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 601–700 of 1,039

Single-cell multi-stage spatial evolutional map of esophageal carcinogenesis
Jiang Chang, Junting Lu, Qing Liu, Tao Xiang, Shaosen Zhang, Yonglin Yi, Dongxu Li, Tianyuan Liu, Zeyuan Liu, Xinjie Chen et al. · 2025 · Cancer Cell
Integrated Module and Gene-Specific Regulatory Inference Implicates Upstream Signaling Networks
Sushmita Roy, Stephen Lagree, Zhonggang Hou, James Alexander Thomson, Ron M. Stewart, Audrey P. Gasch · 2013 · PLoS Computational Biology
snRNA-seq stratifies multiple sclerosis patients into distinct white matter glial responses
Macnair, Will, Calini, Daniela, Agirre, Eneritz, Bryois, Julien, Jäkel, Sarah, Smith, Rebecca Sherrard, Kukanja, Petra, Stokar-Regenscheit, Nadine, Ott, Virginie, Foo, Lynette C. et al. · 2025 · Neuron
LKB1 Loss Induces Characteristic Patterns of Gene Expression in Human Tumors Associated with NRF2 Activation and Attenuation of PI3K-AKT
Kaufman, Jacob M., Amann, Joseph M., Park, Kyungho, Arasada, Rajeswara Rao, Li, Haotian, Shyr, Yu, Carbone, David P. · 2014 · Journal of Thoracic Oncology
Transferrin receptor 2 controls bone mass and pathological bone formation via BMP and Wnt signalling
Rauner, Martina, Baschant, Ulrike, Roetto, Antonella, Pellegrino, Rosa Maria, Rother, Sandra, Salbach-Hirsch, Juliane, Weidner, Heike, Hintze, Vera, Campbell, Graeme, Petzold, Andreas et al. · 2019 · Nature Metabolism
Genome-wide screens identify Toxoplasma gondii determinants of parasite fitness in IFNγ-activated murine macrophages
Yifan Wang, Lamba Omar Sangaré, Tatiana Christina Paredes-Santos, Musa A. Hassan, Shruthi Krishnamurthy, Anna M. Furuta, Benedikt M. Markus, Sebastian Lourido, Jeroen P. J. Saeij · 2020 · Nature Communications
A stem cell zoo uncovers intracellular scaling of developmental tempo across mammals
Jorge Lázaro, Maria Costanzo, Marina Sanaki-Matsumiya, Charles Girardot, Masafumi Hayashi, Katsuhiko Hayashi, Sebastian Diecke, Thomas B. Hildebrandt, Giovanna Lazzari, Jun Wu et al. · 2023 · Cell stem cell
A tissue level atlas of the healthy human virome
Ryuichi Kumata, Jumpei Ito, Kenta Takahashi, Tadaki Suzuki, Kei Sato · 2020 · BMC Biology
Combinatorial therapy discovery using mixed integer linear programming
Kaifang Pang, Ying‐Wooi Wan, William Tin-Shing Choi, Lawrence A. Donehower, Jingchun Sun, Dhruv K. Pant, Zhandong Liu · 2014 · Bioinformatics
Commonality in dysregulated expression of gene sets in cortical brains of individuals with autism, schizophrenia, and bipolar disorder
Jinting Guan, James J. Cai, Guoli Ji, Pak Chung Sham · 2019 · Translational Psychiatry
Comparative Genomics Reveals Distinct Immune-oncologic Pathways in African American Men with Prostate Cancer
Shivanshu Awasthi, Anders Berglund, Julieta Abraham-Miranda, Robert J. Rounbehler, Kevin H. Kensler, Amparo N. Serna, Adriana C. Vidal, Sungyong You, Michael R. Freeman, Elai Davicioni et al. · 2020 · Clinical Cancer Research
Deciphering the genetic and epidemiological landscape of mitochondrial DNA abundance
Sara Hägg, Juulia Jylhävä, Yunzhang Wang, Kamila Czene, Felix Graßmann · 2020 · Human Genetics
Gremlin 1+ fibroblastic niche maintains dendritic cell homeostasis in lymphoid tissues
Varun N. Kapoor, Sören Müller, Shilpa Keerthivasan, Markus K. Brown, Cecile M. Chalouni, Elaine E. Storm, Alessandra Castiglioni, Ryan S. Lane, Maximilian Nitschké, Claudia X. Dominguez et al. · 2021 · Nature Immunology
