Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: bioconductor: limma

https://packages.ecosyste.ms/registries/bioconductor.org/packages/limma

Linear Models for Microarray Data
3 versions
Latest release: about 1 year ago
314 dependent packages
4,663,292 downloads total

Papers Mentioning limma 7,776

10.3389/fmicb.2012.00284
Comparison of Sepsis-Induced Transcriptomic Changes in a Murine Model to Clinical Blood Samples Identifies Common Response Patterns
Cited by: 15
Author(s): Sandro Lambeck, Martina Weber, Falk A. Gonnert, Ralf Mrowka, Michael Bauer
Software Mentions: 1
Published: almost 13 years ago
10.1186/1471-2164-11-6
An evolutionary consequence of dosage compensation on Drosophila melanogaster female X-chromatin structure?
Cited by: 35
Author(s): Yu Zhang, Brian Oliver
Software Mentions: 1
Published: almost 15 years ago
10.3389/fmicb.2017.00276
Apoptosis, Toll-like, RIG-I-like and NOD-like Receptors Are Pathways Jointly Induced by Diverse Respiratory Bacterial and Viral Pathogens
Cited by: 21
Author(s): Isidoro Martı́nez, Juan Carlos Oliveros, Isabel Cuesta, Jorge de la Barrera, Vicente Ausina, Cristina Casals, Alba de Lorenzo, Ernesto Garcı́a, Belén García-Fojeda, Junkal Garmendía, Mar González-Nicolau, Alícia Lacoma, Margarita Menéndez, David Moranta, Amelia Nieto, Juan Ortı́n, Alicia Pérez-González, Cristina Prat, Elisa Ramos‐Sevillano, Verónica Regueiro, Ariel Rodríguez-Frandsen, Dolores Solı́s, José Yuste, José A. Bengoechea, José A. Melero
Software Mentions: 1
Published: over 7 years ago
10.3389/fmicb.2016.00229
Different Transcriptional Responses from Slow and Fast Growth Rate Strains of Listeria monocytogenes Adapted to Low Temperature
Cited by: 24
Author(s): Ninoska Cordero, Felipe Rodríguez Maza, Helen Navea-Perez, Andrés Aravena, Bárbara Marquez-Fontt, Paola Navarrete, Guillermo Figueroa, Maurício González, Mauricio Latorre, Angélica Reyes-Jara
Software Mentions: 1
Published: over 8 years ago
10.3389/fmicb.2021.638640
Silver Nanoparticles Induce a Triclosan-Like Antibacterial Action Mechanism in Multi-Drug Resistant Klebsiella pneumoniae
Cited by: 19
Author(s): Vikram Pareek, Stéphanie Devineau, Sathesh K Sivasankaran, Arpit Bhargava, Jitendra Panwar, Shabarinath Srikumar, Séamus Fanning
Software Mentions: 1
Published: almost 4 years ago
10.3389/fmicb.2020.01301
NF-κB/TWIST1 Mediates Migration and Phagocytosis of Macrophages in the Mice Model of Implant-Associated Staphylococcus aureus Osteomyelitis
Cited by: 13
Author(s): Yutian Wang, Yihuang Lin, Ching‐Li Cheng, Pengyu Chen, Ping Zhang, Hangtian Wu, Kaiqun Li, Ye Deng, Jikun Qian, Xianrong Zhang, Bin Yu
Software Mentions: 1
Published: over 4 years ago
10.3390/cells8010015
A Role for Circular Non-Coding RNAs in the Pathogenesis of Sporadic Parathyroid Adenomas and the Impact of Gender-Specific Epigenetic Regulation
Cited by: 12
Author(s): Maria P. Yavropoulou, Christos Poulios, Nikolaos Michalopoulos, Ariadni Gatzou, Sofia Chrisafi, Stylianos Mantalovas, Theodossis S Papavramidis, Emily Daskalaki, Electra Sofou, Kalliopi Kotsa, Ισαάκ Κεσίσογλου, Pantelis Zebekakis, John G. Yovos
Software Mentions: 1
Published: almost 6 years ago
10.18632/aging.101355
Exosomal microRNAs derived from colorectal cancer-associated fibroblasts: role in driving cancer progression
Cited by: 105
Author(s): Rahul Bhome, Rebecca W. Goh, Marc D. Bullock, Nir Pillar, Stephen M. Thirdborough, Massimiliano Mellone, Reza Mirnezami, Dieter Galea, Kirill Veselkov, Quan Gu, Tim Underwood, John Primrose, Olivier De Wever, Noam Shomron, Emre Sayan, Alex H. Mirnezami
