Molecular signatures database (MSigDB) 3.0

Liberzon, Arthur, Subramanian, Aravind, Pinchback, Reid, Thorvaldsdóttir, Helga, Tamayo, Pablo, Mesirov, Jill P.·2011·Bioinformatics

DOI 10.1093/bioinformatics/btr260

Cited by (1,039)

Items 301–400 of 1,039

The U1 spliceosomal RNA is recurrently mutated in multiple cancers
Shimin Shuai, Hiromichi Suzuki, Ander Díaz‐Navarro, Ferran Nadeu, Sachin A. Kumar, Ana Gutiérrez‐Fernández, Julio Delgado, Magda Pinyol, Carlos López-Otı́n, Xosé S. Puente et al. · 2019 · Nature
rGREAT : an R/bioconductor package for functional enrichment on genomic regions
Zuguang Gu, Daniel Hübschmann · 2022 · Bioinformatics
Dissecting intratumoral myeloid cell plasticity by single cell RNA-seq
Song, Qianqian, Hawkins, Gregory A., Wudel, Leonard, Chou, Ping‐Chieh, Forbes, Elizabeth, Pullikuth, Ashok K., Liu, Liang, Jin, Guangxu, Craddock, Lou, Topaloglu, Umit et al. · 2019 · Cancer Medicine
Prognostic genome and transcriptome signatures in colorectal cancers
Luís Nunes, Fuqiang Li, Meizhen Wu, Tian Luo, Klara Hammarström, Emma Torell, Ingrid Ljuslinder, Artur Mezheyeuski, Per-Henrik D. Edqvist, Anna Löfgren‐Burström et al. · 2024 · Nature
Gene regulatory network inference resources: A practical overview
Daniele Mercatelli, Laura Scalambra, Luca Triboli, Forest Ray, Federico Manuel Giorgi · 2019 · Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms
Cell type-specific inference of differential expression in spatial transcriptomics
Dylan M. Cable, Evan M. Murray, Vignesh Shanmugam, Simon Zhang, Luli S. Zou, Michael Diao, Haiqi Chen, Evan Z. Macosko, Rafael A. Irizarry, Fei Chen · 2022 · Nature Methods
Discovery of 42 genome-wide significant loci associated with dyslexia
Catherine Doust, Pierre Fontanillas, Else Eising, Scott D. Gordon, Zhengjun Wang, Gökberk Alagöz, Barbara Molz, Stella W. Aslibekyan, Adam Auton, Elizabeth Babalola et al. · 2022 · Nature Genetics
A single-cell transcriptomic landscape of primate arterial aging
Weiqi Zhang, Shu Zhang, Pengze Yan, Jie Ren, Moshi Song, Jingyi Li, Jinghui Lei, Huize Pan, Si Wang, Xibo Ma et al. · 2020 · Nature Communications
Single-cell analysis of gastric pre-cancerous and cancer lesions reveals cell lineage diversity and intratumoral heterogeneity
Jihyun H. Kim, Charny Park, Kwang H. Kim, Eun Hye Kim, Hyunki Kim, Jong Kyu Woo, Je Kyung Seong, Ki Taek Nam, Yong Chan Lee, Soo Young Cho · 2022 · npj Precision Oncology
A concerted neuron–astrocyte program declines in ageing and schizophrenia
Emi Ling, James C. Nemesh, Melissa Goldman, Nolan Kamitaki, Nora M. Reed, Robert E. Handsaker, Giulio Genovese, Jonathan S. Vogelgsang, Sherif Gerges, Seva Kashin et al. · 2024 · Nature
DNMIVD: DNA methylation interactive visualization database
Wubin Ding, Jiwei Chen, Guoshuang Feng, Geng Chen, Jun Wu, Yongli Guo, Xin Ni, Tieliu Shi · 2019 · Nucleic Acids Research
Gene Size Matters: An Analysis of Gene Length in the Human Genome
Inês Lopes, Gulam Altab, Priyanka Raina, João Pedro de Magalhães · 2021 · Frontiers in Genetics
Single-cell multiomics reveals persistence of HIV-1 in expanded cytotoxic T cell clones
Jack A. Collora, Runxia Liu, Delia Pinto-Santini, Neal G. Ravindra, Carmela Ganoza, Javier R. Lama, Ricardo Alfaro, Jennifer Chiarella, Serena Spudich, Karam Mounzer et al. · 2022 · Immunity
Combating subclonal evolution of resistant cancer phenotypes
Samuel W. Brady, Jasmine A. McQuerry, Yi Qiao, Stephen Piccolo, Gajendra Shrestha, David F. Jenkins, Ryan M. Layer, Brent S. Pedersen, R.H. Miller, Amanda M. Esch et al. · 2017 · Nature Communications
