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2211124724000342; https://doaj.org/toc/2211-1247

Access URL: https://doaj.org/article/be8e0d27559e4d5bb6abb11d7c732b41

RUNX1 loss renders hematopoietic and leukemic cells dependent on IL-3 and sensitive to JAK inhibition

Authors: Amy C. Fan, Yusuke Nakauchi, Lawrence Bai, Armon Azizi, Kevin A. Nuno, Feifei Zhao, Thomas Köhnke, Daiki Karigane, David Cruz-Hernandez, Andreas Reinisch, Purvesh Khatri, Ravindra Majeti

Source: The Journal of Clinical Investigation, Vol 133, Iss 19 (2023)

Subject Terms: Hematology, Inflammation, Medicine

File Description: electronic resource

Relation: https://doaj.org/toc/1558-8238

Access URL: https://doaj.org/article/9d67e910a2aa4c2186e242f58f9edee6

Ancestry-based differences in the immune phenotype are associated with lupus activity

Authors: Samantha Slight-Webb, Kevin Thomas, Miles Smith, Catriona A. Wagner, Susan Macwana, Aleksandra Bylinska, Michele Donato, Mai Dvorak, Sarah E. Chang, Alex Kuo, Peggie Cheung, Laurynas Kalesinskas, Ananthakrishnan Ganesan, Denis Dermadi, Carla J. Guthridge, Wade DeJager, Christian Wright, Mariko H. Foecke, Joan T. Merrill, Eliza Chakravarty, Cristina Arriens, Holden T. Maecker, Purvesh Khatri, Paul J. Utz, Judith A. James, Joel M. Guthridge

Source: JCI Insight, Vol 8, Iss 16 (2023)

Subject Terms: Autoimmunity, Immunology, Medicine

File Description: electronic resource

Relation: https://doaj.org/toc/2379-3708

Access URL: https://doaj.org/article/e17965113ade415ab50fbba3c6fd56ef

An 8-gene machine learning model improves clinical prediction of severe dengue progression

Authors: Yiran E. Liu, Sirle Saul, Aditya Manohar Rao, Makeda Lucretia Robinson, Olga Lucia Agudelo Rojas, Ana Maria Sanz, Michelle Verghese, Daniel Solis, Mamdouh Sibai, Chun Hong Huang, Malaya Kumar Sahoo, Rosa Margarita Gelvez, Nathalia Bueno, Maria Isabel Estupiñan Cardenas, Luis Angel Villar Centeno, Elsa Marina Rojas Garrido, Fernando Rosso, Michele Donato, Benjamin A. Pinsky, Shirit Einav, Purvesh Khatri

Source: Genome Medicine, Vol 14, Iss 1, Pp 1-15 (2022)

Subject Terms: Dengue, Severe dengue, Prognostic, Biomarkers, Machine learning, Gene signature, Medicine, Genetics, QH426-470

File Description: electronic resource

Relation: https://doaj.org/toc/1756-994X

Access URL: https://doaj.org/article/793e01a463394919ad34b1afb12b340e

Cytokine signatures differentiate systemic sclerosis patients at high versus low risk for pulmonary arterial hypertension

Authors: Kathleen D. Kolstad, Avani Khatri, Michele Donato, Sarah E. Chang, Shufeng Li, Virginia D. Steen, Paul J. Utz, Purvesh Khatri, Lorinda Chung

Source: Arthritis Research & Therapy, Vol 24, Iss 1, Pp 1-8 (2022)

Subject Terms: Systemic sclerosis, Pulmonary arterial hypertension, Biomarkers, Diseases of the musculoskeletal system, RC925-935

File Description: electronic resource

Relation: https://doaj.org/toc/1478-6362

Access URL: https://doaj.org/article/3b0b12de3d724266987b57bf13d38a16

A robust gene expression signature for NASH in liver expression data

Authors: Yehudit Hasin-Brumshtein, Suraj Sakaram, Purvesh Khatri, Yudong D. He, Timothy E. Sweeney

Source: Scientific Reports, Vol 12, Iss 1, Pp 1-10 (2022)