Software Mentions: 1
Published: almost 7 years ago
10.3389/fmicb.2017.00539
Outlining Core Pathways of Amyloid Toxicity in Bacteria with the RepA-WH1 Prionoid
Cited by: 15
Author(s): Laura Molina García, María Moreno-del Álamo, Pedro Botías, Zaira Martín‐Moldes, María Rosario Salinas Fernández, Alicia Sánchez-Gorostiaga, Aída Alonso-del Valle, Juan Nogales, Jesús García-Cantalejo, Rafael Giraldo
Software Mentions: 1
Published: over 7 years ago
10.3389/fmicb.2018.02084
Clostridium difficile Biofilm: Remodeling Metabolism and Cell Surface to Build a Sparse and Heterogeneously Aggregated Architecture
Cited by: 46
Author(s): Isabelle Poquet, Laure Saujet, Alexis Canette, Marc Monot, Jovana Mihajlovic, Jean‐Marc Ghigo, Olga Soutourina, Romain Briandet, Isabelle Martin‐Verstraete, Bruno Dupuy
Software Mentions: 1
Published: about 6 years ago
10.1186/s12864-018-5220-x
RATEmiRs: the rat atlas of tissue-specific and enriched miRNAs database
Cited by: 19
Author(s): Pierre R. Bushel, Florian Caiment, Han Wu, Raegan O’Lone, Frank Day, John N. Calley, Aaron T. Smith, Jianying Li
Software Mentions: 1
Published: about 6 years ago
10.1016/j.stem.2012.02.023
The Germ Cell Determinant Blimp1 Is Not Required for Derivation of Pluripotent Stem Cells
Cited by: 22
Author(s): Siqin Bao, Harry G. Leitch, Astrid Gillich, Jennifer Nichols, Fuchou Tang, Shinseog Kim, Caroline Lee, Thomas P. Zwaka, Xihe Li, M. Azim Surani
Software Mentions: 1
Published: over 12 years ago
10.3389/fmicb.2020.01553
Increased Antibody Response to Fucosylated Oligosaccharides and Fucose-Carrying Bacteroides Species in Crohn’s Disease
Cited by: 7
Author(s): Katharina Kappler, Yi Lasanajak, David F. Smith, Lennart Opitz, Thierry Hennet
Software Mentions: 1
Published: over 4 years ago
10.1038/s41422-019-0181-4
AIF-regulated oxidative phosphorylation supports lung cancer development
Cited by: 56
Author(s): Rao S, Laura Mondragón, Blanka Pranjic, Toshikatsu Hanada, Gautier Stoll, Thomas Köcher, Peng Zhang, Alexander Jais, Alexander Lercher, Andréas Bergthaler, Daniel Schramek, Katharina Haigh, Valentina Sica, Marion Leduc, Nazanine Modjtahedi, Tsung-Pin Pai, Masahiro Onji, Iris Uribesalgo, Reiko Hanada, I. Kozieradzki, Rubina Koglgruber, Shane J. F. Cronin, Zhi‐Gang She, Franz Quehenberger, Helmut Popper, Lukas Kenner, Jody J. Haigh, Oliver Kepp, Malgorzata Rak, Kaican Cai, Guido Kroemer, Josef Penninger
Software Mentions: 1
Published: over 5 years ago
10.1016/j.celrep.2018.05.049
Inhibition of Microprocessor Function during the Activation of the Type I Interferon Response
Cited by: 14
Author(s): Jeroen Witteveldt, Alasdair Ivens, Sara Macías
Software Mentions: 1
Published: over 6 years ago
10.1016/j.celrep.2021.109155
Copy number aberrations drive kinase rewiring, leading to genetic vulnerabilities in cancer
Cited by: 9
Author(s): Danish Memon, Michael B. Gill, Evangelia K. Papachristou, David Ochoa, Clive S. D’Santos, Martin L. Miller, Pedro Beltrão
Software Mentions: 1
Published: over 3 years ago
10.3389/fmicb.2019.02007
Regulation of Early Host Immune Responses Shapes the Pathogenicity of Avian Influenza A Virus
Cited by: 9
Author(s): Jiya Sun, Jingfeng Wang, Xuye Yuan, Xiangwei Wu, Tianqi Sui, Aiping Wu, Genhong Cheng, Taijiao Jiang
Software Mentions: 1
Published: about 5 years ago
10.1186/1471-2164-13-173
Genome-wide expression profiling shows transcriptional reprogramming in Fusarium graminearum by Fusarium graminearum virus 1-DK21 infection
Cited by: 33