hypeR: an R package for geneset enrichment workflows
Anthony N. Federico, Stefano Monti · 2019 · Bioinformatics
In Vitro and In Vivo Development of the Human Airway at Single-Cell Resolution
Alyssa J. Miller, Qianhui Yu, Michael J. Czerwinski, Yu-Hwai Tsai, Renee F. C. Hein, Angeline Wu, Emily M. Holloway, Taylor Walker, Ian A. Glass, Barbara Treutlein et al. · 2020 · Developmental Cell
DCAF1 regulates Treg senescence via the ROS axis during immunological aging
Zengli Guo, Gang Wang, Bing Wu, Wei-Chun Chou, Liang Cheng, Chenlin Zhou, Jitong Lou, Di Wu, Lishan Su, Junnian Zheng et al. · 2020 · Journal of Clinical Investigation
DIANA-miRPath v4.0: expanding target-based miRNA functional analysis in cell-type and tissue contexts
Spyros Tastsoglou, Giorgos Skoufos, Marios Miliotis, Dimitra Karagkouni, Ioannis Koutsoukos, Anna Karavangeli, Filippos S. Kardaras, Artemis G. Hatzigeorgiou · 2023 · Nucleic Acids Research
The HUSH complex is a gatekeeper of type I interferon through epigenetic regulation of LINE-1s
Tunbak, Hale, Enriquez-Gasca, Rocio, Tie, Christopher H. C., Gould, Poppy A., Mlcochova, Petra, Gupta, Ravindra K., Fernandes, Liane, Holt, James, van der Veen, Annemarthe G., Giampazolias, Evangelos et al. · 2020 · Nature Communications
Ketogenesis activates metabolically protective γδ T cells in visceral adipose tissue
Emily L. Goldberg, Irina Shchukina, Jennifer L. Asher, Sviatoslav Sidorov, Maxim N. Artyomov, Vishwa Deep Dixit · 2020 · Nature Metabolism
Analysis of immune-related signatures of lung adenocarcinoma identified two distinct subtypes: implications for immune checkpoint blockade therapy
Qinghua Wang, Meiling Li, Meng Yang, Yichen Yang, Fengju Song, Wei Zhang, Xiangchun Li, Kexin Chen · 2020 · Aging
In Vivo RNAi Screening Identifies a Leukemia-Specific Dependence on Integrin Beta 3 Signaling
Peter Grant Miller, Fátima Al‐Shahrour, Kimberly A. Hartwell, Lisa P. Chu, Marcus Järås, Rishi V. Puram, Alexandre Puissant, Kevin Patrick Callahan, John M. Ashton, Marie Ellen McConkey et al. · 2013 · Cancer Cell
Mitochondrial CoQ deficiency is a common driver of mitochondrial oxidants and insulin resistance
Fazakerley, Daniel J, Chaudhuri, Rima, Yang, Pengyi, Maghzal, Ghassan J, Thomas, Kristen C, Krycer, James R, Humphrey, Sean J, Parker, Benjamin L, Fisher-Wellman, Kelsey H, Meoli, Christopher C et al. · 2018 · eLife
Tissue-specific abundance of interferon-gamma drives regulatory T cells to restrain DC1-mediated priming of cytotoxic T cells against lung cancer
Maria Zagorulya, Leon Yim, Duncan M. Morgan, Austin W. Edwards, Elen Torres-Mejia, Noor Momin, Chloe V. McCreery, Izabella Zamora, Brendan L. Horton, James G. Fox et al. · 2023 · Immunity
Genome-wide association study identifies 48 common genetic variants associated with handedness
Gabriel Cuéllar-Partida, Joyce Y. Tung, Nicholas Eriksson, Eva Albrecht, Fazil Alıev, Ole A. Andreassen, Inês Barroso, Jacques Samuel Beckmann, Marco P. Boks, Dorret Irene Boomsma et al. · 2020 · Nature Human Behaviour
GPNMB confers risk for Parkinson’s disease through interaction with α-synuclein
Diaz-Ortiz, Maria E., Seo, Yunji, Posavi, Marijan, Carceles Cordon, Marc, Clark, Elisia, Jain, Nimansha, Charan, Rakshita, Gallagher, Michael D., Unger, Travis L., Amari, Noor et al. · 2022 · Science
The impact of proinflammatory cytokines on the β-cell regulatory landscape provides insights into the genetics of type 1 diabetes