Learning interpretable cellular and gene signature embeddings from single-cell transcriptomic data
Yifan Zhao, Huiyu Cai, Zuobai Zhang, Jian Tang, Yue Li · 2021 · Nature Communications
Survival Genie, a web platform for survival analysis across pediatric and adult cancers
Bhakti Dwivedi, Hope Mumme, Sarthak Satpathy, Swati Sharma Bhasin, Manoj Bhasin · 2022 · Scientific Reports
Aging-associated HELIOS deficiency in naive CD4+ T cells alters chromatin remodeling and promotes effector cell responses
Huimin Zhang, Rohit R. Jadhav, Wenqiang Cao, Isabel Nadine Goronzy, Tuantuan V. Zhao, Jun Jin, Shozo Ohtsuki, Zhao‐Lan Hu, José Morales, William James Greenleaf et al. · 2022 · Nature Immunology
moBRCA-net: a breast cancer subtype classification framework based on multi-omics attention neural networks
Joung Min Choi, Heejoon Chae · 2023 · BMC Bioinformatics
Translation of non-canonical open reading frames as a cancer cell survival mechanism in childhood medulloblastoma
Damon A. Hofman, Jorge Ruiz‐Orera, Ian Yannuzzi, Rakesh A. Murugesan, Adam Brown, Karl R. Clauser, Alexandra Larisa Condurat, Jip T. van Dinter, Sem A.G. Engels, Amy B. Goodale et al. · 2024 · Molecular Cell
Human iPSC 4R tauopathy model uncovers modifiers of tau propagation
Parra Bravo, Celeste, Giani, Alice Maria, Madero-Perez, Jesus, Zhao, Zeping, Wan, Yuansong, Samelson, Avi J., Wong, Man Ying, Evangelisti, Alessandro, Cordes, Ethan, Fan, Li et al. · 2024 · Cell
miR-29a maintains mouse hematopoietic stem cell self-renewal by regulating Dnmt3a
Wenhuo Hu, James Dooley, Stephen S. Chung, Dhruva Chandramohan, Luisa Cimmino, Siddhartha Mukherjee, Christopher E. Mason, Bart De Strooper, Adrian Liston, Christopher Y. Park · 2015 · Blood
Access to Follicular Dendritic Cells Is a Pivotal Step in Murine Chronic Lymphocytic Leukemia B-cell Activation and Proliferation
Kristina Heinig, Marcel Gätjen, Michael Grau, Vanessa Stache, Ioannis Anagnostopoulos, Kerstin Gerlach, Raluca Aura Niesner, Zoltán Cseresnyés, Anja Erika Hauser, Peter Lenz et al. · 2014 · Cancer Discovery
Efficient identification of neoantigen-specific T-cell responses in advanced human ovarian cancer
Song Liu, Junko Matsuzaki, Lei Wei, Takemasa Tsuji, Sebastiano Battaglia, Qiang Hu, Eduardo Cortes, Lai-Ping Wong, Li Yan, Mark D. Long et al. · 2019 · Journal for ImmunoTherapy of Cancer
The circadian dynamics of the hippocampal transcriptome and proteome is altered in experimental temporal lobe epilepsy
Konrad Józef Dębski, Nicholas Ceglia, Antoine Ghestem, Anton Ivanov, Giulio Emilio Brancati, Sonja Bröer, Anna Maria Bot, Johannes Alexander Müller, Susanne Schoch, Albert J. Becker et al. · 2020 · Science Advances
Rheumatoid arthritis CD14+ monocytes display metabolic and inflammatory dysfunction, a phenotype that precedes clinical manifestation of disease
Trudy McGarry, Megan M. Hanlon, Viviana Marzaioli, Clare C. Cunningham, Vinod Krishna, Kieran Murray, Conor J. Hurson, Phil Gallagher, Sunil Nagpal, Douglas James Veale et al. · 2021 · Clinical & Translational Immunology
TERT accelerates BRAF mutant–induced thyroid cancer dedifferentiation and progression by regulating ribosome biogenesis
Pengcheng Yu, Ning Qu, Rui Zhu, Jia‐Qian Hu, Peizhen Han, Jiahao Wu, Licheng Tan, Hualei Gan, Cong He, Chuantao Fang et al. · 2023 · Science Advances