Author(s): Won Kyong Cho, Jisuk Yu, Kyung-Mi Lee, Moonil Son, Kyung-Hee Min, Yin-Won Lee, Kook‐Hyung Kim
Software Mentions: 1
Published: over 12 years ago
10.1186/1471-2164-14-869
TE-array—a high throughput tool to study transposon transcription
Cited by: 12
Author(s): Veena P. Gnanakkan, Andrew E. Jaffe, Lixin Dai, Jie Fu, Sarah J. Wheelan, Hyam I. Levitsky, Jef D. Boeke, Kathleen H. Burns
Software Mentions: 1
Published: almost 11 years ago
10.3389/fmicb.2016.00320
Genome-Wide Expression Profiling Reveals S100B as Biomarker for Invasive Aspergillosis
Cited by: 6
Author(s): Andreas Dix, Kristin Czakai, Jan Springer, Mirjam Fließer, Michael Bonin, Reinhard Guthke, Anna Lena Schmitt, Hermann Einsele, Jörg Linde, Jürgen Löffler
Software Mentions: 1
Published: over 8 years ago
10.1007/s00018-020-03703-8
Shared extracellular vesicle miRNA profiles of matched ductal pancreatic adenocarcinoma organoids and blood plasma samples show the power of organoid technology
Cited by: 14
Author(s): Anikó Zeöld, Gyöngyvér Orsolya Sándor, Anna L. Kiss, András Áron Soós, Tamás Tölgyes, Attila Bursics, Ákos Szücs, László Harsányi, Ágnes Kittel, András Gézsi, Edit I. Buzás, Zoltán Wiener
Software Mentions: 1
Published: almost 4 years ago
10.3389/fmicb.2020.596440
CircRNA-1806 Decreases T Cell Apoptosis and Prolongs Survival of Mice After Cryptococcal Infection by Sponging miRNA-126
Cited by: 4
Author(s): Lei Zhang, Keming Zhang, Wenzhang Fang, Hang Li, Yingfang Li, Weiwei Jiang, Dongying Hu, Carolina Coelho, Xiaogang Liu, Liangqi Cai, Wanqing Liao, Weihua Pan
Software Mentions: 1
Published: about 4 years ago
10.3389/fmicb.2015.00051
Heat shock proteins IbpA and IbpB are required for NlpI-participated cell division in Escherichia coli
Cited by: 9
Author(s): Jing Tao, Yu Sang, Qihui Teng, Jinjing Ni, Kevin Yi Yang, Stephen Kwok‐Wing Tsui, Yufeng Yao
Software Mentions: 1
Published: almost 10 years ago
10.3389/fmicb.2018.01142
Analysis of Beijing Douzhir Microbiota by High-Throughput Sequencing and Isolation of Acidogenic, Starch-Flocculating Strains
Cited by: 2
Author(s): Yan Xu, Yu Yang, Yuan Tian, Yuhong Su, Xiaona Li, Zhen Zhang, Hongyan Zhu, Jiahong Han, Huajiang Zhang, Liying Liu, Lili Zhang
Software Mentions: 1
Published: over 6 years ago
10.1007/s00018-021-03902-x
Chronic exposure to Cytolethal Distending Toxin (CDT) promotes a cGAS-dependent type I interferon response
Cited by: 6
Author(s): Benoît J. Pons, Aurélie Pettes-Duler, Claire Naylies, Frédéric Taïeb, Catherine Bouchenot, Saleha Hashim, Patrick Rouimi, Maxime Deslande, Yannick Lippi, Gladys Mirey, Julien Vignard
Software Mentions: 1
Published: over 3 years ago
10.1007/s00018-013-1336-y
Function of the C. elegans T-box factor TBX-2 depends on SUMOylation
Cited by: 13
Author(s): Paul Huber, Tanya Crum, Lynn M. Clary, Tom Ronan, Adelaide V. Packard, Peter G. Okkema
Software Mentions: 1
Published: over 11 years ago
10.1186/1471-2164-12-81
Population transcriptomics of Drosophila melanogaster females
Cited by: 45
Author(s): Lena Müller, Stephan Hütter, Rayna Stamboliyska, Sarah S. Saminadin-Peter, Wolfgang Stephan, John Parsch
Software Mentions: 1
Published: almost 14 years ago
10.1186/s11658-019-0183-8
Monoamine oxidase-A activity is required for clonal tumorsphere formation by human breast tumor cells
Cited by: 10
Author(s): William D. Gwynne, Mirza S. Shakeel, Jianhan Wu, Robin Hallett, Adele Girgis-Gabardo, Anna Dvorkin‐Gheva, John A. Hassell
Software Mentions: 1
Published: about 5 years ago
10.1016/j.cmet.2018.02.007
Visceral Adipose Tissue Immune Homeostasis Is Regulated by the Crosstalk between Adipocytes and Dendritic Cell Subsets