Mireia Ramos-Rodríguez, Helena Raurell‐Vila, Máikel L. Colli, Maria Inês Alvelos, Marc Subirana-Granés, Jonàs Juan‐Mateu, Richard Norris, Jean‐Valéry Turatsinze, Ernesto Satoshi Nakayasu, Bobbie‐Jo Webb‐Robertson et al. · 2019 · Nature Genetics
The proteogenomic subtypes of acute myeloid leukemia
Ashok Kumar Jayavelu, Sebastian Wolf, Florian Buettner, Gabriela Alexe, Björn Häupl, Federico Comoglio, Constanze Schneider, Carmen Doebele, Dominik Christian Fuhrmann, Sebastian Wagner et al. · 2022 · Cancer Cell
Single-cell landscape reveals active cell subtypes and their interaction in the tumor microenvironment of gastric cancer
Yumin Li, Xueda Hu, Ruichai Lin, Guangyu Zhou, Lulu Zhao, Dongbing Zhao, Yawei Zhang, Wenbin Li, Yueming Zhang, Peiqin Ma et al. · 2022 · Theranostics
Analysis of Donor Pancreata Defines the Transcriptomic Signature and Microenvironment of Early Neoplastic Lesions
Eileen S. Carpenter, Ahmed M. Elhossiny, Padma Kadiyala, Jay Li, Jake J. McGue, Brian D. Griffith, Yaqing Zhang, Jacob Edwards, Sarah Nelson, Fatima Lima et al. · 2023 · Cancer Discovery
KEAP1 mutation in lung adenocarcinoma promotes immune evasion and immunotherapy resistance
Anastasia‐Maria Zavitsanou, Ray Pillai, Hao Yuan, Warren Wu, Eric Bartnicki, Triantafyllia R. Karakousi, Sahith Rajalingam, Alberto M. Herrera, Angeliki Karatza, Ali Rashidfarrokhi et al. · 2023 · Cell Reports
Antigen Dominance Hierarchies Shape TCF1+ Progenitor CD8 T Cell Phenotypes in Tumors
Megan L. Burger, Amanda M. Cruz, Grace E. Crossland, Giorgio Gaglia, Cecily C. Ritch, Sarah E. Blatt, Arjun J. Bhutkar, David A. Canner, Tamina Kienka, Sara Z. Tavana et al. · 2021 · Cell
Genome-wide meta-analysis identifies 93 risk loci and enables risk prediction equivalent to monogenic forms of venous thromboembolism
Jonas Ghouse, Vinicius Tragante, Gustav Ahlberg, Søren Albertsen Rand, Jakob B Jespersen, Eva Birgitte Leinoe, Christoffer Rasmus Vissing, Linea Christine Trudsø, Ingileif Jónsdóttir, Karina Banasik et al. · 2023 · Nature Genetics
The midnolin-proteasome pathway catches proteins for ubiquitination-independent degradation
Xin Gu, Christopher Nardone, Nolan Kamitaki, Aoyue Mao, Stephen Joseph Elledge, Michael E. Greenberg · 2023 · Science
AD-linked R47H- TREM2 mutation induces disease-enhancing microglial states via AKT hyperactivation
Sayed, Faten A., Kodama, Lay, Fan, Li, Carling, Gillian K., Udeochu, Joe C., Le, David, Li, Qingyun, Zhou, Lu, Wong, Man Ying, Horowitz, Rose et al. · 2021 · Science Translational Medicine
Integrated exome and RNA sequencing of TFE3-translocation renal cell carcinoma
Guangxi Sun, Junru Chen, Jiayu Liang, Xiaoxue Yin, Mengni Zhang, Jin Yao, Ning He, Cameron M. Armstrong, Linmao Zheng, Xingming Zhang et al. · 2021 · Nature Communications
Identification of Therapeutic Targets in Rhabdomyosarcoma through Integrated Genomic, Epigenomic, and Proteomic Analyses
Stewart, Elizabeth, McEvoy, Justina, Wang, Hong, Chen, Xiang, Honnell, Victoria, Ocarz, Monica, Gordon, Brittney, Dapper, Jason, Blankenship, Kaley, Yang, Yanling et al. · 2018 · Cancer Cell
A Cre-conditional MYCN-driven neuroblastoma mouse model as an improved tool for preclinical studies
Kristina Althoff, Anneleen Beckers, Emma Bell, Maike Nortmeyer, Theresa Thor, Annika Sprüssel, S Lindner, Katleen De Preter, Alexandra Florin, Lukas Carl Heukamp et al. · 2014 · Oncogene
Role of specialized composition of SWI/SNF complexes in prostate cancer lineage plasticity