The neurotransmitter calcitonin gene-related peptide shapes an immunosuppressive microenvironment in medullary thyroid cancer
Yingtong Hou, Bo Lin, Tianyi Xu, Juan Jiang, Shuli Luo, Wanna Chen, Xinwen Chen, Yuanqi Wang, Guanrui Liao, Jianping Wang et al. · 2024 · Nature Communications
Thyrocyte-specific inactivation of p53 and Pten results in anaplastic thyroid carcinomas faithfully recapitulating human tumors
Valeria G. Antico Arciuch, Marika A. Russo, Mariavittoria Dima, Kristy S. Kang, Florence Dasrath, Xiao-Hui Liao, Samuel Refetoff, Cristina Montagna, Antonio Di Cristofano · 2011 · Oncotarget
Comprehensive Profiling of DNA Repair Defects in Breast Cancer Identifies a Novel Class of Endocrine Therapy Resistance Drivers
Meenakshi Anurag, Nindo B. Punturi, Jeremy Hoog, Matthew Neil Bainbridge, Matthew J. Ellis, Svasti Haricharan · 2018 · Clinical Cancer Research
CD8+ T cells retain protective functions despite sustained inhibitory receptor expression during Epstein-Barr virus infection in vivo
Bithi Chatterjee, Yun Deng, Angelika Holler, Nicolás Gonzalo Núñez, Tarik Azzi, Liliana Danusia Vanoaica, Anne Mueller, Hana Zdimerova, Olga Antsiferova, Andrea Zbinden et al. · 2019 · PLoS Pathogens
Predicting and characterizing a cancer dependency map of tumors with deep learning
Chiu, Yu-Chiao, Zheng, Siyuan, Wang, Li-Ju, Iskra, Brian S., Rao, Manjeet K., Houghton, Peter J., Huang, Yufei, Chen, Yidong · 2021 · Science Advances
Colibactin-driven colon cancer requires adhesin-mediated epithelial binding
Jans, Maude, Kolata, Magdalena, Blancke, Gillian, D’Hondt, Aline, Gräf, Claudia, Ciers, Maarten, Sze, Mozes, Thiran, Alexandra, Petta, Ioanna, Andries, Vanessa et al. · 2024 · Nature
SOX9 regulates ERBB signalling in pancreatic cancer development
Adrien Grimont, Andreia V. Pinho, Mark J. Cowley, Cécile Augereau, Amanda Mawson, Marc Giry-Laterrière, Géraldine Van Den Steen, Nicola Waddell, Marina Pajic, Christine L Sempoux et al. · 2014 · Gut
Regulation of miRNA-29c and its downstream pathways in preneoplastic progression of triple-negative breast cancer
Anjana Bhardwaj, Harpreet Singh, Kimal Rajapakshe, Kazunoshin Tachibana, Nivetha Ganesan, Yinghong Pan, Preethi H. Gunaratne, Cristian Coarfa, Isabelle Bedrosian · 2017 · Oncotarget
Identification of microRNA clusters cooperatively acting on epithelial to mesenchymal transition in triple negative breast cancer
Laura Cantini, Gloria Rita Bertoli, Claudia Cava, Thierry Dubois, Andrei Y. Zinovyev, Michele Caselle, Isabella Castiglioni, Emmanuel Barillot, Loredana Martignetti · 2019 · Nucleic Acids Research
Hierarchical Community Detection by Recursive Partitioning
Tianxi Li, Lihua Lei, Sharmodeep Bhattacharyya, Koen Van den Berge, Purnamrita Sarkar, Peter J. Bickel, Elizaveta Levina · 2020 · Journal of the American Statistical Association
The vulnerable versatility of Salmonella antibiotic persisters during infection
Peter W. S. Hill, Ana Laura Moldoveanu, Molly R. Sargen, Séverin Ronneau, Izabela Glegola-Madejska, Catrin M. Beetham, Robert A. Fisher, Sophie Hélaine · 2021 · Cell Host & Microbe
DPP inhibition alters the CXCR3 axis and enhances NK and CD8+ T cell infiltration to improve anti-PD1 efficacy in murine models of pancreatic ductal adenocarcinoma