Subject Terms: Medicine, Science

File Description: electronic resource

Relation: https://doaj.org/toc/2045-2322

Access URL: https://doaj.org/article/e3845c72788b42cab38a01ad790b460b

Prediction of HLA genotypes from single-cell transcriptome data

Authors: Benjamin D. Solomon, Hong Zheng, Laura W. Dillon, Jason D. Goldman, Christopher S. Hourigan, James R. Heath, Purvesh Khatri

Source: Frontiers in Immunology, Vol 14 (2023)

Subject Terms: HLA typing algorithm, next-generation sequencing data (NGS), HLA genotype, single-cell sequencing (scRNA-seq), human leukocyte antigen (HLA), major histocompatibility (MHC), Immunologic diseases. Allergy, RC581-607

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fimmu.2023.1146826/full; https://doaj.org/toc/1664-3224

Access URL: https://doaj.org/article/7516530fde044040b542109bdcbf9624

Advances and potential of omics studies for understanding the development of food allergy

Authors: Sayantani B. Sindher, Andrew R. Chin, Nima Aghaeepour, Lawrence Prince, Holden Maecker, Gary M. Shaw, David K. Stevenson, Kari C. Nadeau, Michael Snyder, Purvesh Khatri, Scott D. Boyd, Virginia D. Winn, Martin S. Angst, R. Sharon Chinthrajah

Source: Frontiers in Allergy, Vol 4 (2023)

Subject Terms: food allergy (FA), genomics, proteomics, transcriptomics, metabolomics, disease development, Immunologic diseases. Allergy, RC581-607

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/falgy.2023.1149008/full; https://doaj.org/toc/2673-6101

Access URL: https://doaj.org/article/535075a093b54946a8187fa560983847

A molecular atlas of innate immunity to adjuvanted and live attenuated vaccines, in mice

Authors: Audrey Lee, Madeleine K. D. Scott, Florian Wimmers, Prabhu S. Arunachalam, Wei Luo, Christopher B. Fox, Mark Tomai, Purvesh Khatri, Bali Pulendran

Source: Nature Communications, Vol 13, Iss 1, Pp 1-13 (2022)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/c4581bcc26564fe192f49148678f0969

A 6-mRNA host response classifier in whole blood predicts outcomes in COVID-19 and other acute viral infections

Authors: Ljubomir Buturovic, Hong Zheng, Benjamin Tang, Kevin Lai, Win Sen Kuan, Mark Gillett, Rahul Santram, Maryam Shojaei, Raquel Almansa, Jose Ángel Nieto, Sonsoles Muñoz, Carmen Herrero, Nikolaos Antonakos, Panayiotis Koufargyris, Marina Kontogiorgi, Georgia Damoraki, Oliver Liesenfeld, James Wacker, Uros Midic, Roland Luethy, David Rawling, Melissa Remmel, Sabrina Coyle, Yiran E. Liu, Aditya M. Rao, Denis Dermadi, Jiaying Toh, Lara Murphy Jones, Michele Donato, Purvesh Khatri, Evangelos J. Giamarellos-Bourboulis, Timothy E. Sweeney

Source: Scientific Reports, Vol 12, Iss 1, Pp 1-16 (2022)

Subject Terms: Medicine, Science

File Description: electronic resource

Relation: https://doaj.org/toc/2045-2322

Access URL: https://doaj.org/article/ee4e353ebc1a4a9cbf2de80046f1b3f4

Inferring direction of associations between histone modifications using a neural processes-based framework

Authors: Ananthakrishnan Ganesan, Denis Dermadi, Laurynas Kalesinskas, Michele Donato, Rosalie Sowers, Paul J. Utz, Purvesh Khatri

Source: iScience, Vol 26, Iss 1, Pp 105756- (2023)

Subject Terms: Biochemistry, Immunity, Biocomputational method, Epigenetic, Science

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2589004222020296; https://doaj.org/toc/2589-0042

Access URL: https://doaj.org/article/9973f3cc1bd84b22a1d0bb6e7b996840

A novel blood-based assay for treatment monitoring of tuberculosis

Authors: Alexandra J. Zimmer, Samuel G. Schumacher, Erik Södersten, Anna Mantsoki, Romain Wyss, David H. Persing, Sara Banderby, Linda Strömqvist Meuzelaar, Jacqueline Prieto, Devasena Gnanashanmugam, Purvesh Khatri, Stefano Ongarello, Morten Ruhwald, Claudia M. Denkinger

Source: BMC Research Notes, Vol 14, Iss 1, Pp 1-5 (2021)