Joanna Cyrta, Anke Augspach, Maria Rosaria De Filippo, Davide Prandi, Phillip Thienger, Matteo Benelli, Victoria Cooley, Rohan Bareja, David C. Wilkes, Sung-Suk Chae et al. · 2020 · Nature Communications
First-line avelumab in a cohort of 116 patients with metastatic Merkel cell carcinoma (JAVELIN Merkel 200): primary and biomarker analyses of a phase II study
Sandra P. D’Angelo, Célèste Lebbé, Laurent Mortier, Andrew Scott Brohl, Nicola Fazio, Jean‐Jacques Grob, Natalie Prinzi, Glenn J. Hanna, Jessica C. Hassel, Felix Kiecker et al. · 2021 · Journal for ImmunoTherapy of Cancer
ChIP-Enrich: gene set enrichment testing for ChIP-seq data
Welch, Ryan P., Lee, Chee, Imbriano, Paul M., Patil, Snehal, Weymouth, Terry E., Smith, R. Alex, Scott, Laura J., Sartor, Maureen A. · 2014 · Nucleic Acids Research
Toward a gold standard for benchmarking gene set enrichment analysis
Ludwig Geistlinger, Gergely Csaba, Mara Santarelli, Marcel Ramos, Lucas Schiffer, Nitesh Turaga, Charity W. Law, Sean R. Davis, Vincent J. Carey, Martin T. Morgan et al. · 2019 · Briefings in Bioinformatics
Charting human development using a multi-endodermal organ atlas and organoid models
Qianhui Yu, Umut Kilik, Emily M. Holloway, Yu-Hwai Tsai, Christoph Harmel, Angeline Wu, Joshua H. Wu, Michael J. Czerwinski, Charlie J. Childs, Zhisong He et al. · 2021 · Cell
Common variants contribute to intrinsic human brain functional networks
Bingxin Zhao, Tengfei Li, Stephen M. Smith, Di Xiong, Xifeng Wang, Yue Yang, Tianyou Luo, Ziliang Zhu, Yue Shan, Nana Matoba et al. · 2022 · Nature Genetics
TFE3 regulates whole‐body energy metabolism in cooperation with TFEB
Nunzia Pastore, Anna Vainshtein, Tiemo Jürgen Klisch, Andrea Armani, Tuong Huynh, Niculin J. Herz, Elena V. Polishchuk, Marco Sandri, Andrea Ballabio · 2017 · EMBO Molecular Medicine
Selective inhibition of TGF-β1 produced by GARP-expressing Tregs overcomes resistance to PD-1/PD-L1 blockade in cancer
Grégoire de Streel, Charlotte Bertrand, Nicolas Chalon, Stéphanie Liénart, Orian Bricard, Sara Lecomte, Julien Devreux, Mélanie Gaignage, Gitte De Boeck, Lore Mariën et al. · 2020 · Nature Communications
Interleukin-22 regulates neutrophil recruitment in ulcerative colitis and is associated with resistance to ustekinumab therapy
Polychronis Pavlidis, Anastasia Tsakmaki, Eirini D. Pantazi, Katherine Li, Domenico Cozzetto, Jonathan L. Digby-Bell, Feifei Yang, Jonathan W. Lo, Elena Alberts, Ana Caroline Costa et al. · 2022 · Nature Communications
JAK-STAT and G-protein-coupled receptor signaling pathways are frequently altered in epitheliotropic intestinal T-cell lymphoma
Maarja‐Liisa Nairismägi, Jing Ying Tan, Jing Quan Lim, Sanjanaa Nagarajan, Cedric Chuan Young Ng, Vikneswari Rajasegaran, Dachuan Huang, Weng Khong Lim, Yurike Laurensia, Giovani-Claresta Wijaya et al. · 2016 · Leukemia
Mitochondrial complex I promotes kidney cancer metastasis
Divya Bezwada, Luigi Perelli, Nicholas P. Lesner, Ling Cai, Bailey Brooks, Zheng Wu, Hieu Vu, Varun Sondhi, Daniel L. Cassidy, Stacy Y. Kasitinon et al. · 2024 · Nature
Predicting Cancer Drug Response using a Recommender System
Chayaporn Suphavilai, Denis Bertrand, Niranjan Nagarajan · 2018 · Bioinformatics
A Four-Chemokine Signature Is Associated with a T-cell–Inflamed Phenotype in Primary and Metastatic Pancreatic Cancer
Romero, Joan M., Grünwald, Barbara, Jang, Gun-Ho, Bavi, Prashant P., Jhaveri, Aaditeya, Masoomian, Mehdi, Fischer, Sandra E., Zhang, Amy, Denroche, Robert E., Lungu, Ilinca M. et al. · 2020 · Clinical Cancer Research