Allison A. Fitzgerald, Shangzi Wang, Veena R. Agarwal, Emily F. Davis-Marcisak, Annie Zuo, Sandra A. Jablonski, Melanie Loth, Elana Judith Fertig, John R. MacDougall, Eugene A. Zhukovsky et al. · 2021 · Journal for ImmunoTherapy of Cancer
GREM1 is required to maintain cellular heterogeneity in pancreatic cancer
Linxiang Lan, Theodore Evan, Huafu Li, Aasia Hussain, E. Josue Ruiz, May Zaw Thin, Rute M. M. Ferreira, Hari PS, Eva Madi Riising, Yoh Zen et al. · 2022 · Nature
Identifying cancer-related microRNAs based on gene expression data
Xing-Ming Zhao, Ke-Qin Liu, Guanghui Zhu, Feng He, Béatrice Duval, Jean‐Michel Richer, De-Shuang Huang, Chang-Jun Jiang, Jin‐Kao Hao, Luonan Chen · 2014 · Bioinformatics
Early innate immunity determines outcome of Mycobacterium tuberculosis pulmonary infection in rabbits
Selvakumar Subbian, Nirmalya Bandyopadhyay, Liana Tsenova, Paul E. O’Brien, Viraj Khetani, Nicole L. Kushner, Blas Peixoto, Patricia Soteropoulos, Joel S. Bader, Petros C. Karakousis et al. · 2013 · Cell Communication and Signaling
Distinguishing between driver and passenger mutations in individual cancer genomes by network enrichment analysis
Simon Kebede Merid, Dariya Goranskaya, Andrey Alexeyenko · 2014 · BMC Bioinformatics
A network-based method for mechanistic investigation of Shexiang Baoxin Pill’s treatment of cardiovascular diseases
Haiyang Fang, Hua‐Wu Zeng, Li-Mei Lin, Xing Chen, Xiaona Shen, Peng Fu, Chao Lv, Qun Liu, Runhui Liu, Weidong Zhang et al. · 2017 · Scientific Reports
RNA-Seq Characterization of Spinal Cord Injury Transcriptome in Acute/Subacute Phases: A Resource for Understanding the Pathology at the Systems Level
Chen, Kenian, Deng, Shuyun, Lu, Hezuo, Zheng, Yiyan, Yang, Guodong, Kim, Dong, Cao, Qilin, Wu, Jia Qian · 2013 · PLoS ONE
Cellular stress promotes NOD1/2‐dependent inflammation via the endogenous metabolite sphingosine‐1‐phosphate
Gang Pei, Joanna Żyła, Lichun He, Pedro Moura‐Alves, Heidrun Steinle, Philippe Saikali, Laura Lozza, Natalie Eva Nieuwenhuizen, January Mikolaj Weiner, Hans‐Joachim Mollenkopf et al. · 2021 · The EMBO Journal
Self-guarding of MORC3 enables virulence factor-triggered immunity
Moritz M. Gaidt, Alyssa Morrow, Marian R. Fairgrieve, Jonathan P. Karr, Nir Yosef, Russell E. Vance · 2021 · Nature
Monosodium urate crystals regulate a unique JNK-dependent macrophage metabolic and inflammatory response
Isidoro Cobo, Anyan Cheng, Jessica Murillo‐Saich, Roxana Coras, Alyssa Torres, Yohei Abe, Addison J. Lana, Johannes C. M. Schlachetzki, Ru Liu‐Bryan, Robert A. Terkeltaub et al. · 2022 · Cell Reports
Generation of human islet cell type-specific identity genesets
Léon van Gurp, Leon Fodoulian, Daniel Oropeza, Kenichiro Furuyama, Eva Bru-Tarí, Anh Nguyet Vu, John S. Kaddis, Iván Rodríguez, Fabrizio Thorel, Pedro Luis Herrera · 2022 · Nature Communications
Phosphoproteomics reveals rewiring of the insulin signaling network and multi-nodal defects in insulin resistance
Daniel J. Fazakerley, Julian van Gerwen, Kristen C. Cooke, Xiaowen Duan, Elise J. Needham, Alexis Díaz‐Vegas, Søren Madsen, Dougall M. Norris, Amber S. Shun-Shion, James Robert Krycer et al. · 2023 · Nature Communications
Chronic airway epithelial hypoxia exacerbates injury in muco-obstructive lung disease through mucus hyperconcentration