Subject Terms: Tuberculosis, Host transcriptional signature, Treatment monitoring, Medicine, Biology (General), QH301-705.5, Science (General), Q1-390

File Description: electronic resource

Relation: https://doaj.org/toc/1756-0500

Access URL: https://doaj.org/article/38d04284727c4d5c96a54ab1892ae1dc

Prospective validation of an 11-gene mRNA host response score for mortality risk stratification in the intensive care unit

Authors: Andrew R. Moore, Jonasel Roque, Brian T. Shaller, Tola Asuni, Melissa Remmel, David Rawling, Oliver Liesenfeld, Purvesh Khatri, Jennifer G. Wilson, Joseph E. Levitt, Timothy E. Sweeney, Angela J. Rogers

Source: Scientific Reports, Vol 11, Iss 1, Pp 1-9 (2021)

Subject Terms: Medicine, Science

File Description: electronic resource

Relation: https://doaj.org/toc/2045-2322

Access URL: https://doaj.org/article/9016b66e9dfe42e596b816afde6595da

Rapid GPR183-mediated recruitment of eosinophils to the lung after Mycobacterium tuberculosis infection

Authors: Andrea C. Bohrer, Ehydel Castro, Claire E. Tocheny, Maike Assmann, Benjamin Schwarz, Eric Bohrnsen, Michelle A. Makiya, Fanny Legrand, Kerry L. Hilligan, Paul J. Baker, Flor Torres-Juarez, Zhidong Hu, Hui Ma, Lin Wang, Liangfei Niu, Zilu Wen, Sang H. Lee, Olena Kamenyeva, Keith D. Kauffman, Michele Donato, Alan Sher, Daniel L. Barber, Laura E. Via, Thomas J. Scriba, Purvesh Khatri, Yanzheng Song, Ka-Wing Wong, Catharine M. Bosio, Amy D. Klion, Katrin D. Mayer-Barber

Source: Cell Reports, Vol 40, Iss 4, Pp 111144- (2022)

Subject Terms: CP: Immunology, CP: Microbiology, Biology (General), QH301-705.5

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2211124722009536; https://doaj.org/toc/2211-1247

Access URL: https://doaj.org/article/4cc9d670630f4c0ab39dbfc2f415fe75

Increasing reproducibility, robustness, and generalizability of biomarker selection from meta-analysis using Bayesian methodology.

Authors: Laurynas Kalesinskas, Sanjana Gupta, Purvesh Khatri

Source: PLoS Computational Biology, Vol 18, Iss 6, p e1010260 (2022)

Subject Terms: Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://doaj.org/toc/1553-734X; https://doaj.org/toc/1553-7358

Access URL: https://doaj.org/article/3c13955b5087415e89c321ab58da8fea

Disease characteristics and serological responses in patients with differing severity of COVID-19 infection: A longitudinal cohort study in Dhaka, Bangladesh.

Authors: Afroza Akter, Tasnuva Ahmed, Imam Tauheed, Marjahan Akhtar, Sadia Isfat Ara Rahman, Fatema Khaton, Faisal Ahmmed, Jannatul Ferdous, Mokibul Hassan Afrad, Zannat Kawser, Mohabbat Hossain, Rabeya Khondaker, Mohammad Abul Hasnat, Mostafa Aziz Sumon, Asif Rashed, Shuvro Ghosh, Stephen B Calderwood, Richelle C Charles, Edward T Ryan, Purvesh Khatri, Holden Terry Maecker, Gerlinde Obermoser, Bali Pulendran, John D Clemens, Sayera Banu, Tahmina Shirin, Regina C LaRocque, Jason B Harris, Taufiqur Rahman Bhuiyan, Fahima Chowdhury, Firdausi Qadri

Source: PLoS Neglected Tropical Diseases, Vol 16, Iss 1, p e0010102 (2022)

Subject Terms: Arctic medicine. Tropical medicine, RC955-962, Public aspects of medicine, RA1-1270

File Description: electronic resource

Relation: https://journals.plos.org/plosntds/article/file?id=10.1371/journal.pntd.0010102&type=printable; https://doaj.org/toc/1935-2727; https://doaj.org/toc/1935-2735

Access URL: https://doaj.org/article/33ee005075964cca9eff11b1f61f11bc