Radiogenomic-Based Survival Risk Stratification of Tumor Habitat on Gd-T1w MRI Is Associated with Biological Processes in Glioblastoma
Niha G. Beig, Kaustav Bera, Prateek Prasanna, Jacob T. Antunes, Ramón Correa, Salendra Singh, Anas Saeed Bamashmos, Marwa Ismail, Nathaniel M. Braman, Ruchika Verma et al. · 2020 · Clinical Cancer Research
Prediction of Alzheimer’s disease using blood gene expression data
Taesic Lee, Hyunju Lee · 2020 · Scientific Reports
Unifying immunology with informatics and multiscale biology
Brian A. Kidd, Lauren A Peters, Eric E. Schadt, Joel T. Dudley · 2014 · Nature Immunology
Polysaccharides for tissue engineering: Current landscape and future prospects
Armen Tchobanian, Hans Van Oosterwyck, Pedro Fardim · 2018 · Carbohydrate Polymers
Mitochondrial peptide BRAWNIN is essential for vertebrate respiratory complex III assembly
Shan Zhang, Boris Reljić, Chao Liang, Baptiste Kerouanton, Joel Celio Francisco, Jih Hou Peh, Camille Mary, Narendra Suhas Jagannathan, Volodimir Olexiouk, Claire Tang et al. · 2020 · Nature Communications
Quantitative proteomic landscape of metaplastic breast carcinoma pathological subtypes and their relationship to triple-negative tumors
Sabra I. Djomehri, Maria Elena Gonzalez, Felipe da Veiga Leprevost, Shilpa R. Tekula, Hui-Yin Chang, Marissa J. White, Ashley Cimino‐Mathews, Boris Burman, Venkatesha Basrur, Pedram Argani et al. · 2020 · Nature Communications
RNA is essential for PRC2 chromatin occupancy and function in human pluripotent stem cells
Yicheng Long, Taeyoung Hwang, Anne R. Gooding, Karen J. Goodrich, John L. Rinn, Thomas R. Cech · 2020 · Nature Genetics
Inhibition of chemotherapy resistant breast cancer stem cells by a ROR1 specific antibody
Suping Zhang, Han Zhang, Emanuela M. Ghia, Jiajia Huang, Liufeng Wu, Jianchao Zhang, Sharon Lam, Lei Yang, Jinsong He, Bing Cui et al. · 2019 · Proceedings of the National Academy of Sciences
Characterization of Glycolysis-Associated Molecules in the Tumor Microenvironment Revealed by Pan-Cancer Tissues and Lung Cancer Single Cell Data
Jinfen Wei, Kaitang Huang, Meiling Hu, Zixi Chen, Yunmeng Bai, Shudai Lin, Hongli Du · 2020 · Cancers
Targeting Lysine-Specific Demethylase 1 Rescues Major Histocompatibility Complex Class I Antigen Presentation and Overcomes Programmed Death-Ligand 1 Blockade Resistance in SCLC
Evelyn M. Nguyen, Hirokazu Taniguchi, Joseph Minhow Chan, Yingqian Ada Zhan, Xiaoping Chen, Juan Jan Qiu, Elisa de Stanchina, Viola Allaj, Nisargbhai Shah, Fathema Z. Uddin et al. · 2022 · Journal of Thoracic Oncology
Distinct myeloid-derived suppressor cell populations in human glioblastoma
Christina Jackson, Christopher Cherry, Sadhana Bom, Arbor G. Dykema, Rulin Wang, Elizabeth A. Thompson, Ming Zhang, Runzhe Li, Zhicheng Ji, Wenpin Hou et al. · 2025 · Science
Pan-cancer characterisation of microRNA across cancer hallmarks reveals microRNA-mediated downregulation of tumour suppressors
Andrew Dhawan, Jacob G. Scott, Adrian Llewellyn Harris, Francesca Meteora Buffa · 2018 · Nature Communications
INX-315, a Selective CDK2 Inhibitor, Induces Cell Cycle Arrest and Senescence in Solid Tumors
Catherine A. Dietrich, Alec G. Trub, Antonio Ahn, Michael Taylor, Krutika Ambani, Keefe T. Chan, Kun‐Hui Lu, Christabella A. Mahendra, Catherine Blyth, Rhiannon S. Coulson et al. · 2023 · Cancer Discovery
The complement system in schizophrenia: where are we now and what’s next?