Yu Mikami, Barbara R. Grubb, Troy D. Rogers, Hong Dang, Takanori Asakura, Pradeep B. Kota, Rodney C. Gilmore, Kenichi Okuda, Lisa C. Morton, Ling Sun et al. · 2023 · Science Translational Medicine
DNA hypomethylation silences anti-tumor immune genes in early prostate cancer and CTCs
Hongshan Guo, Joanna A. Vuille, Ben S. Wittner, Emily M. Lachtara, Yu Hou, Maoxuan Lin, Ting Zhao, Ayush T. Raman, Hunter C. Russell, Brittany A. Reeves et al. · 2023 · Cell
Inhibiting intracellular CD28 in cancer cells enhances antitumor immunity and overcomes anti-PD-1 resistance via targeting PD-L1
Zhen Yang, Xinpeng Liu, Jun Zhu, Yangyang Chai, Boyi Cong, Bo Li, Wan-Feng Gao, Ye Hu, Mingyue Wen, Yanfang Liu et al. · 2024 · Cancer Cell
Heterochromatin Protein 1α Mediates Development and Aggressiveness of Neuroendocrine Prostate Cancer
Xinpei Ci, Jun Hao, Xin Dong, Stephen Yiu Chuen Choi, Hui Xue, Rebecca Wu, Sifeng Qu, Peter W. Gout, Fang Zhang, Anne M. Haegert et al. · 2018 · Cancer Research
Targeted reconstruction of T cell receptor sequence from single cell RNA-seq links CDR3 length to T cell differentiation state
Shaked Afik, Kathleen B. Yates, Kevin Bi, Samuel W. Darko, Jernej Godec, Ulrike Gerdemann, Leo Swadling, Daniel C. Douek, Paul Klenerman, Eleanor J. Barnes et al. · 2017 · Nucleic Acids Research
E2F1 Drives Breast Cancer Metastasis by Regulating the Target Gene FGF13 and Altering Cell Migration
Daniel P. Hollern, Matthew Swiatnicki, Jonathan P. Rennhack, Sean A. Misek, Brooke C. Matson, Andrew McAuliff, Kathleen A. Gallo, Kathleen M. Caron, Eran R. Andrechek · 2019 · Scientific Reports
Comparative genetic architectures of schizophrenia in East Asian and European populations
Schizophrenia Working Group of the Psychiatric Genomics Consortium, Chia-Yen Chen, Zhiqiang Li, Alicia R. Martin, Julien Bryois, Xixian Ma, Héléna A. Gaspar, Masashi Ikeda, Beben Benyamin, Brielin C. Brown et al. · 2019 · Lancaster EPrints (Lancaster University)
Cerebro: interactive visualization of scRNA-seq data
Roman Hillje, Pier Giuseppe Pelicci, Lucilla Luzi · 2019 · Bioinformatics
Omics Playground: a comprehensive self-service platform for visualization, analytics and exploration of Big Omics Data
Murodzhon Akhmedov, Axel Martinelli, Roger Geiger, Ivo Kwee · 2019 · NAR Genomics and Bioinformatics
Integrative analysis of genome-wide association studies identifies novel loci associated with neuropsychiatric disorders
Xueming Yao, Joseph Glessner, Junyi Li, Xiaohui Qi, Xiaoyuan Hou, Chonggui Zhu, Xiaoge Li, Michael March, Liu Yang, Frank D. Mentch et al. · 2021 · Translational Psychiatry
Monocytes transition to macrophages within the inflamed vasculature via monocyte CCR2 and endothelial TNFR2
Vijayashree Mysore, Suhail Tahir, Kazuhiro Furuhashi, Jatin Arora, Florencia Rosetti, Xavier Culleré, Pascal Yazbeck, Miroslav Sekulic, Madeleine E. Lemieux, Soumya Raychaudhuri et al. · 2022 · The Journal of Experimental Medicine
Changes in chromatin accessibility are not concordant with transcriptional changes for single‐factor perturbations
Karun Kiani, Eric M. Sanford, Yogesh Goyal, Arjun Raj · 2022 · Molecular Systems Biology
Simultaneous targeting of PD-1 and IL-2Rβγ with radiation therapy inhibits pancreatic cancer growth and metastasis
Miles Piper, Maureen Hoen, Laurel B. Darragh, Michael W. Knitz, Diemmy Nguyen, Jacob Gadwa, Greta Durini, Idil Hutter-Karakoc, Abby Grier, Brooke Neupert et al. · 2023 · Cancer Cell
Sensory nerve release of CGRP increases tumor growth in HNSCC by suppressing TILs
Laurel B. Darragh, Alexander T. Nguyen, Tiffany Pham, Shaquia Idlett-Ali, Michael W. Knitz, Jacob Gadwa, Sanjana Bukkapatnam, Sophia Corbo, Nicholas A. Olimpo, Diemmy Nguyen et al. · 2024 · Med
Progress in toxicogenomics to protect human health
Matthew J. Meier, Joshua Harrill, Kamin J. Johnson, Russell S. Thomas, Weida Tong, Julia E. Rager, Carole Lyn Yauk · 2024 · Nature Reviews Genetics
Gene expression profiling identifies candidate biomarkers for active and latent tuberculosis
Shih-Wei Lee, Lawrence Shih‐Hsin Wu, Guan-Mau Huang, Kai‐Yao Huang, Tzong-Yi Lee, Julia Tzu-Ya Weng · 2016 · BMC Bioinformatics
Comparison of tumor-associated YAP1 fusions identifies a recurrent set of functions critical for oncogenesis
Frank Szulzewsky, Sonali Arora, Pia Hoellerbauer, Claire King, Erica Nathan, Marina Chan, Patrick Joseph Cimino, Tatsuya Ozawa, Daisuke Kawauchi, Kristian W. Pajtler et al. · 2020 · Genes & Development
SARS-CoV-2 Switches ‘on’ MAPK and NFκB Signaling via the Reduction of Nuclear DUSP1 and DUSP5 Expression
Swati Goel, Fatemeh Saheb Sharif‐Askari, Narjes Saheb Sharif‐Askari, Bushra Mdkhana, Ahmad Munzer Alwaa, Bassam H. Mahboub, Adel M. Zakeri, Elaref Ratemi, Rifat Hamoudi, Qutayba A. Hamid et al. · 2021 · Frontiers in Pharmacology
Targeted PI3K/AKT-hyperactivation induces cell death in chronic lymphocytic leukemia
Veronika Ecker, Martina Stumpf, Lisa Brandmeier, Tanja Neumayer, Lisa Pfeuffer, Thomas Engleitner, Ingo Ringshausen, Nina Nelson, Manfred Jücker, Stefan Wanninger et al. · 2021 · Nature Communications
CD70 as an actionable immunotherapeutic target in recurrent glioblastoma and its microenvironment
Mathieu Seyfrid, William Thomas Maich, Muhammad Vaseem Shaikh, Nazanin Tatari, Deepak Upreti, Deween Piyasena, Minomi Subapanditha, Neil J. Savage, Dillon McKenna, Nicholas Mikolajewicz et al. · 2022 · Journal for ImmunoTherapy of Cancer
IL11 Stimulates IL33 Expression and Proinflammatory Fibroblast Activation across Tissues
Anissa Anindya Widjaja, Sonia Pankaj Chothani, Sivakumar Viswanathan, Joyce Wei Ting Goh, Wei‐Wen Lim, Stuart A. Cook · 2022 · International Journal of Molecular Sciences
Influenza vaccination reveals sex dimorphic imprints of prior mild COVID-19
Rachel Sparks, William W. Lau, Can Liu, Kyu Lee Han, Kiera L. Vrindten, Guangping Sun, Milann Cox, Sarah F. Andrews, Neha Bansal, Laura E. Failla et al. · 2023 · Nature
Adipocyte-derived ferroptotic signaling mitigates obesity
Xue Wang, Qian Wu, Meijuan Zhong, Ying Chen, Yudi Wang, Xin Li, Wenxi Zhao, Chaodong Ge, Xinhui Wang, Yingying Yu et al. · 2024 · Cell Metabolism
Dermal Blimp1 Acts Downstream of Epidermal TGFβ and Wnt/β-Catenin to Regulate Hair Follicle Formation and Growth
Stéphanie B. Telerman, Emanuel Rognoni, Inês Sequeira, Angela Oliveira Pisco, Beate M. Lichtenberger, Oliver J. Culley, Priyalakshmi Viswanathan, Ryan R. Driskell, Fiona M. Watt · 2017 · Journal of Investigative Dermatology
Modeling cis-regulation with a compendium of genome-wide histone H3K27ac profiles
Su Wang, Chongzhi Zang, Tengfei Xiao, Jing‐Yu Fan, Shenglin Mei, Qian Qin, Qiu Wu, Xujuan Li, Kexin Xu, Housheng Hansen He et al. · 2016 · Genome Research
Epigenome-wide association study of Alzheimer’s disease replicates 22 differentially methylated positions and 30 differentially methylated regions