Julia Woo, Jennie G. Pouget, Clement C.H. Zai, James L. Kennedy · 2019 · Molecular Psychiatry
Astrocyte transcriptomic changes along the spatiotemporal progression of Alzheimer’s disease
Serrano-Pozo, Alberto, Li, Huan, Li, Zhaozhi, Muñoz-Castro, Clara, Jaisa-aad, Methasit, Healey, Molly A., Welikovitch, Lindsay A., Jayakumar, Rojashree, Bryant, Annie G., Noori, Ayush et al. · 2024 · Nature Neuroscience
Single-cell multi-omics of human clonal hematopoiesis reveals that DNMT3A R882 mutations perturb early progenitor states through selective hypomethylation
Nam, Anna S., Dusaj, Neville, Izzo, Franco, Murali, Rekha, Myers, Robert M., Mouhieddine, Tarek H., Sotelo, Jesus, Benbarche, Salima, Waarts, Michael, Gaiti, Federico et al. · 2022 · Nature Genetics
HIPPO–Integrin-linked Kinase Cross-Talk Controls Self-Sustaining Proliferation and Survival in Pulmonary Hypertension
Tatiana V. Kudryashova, Dmitry A. Goncharov, Andressa Z. Pena, Neil J. Kelly, Rebecca R. Vanderpool, Jeff Baust, Ahasanul Kobir, William J. Shufesky, Ana Lucia Mora, Adrián E. Morelli et al. · 2016 · American Journal of Respiratory and Critical Care Medicine
Overcoming primary and acquired resistance to anti-PD-L1 therapy by induction and activation of tumor-residing cDC1s
Takaaki Oba, Mark D. Long, Tibor Keler, Henry C. Marsh, Hans Minderman, Scott I. Abrams, Song Liu, Fumito Ito · 2020 · Nature Communications
Systematic analysis of SARS-CoV-2 infection of an ACE2-negative human airway cell
Maritza Puray‐Chavez, Kyle M. LaPak, Travis Parke Schrank, Jennifer L. Elliott, Dhaval P. Bhatt, Megan J. Agajanian, Ria Jasuja, Dana Q. Lawson, Keanu Davis, Paul W. Rothlauf et al. · 2021 · Cell Reports
Mammalian oocytes store proteins for the early embryo on cytoplasmic lattices
Ida Marie Astad Jentoft, Felix J.B. Bäuerlein, Luisa M. Welp, Benjamin H. Cooper, Arsen Petrović, Chun So, Sarah Mae U. Penir, Antonio Zaccaria Politi, Yehor Horokhovskyi, Iina Takala et al. · 2023 · Cell
A YAP/TAZ-Regulated Molecular Signature Is Associated with Oral Squamous Cell Carcinoma
Samantha E. Hiemer, Liye Zhang, Vinay K. Kartha, Trevor S. Packer, Munirah Almershed, Vikki L Noonan, Maria A. Kukuruzinska, Manish V. Bais, Stefano Monti, Xaralabos Varelas · 2015 · Molecular Cancer Research
Arterialization requires the timely suppression of cell growth
Wen Luo, Irene García-Gónzalez, Macarena Fernández-Chacón, Verónica Casquero-García, Maria S. Sanchez-Muñoz, Severin Mühleder, Lourdes García-Ortega, Jorge Andrade, Michael Potente, Rui Benedito · 2020 · Nature
Nongenetic Evolution Drives Lung Adenocarcinoma Spatial Heterogeneity and Progression
Daniele Tavernari, Elena Battistello, Elie Dheilly, Aaron S. Petruzzella, Marco Mina, Jessica Sordet‐Dessimoz, Solange Peters, Thorsten Krueger, David Gfeller, Nicolò Riggi et al. · 2021 · Cancer Discovery
The genetic architecture of structural left–right asymmetry of the human brain
Zhiqiang Sha, Dick Schijven, Amaia Carrión-Castillo, Marc Joliot, Bernard M. Mazoyer, Simon E. Fisher, Fabrice Crivello, Clyde Francks · 2021 · Nature Human Behaviour