Qingqin S. Li, Yu Sun, Tania Wang · 2020 · Clinical Epigenetics
Endothelial Cells Are Heterogeneous in Different Brain Regions and Are Dramatically Altered in Alzheimer's Disease
Annie G. Bryant, Zhaozhi Li, Rojashree Jayakumar, Alberto Serrano‐Pozo, Benjamin Woost, Miwei Hu, Maya E. Woodbury, Astrid Wachter, Gen Lin, Taekyung Kwon et al. · 2023 · Journal of Neuroscience
Vascular senescence and leak are features of the early breakdown of the blood–brain barrier in Alzheimer’s disease models
Ka Ka Ting, Paul R. Coleman, Hani Jieun Kim, Yang Zhao, Jocelyne Mulangala, Ngan Ching Cheng, Wan Li, Dilini Gunatilake, Daniel M. Johnstone, Lipin Loo et al. · 2023 · GeroScience
A Microarray Platform-Independent Classification Tool for Cell of Origin Class Allows Comparative Analysis of Gene Expression in Diffuse Large B-cell Lymphoma
Matthew A. Care, Sharon Barrans, Lisa J. Worrillow, Andrew Jack, David R. Westhead, Reuben M. Tooze · 2013 · PLoS ONE
Epigenome-wide association study of rheumatoid arthritis identifies differentially methylated loci in B cells
Antonio Julià, Devin Absher, Maria Lopez Lasanta, Núria Palau, Andrea Pluma, Lindsay Waite Jones, John R. Glossop, William E. Farrell, R Myers, Sara Marsal · 2017 · Human Molecular Genetics
Cancer-associated mutations in DICER1 RNase IIIa and IIIb domains exert similar effects on miRNA biogenesis
Jeffrey Vedanayagam, Walid Khaled Chatila, Bülent Arman Aksoy, Sonali Majumdar, Anders J. Skanderup, Emek Demir, Nikolaus D. Schultz, Chris Sander, Eric C. Lai · 2019 · Nature Communications
The Pancreatic Microbiome is Associated with Carcinogenesis and Worse Prognosis in Males and Smokers
Jaideep Chakladar, Selena Z. Kuo, Grant Castaneda, Wei Tse Li, Aditi Gnanasekar, Michael Andrew Yu, Eric Yao Chang, Xiao Qi Wang, Weg M. Ongkeko · 2020 · Cancers
A MYC and RAS co-activation signature in localized prostate cancer drives bone metastasis and castration resistance
Juan Martín Arriaga, Sukanya Panja, Mohammed Alshalalfa, Junfei Zhao, Min Zou, Arianna Giacobbe, Chioma J. Madubata, Jaime Yeji Kim, Antonio Rodrı́guez, Ilsa M. Coleman et al. · 2020 · Nature Cancer
PD-1 and TIGIT coexpression identifies a circulating CD8 T cell subset predictive of response to anti-PD-1 therapy
Sylvain Simon, Valentin Voillet, Virginie Vignard, Zhong Wu, Camille Dabrowski, Nicolas Jouand, Tiffany Beauvais, Amir Khammari, Cécile Braudeau, Régis Josien et al. · 2020 · Journal for ImmunoTherapy of Cancer
Evaluating the impact of age on immune checkpoint therapy biomarkers
Rossin Erbe, Zheyu Wang, Sharon K. Wu, Joanne Xiu, Neeha Zaidi, Jennifer La, David P. Tuck, Nathanael R. Fillmore, Nicolás A. Giraldo, Michael J. Topper et al. · 2021 · Cell Reports
Regnase-1 Prevents Pulmonary Arterial Hypertension Through mRNA Degradation of Interleukin-6 and Platelet-Derived Growth Factor in Alveolar Macrophages
Ai Yaku, Tadakatsu Inagaki, Ryotaro Asano, Makoto Okazawa, Hiroyoshi Mori, Ayuko Sato, Fabian Hia, Takeshi Masaki, Yusuke Manabe, Tomohiko Ishibashi et al. · 2022 · Circulation
Anti-CTLA-4 antibodies drive myeloid activation and reprogram the tumor microenvironment through FcγR engagement and type I interferon signaling
Ido Yofe, Tomer Landsberger, Adam Yalin, Isabelle Solomon, Cristóbal Costoya, Dafne Franz Demane, Mansi Shah, Eyal David, Chamutal Borenstein, Oren Barboy et al. · 2022 · Nature Cancer