EZH2 inhibition remodels the inflammatory senescence-associated secretory phenotype to potentiate pancreatic cancer immune surveillance
Loretah Chibaya, Katherine C. Murphy, Kelly D. DeMarco, Sneha Gopalan, Haibo Liu, Chaitanya Naimesh Parikh, Yvette Lopez-Diaz, Melissa Faulkner, Junhui Li, John P. Morris et al. · 2023 · Nature Cancer
R-spondin 3 promotes stem cell recovery and epithelial regeneration in the colon
Harnack, Christine, Berger, Hilmar, Antanaviciute, Agne, Vidal, Ramon, Sauer, Sascha, Simmons, Alison, Meyer, Thomas F., Sigal, Michael · 2019 · Nature Communications
Ketogenic diet activates protective γδ T cell responses against influenza virus infection
Emily L. Goldberg, Ryan D. Molony, Eriko Kudo, Sviatoslav Sidorov, Yong Kong, Vishwa Deep Dixit, Akiko Iwasaki · 2019 · Science Immunology
GSVA score reveals molecular signatures from transcriptomes for biomaterials comparison
Marcel Rodrigues Ferreira, Gerson A. Santos, Carlos Alberto Oliveira de Biagi, Wilson A. Silva, Willian Fernando Zambuzzi · 2020 · Journal of Biomedical Materials Research Part A
Secreted gelsolin inhibits DNGR-1-dependent cross-presentation and cancer immunity
Evangelos Giampazolias, Oliver Schulz, Kok Haw Jonathan Lim, Neil C. Rogers, Probir Chakravarty, Naren Srinivasan, Oliver Gordon, Ana Cardoso, Michael D. Buck, Enzo Z. Poirier et al. · 2021 · Cell
Exome Sequencing of African-American Prostate Cancer Reveals Loss-of-Function ERF Mutations
Franklin W. Huang, Juan Miguel Mosquera, Andrea Garofalo, Coyin Oh, Maria B. Baco, Ali Amin‐Mansour, Bokang Rabasha, Samira Bahl, Stephanie Anne Mullane, Brian D. Robinson et al. · 2017 · Cancer Discovery
Network-based machine learning and graph theory algorithms for precision oncology
Wei Zhang, JEREMY R. CHIEN, Jeongsik Yong, Rui Kuang · 2017 · npj Precision Oncology
Hepatocellular carcinoma patients with high circulating cytotoxic T cells and intra-tumoral immune signature benefit from pembrolizumab: results from a single-arm phase 2 trial
Jung Yong Hong, Hee Jin Cho, Jason K. Sa, Xiao Liu, Sang Yun Ha, Taehyang Lee, Hajung Kim, Wonseok Kang, Dong Hyun Sinn, Geum‐Youn Gwak et al. · 2022 · Genome Medicine
WEE1 inhibition enhances the antitumor immune response to PD-L1 blockade by the concomitant activation of STING and STAT1 pathways in SCLC
Hirokazu Taniguchi, Rebecca Caeser, Shweta S. Chavan, Yingqian Ada Zhan, Andrew T. Chow, Parvathy Manoj, Fathema Z. Uddin, Hidenori Kitai, Rui Qu, Omar Hayatt et al. · 2022 · Cell Reports
The transcription factor IRF2 drives interferon-mediated CD8+ T cell exhaustion to restrict anti-tumor immunity
Sabelo Lukhele, Diala Abd-Rabbo, Mengdi Guo, Jian Shen, Heidi J. Elsaesser, Rene Quevedo, Madeleine Carew, Ramy Gadalla, Laura M. Snell, Lawanya Mahesh et al. · 2022 · Immunity
Sensory Neurons Promote Immune Homeostasis in the Lung
Masato Tamari, Kate L. Del Bel, Aaron Ver Heul, Lydia Zamidar, Keisuke Orimo, Masato Hoshi, Anna M. Trier, Hiroshi Yano, Ting-Lin Yang, Catherine M. Biggs et al. · 2022 · Cell
Methionine metabolism influences genomic architecture and gene expression through H3K4me3 peak width
Ziwei Dai, Samantha J. Mentch, Xia Gao, Sailendra Nath Nichenametla, Jason W. Locasale · 2018 · Nature Communications
Interleukin-10 receptor signaling promotes the maintenance of a PD-1int TCF-1+ CD8+ T cell population that sustains anti-tumor immunity
Bola S. Hanna, Laura Llaó Cid, Murat Iskar, Philipp M. Roessner, Lara C. Klett, John Wong, Yashna Paul, Nikolaos Ioannou, Selcen Öztürk, Norman L. Mack et al. · 2021 · Immunity
Hallmarks of CD8+ T cell dysfunction are established within hours of tumor antigen encounter before cell division
Michael W. Rudloff, Paul Zumbo, Natalie R. Favret, Jessica J. Roetman, Carlos R. Detrés Román, Megan M. Erwin, Kristen A. Murray, Sriya T. Jonnakuti, Friederike Dündar, Doron Betel et al. · 2023 · Nature Immunology
APOBEC3B expression in breast cancer reflects cellular proliferation, while a deletion polymorphism is associated with immune activation
David W. Cescon, Benjamin Haibe‐Kains, Tak W. Mak · 2015 · Proceedings of the National Academy of Sciences
Factors of the bone marrow microniche that support human plasma cell survival and immunoglobulin secretion
Doan C. Nguyen, Swetha Garimalla, Haopeng Xiao, Shuya Y. Kyu, Igor Albizua, Jacques Galipeau, Kuang‐Yueh Chiang, Edmund K. Waller, Ronghu Wu, Greg C. Gibson et al. · 2018 · Nature Communications
Epithelial TLR4 Signaling Activates DUOX2 to Induce Microbiota-Driven Tumorigenesis
Juan F. Burgueño, Júlia Fritsch, Eddy Ernesto Gonzalez-Horta, Kevin Scott Landau, Ana M. Santander, Irina Fernández, Hajar Hazime, Julie M. Davies, Rebeca Santaolalla, Matthew C. Phillips et al. · 2020 · Gastroenterology
Genomic Reorganization of Lamin-Associated Domains in Cardiac Myocytes Is Associated With Differential Gene Expression and DNA Methylation in Human Dilated Cardiomyopathy
Sirisha M. Cheedipudi, Scot J. Matkovich, Cristian Coarfa, Xin Hu, Matthew J. Robertson, Mary Sweet, Matthew R.G. Taylor, Luisa Mestroni, Joseph C. Cleveland, James T. Willerson et al. · 2019 · Circulation Research
Continuous human uterine NK cell differentiation in response to endometrial regeneration and pregnancy
Benedikt Strunz, Jonna Bister, Hanna Jönsson, Iva Filipovic, Ylva Crona Guterstam, Egle Kvedaraite, Natalie Sleiers, Bogdan Dumitrescu, Mats Brännström, Antonio Lentini et al. · 2021 · Science Immunology
Systematic single-cell pathway analysis to characterize early T cell activation
Jack A. Bibby, Divyansh Agarwal, Tilo Freiwald, Natalia Kunz, Nicolas S. Merle, Erin E. West, Parul Singh, André Larochelle, Fariba Chinian, Somabha Mukherjee et al. · 2022 · Cell Reports
PRSet: Pathway-based polygenic risk score analyses and software
Shing Wan Choi, Judit García‐González, Yunfeng Ruan, Hei Man Wu, Christian Porras, Jessica Johnson, Clive J. Hoggart, Paul F. O’Reilly · 2023 · PLoS Genetics
Genome-wide spatial expression profiling in formalin-fixed tissues
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