Targeting endogenous kidney regeneration using anti-IL11 therapy in acute and chronic models of kidney disease
Anissa Anindya Widjaja, Sivakumar Viswanathan, Shamini Guna Shekeran, Eleonora Adami, Wei‐Wen Lim, Sonia Pankaj Chothani, Jessie Tan, Joyce Wei Ting Goh, Huimei Chen, Sze Yun Lim et al. · 2022 · Nature Communications
Distinct single-cell immune ecosystems distinguish true and de novo HBV-related hepatocellular carcinoma recurrences
Shuling Chen, Cheng Huang, Guanrui Liao, Hui‐Chuan Sun, Yubin Xie, Jianping Wang, Minghui He, Minghui He, Zihao Dai, Xiaoxue Ren et al. · 2023 · Gut
IL2 Targeted to CD8+ T Cells Promotes Robust Effector T-cell Responses and Potent Antitumor Immunity
Kelly Dare Moynihan, Manu P. Kumar, Hussein Sultan, Danielle C. Pappas, Terrence Park, Sherman Michael Chin, Paul H. Bessette, Ruth Y. Lan, Henry C. Nguyen, Nathan D. Mathewson et al. · 2024 · Cancer Discovery
GeneSetDB: A comprehensive meta‐database, statistical and visualisation framework for gene set analysis
Hiromitsu Araki, Christoph Knapp, Peter Tsai, Cristin Gregor Print · 2012 · FEBS Open Bio
Deep learning of pharmacogenomics resources: moving towards precision oncology
Yu‐Chiao Chiu, Hung-I Harry Chen, Aparna Gorthi, Milad Mostavi, Siyuan Zheng, Yufei Huang, Yidong Chen · 2019 · Briefings in Bioinformatics
MOGSA: Integrative Single Sample Gene-set Analysis of Multiple Omics Data
2019
Identification of the molecular subgroups in coronary artery disease by gene expression profiles
Xiaoyan Peng, Yong Wang, Haibo Hu, Xian‐Jin Zhang, Qi Li · 2019 · Journal of Cellular Physiology
Cardelino: computational integration of somatic clonal substructure and single-cell transcriptomes
Davis James McCarthy, Raghd Rostom, Yuanhua Huang, Daniel J. Kunz, Petr Danecek, Marc Jan Bonder, Tzachi Hagai, Ruqian Lyu, Wenyi Wang, Daniel J. Gaffney et al. · 2020 · Nature Methods
ADHDgene: a genetic database for attention deficit hyperactivity disorder
Zhang, L., Chang, S., Li, Z., Zhang, K., Du, Y., Ott, J., Wang, J. · 2012 · Nucleic Acids Research
Imaging-genomics reveals driving pathways of MRI derived volumetric tumor phenotype features in Glioblastoma
Patrick Großmann, David A. Gutman, William D. Dunn, Chad A. Holder, Hugo J.W.L. Aerts · 2016 · BMC Cancer
Integrative multiplatform molecular profiling of benign prostatic hyperplasia identifies distinct subtypes
Deli Liu, Jonathan Evan Shoag, Daniel Poliak, Ramy S. Goueli, Vaishali Ravikumar, David Redmond, Aram Vosoughi, Jacqueline Fontugne, Heng Pan, Daniel C. Lee et al. · 2020 · Nature Communications
Context Matters: NOTCH Signatures and Pathway in Cancer Progression and Metastasis
Julia Oliwia Misiorek, Alicja Przybyszewska-Podstawka, Joanna Kałafut, Beata Paziewska, Katarzyna Rolle, Adolfo Rivero‐Müller, Matthias Nees · 2021 · Cells
Extracellular Matrix in Synthetic Hydrogel‐Based Prostate Cancer Organoids Regulate Therapeutic Response to EZH2 and DRD2 Inhibitors
Matthew J. Mosquera, Sungwoong Kim, Rohan Bareja, Zhou Fang, Shuangyi Cai, Heng Pan, Muhammad Imran Asad, M. Laura Martín, Michael Sigouros, Florencia P. Madorsky Rowdo et al. · 2021 · Advanced Materials
On the influence of several factors on pathway enrichment analysis
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