Cited by: 106
Author(s): Claire Elizabeth Macdougall, Elizabeth G. Wood, Jakob Loschko, Valeria Scagliotti, Féaron C. Cassidy, Mark E. Robinson, Niklas Feldhahn, Leandro Castellano, Mathieu-Benoı̂t Voisin, Federica M. Marelli‐Berg, Carles Gaston‐Massuet, Marika Charalambous, M. Paula Longhi
Software Mentions: 1
Published: over 6 years ago
10.3389/fmicb.2020.01939
Genome-Wide Transcription Start Site Mapping and Promoter Assignments to a Sigma Factor in the Human Enteropathogen Clostridioides difficile
Cited by: 38
Author(s): Olga Soutourina, Thomas Dubois, Marc Monot, Pavel V. Shelyakin, Laure Saujet, Pierre Boudry, Mikhail S. Gelfand, Bruno Dupuy, Isabelle Martin‐Verstraete
Software Mentions: 1
Published: over 4 years ago
10.1186/1471-2164-15-829
Profiling of the embryonic Atlantic halibut (Hippoglossus hippoglossus L.) transcriptome reveals maternal transcripts as potential markers of embryo quality
Cited by: 29
Author(s): Maren Mommens, Jorge M.O. Fernandes, Knut Erik Tollefsen, Ian A. Johnston, Igor Babiak
Software Mentions: 1
Published: about 10 years ago
10.22074/cellj.2018.4991
Bioinformatic Analysis Identifies Three Potentially Key Differentially Expressed Genes in Peripheral Blood Mononuclear Cells of Patients with Takayasu's Arteritis.
Cited by: 0
Author(s): Renping Huang, Yang He, Bei Sun, Bing Liu
Software Mentions: 1
Published: almost 7 years ago
10.1186/s12864-015-1393-8
Pichia pastoris regulates its gene-specific response to different carbon sources at the transcriptional, rather than the translational, level
Cited by: 70
Author(s): Roland Prielhofer, Stephanie P. Cartwright, Alexandra B. Graf, Minoska Valli, Roslyn M. Bill, Diethard Mattanovich, Brigitte Gasser
Software Mentions: 1
Published: over 9 years ago
10.1038/cddiscovery.2016.16
Mitochondrial DNA plasticity is an essential inducer of tumorigenesis
Cited by: 26
Author(s): William Lee, Jason E. Cain, Andrew Cuddihy, Jacqueline L. Johnson, Adam Dickinson, K-Y Yeung, Beena Kumar, Terrance G. Johns, D. Neil Watkins, Andrew Spencer, Justin C. St. John
Software Mentions: 1
Published: over 8 years ago
10.1038/s41420-021-00525-w
Hypoxic TAM-derived exosomal miR-155-5p promotes RCC progression through HuR-dependent IGF1R/AKT/PI3K pathway
Cited by: 25
Author(s): Wei Gu, Linjing Gong, Xu Wu, Xudong Yao
Software Mentions: 1
Published: over 3 years ago
10.1038/s41420-018-0036-7
Characterization of dysregulated lncRNA-mRNA network based on ceRNA hypothesis to reveal the occurrence and recurrence of myocardial infarction
Cited by: 39
Author(s): Guangde Zhang, Haoran Sun, Yawei Zhang, Hengqiang Zhao, Wenjing Fan, Jianfei Li, Yingli Lv, Qiong Song, Jiayao Li, Mingyu Zhang, Hang Shi
Software Mentions: 1
Published: almost 7 years ago
10.1038/s41420-021-00625-7
Dipeptidyl peptidase-4 (DPP4) inhibitor sitagliptin alleviates liver inflammation of diabetic mice by acting as a ROS scavenger and inhibiting the NFκB pathway
Cited by: 17
Author(s): Xin Wang, Jing Ke, Yingjun Zhu, Bin Cao, Ruili Yin, Yan Wang, Lingling Wei, Lijie Zhang, Longyan Yang, Dong Zhao
Software Mentions: 1
Published: about 3 years ago
10.1038/s41420-021-00562-5
Implication of human endogenous retrovirus W family envelope in hepatocellular carcinoma promotes MEK/ERK-mediated metastatic invasiveness and doxorubicin resistance
Cited by: 24
Author(s): Yan Zhou, Lijuan Liu, Youyi Liu, Ping Zhou, Qiujin Yan, Honglian Yu, Xiaobei Chen, Fan Zhu
Software Mentions: 1
Published: over 3 years ago
10.7554/eLife.69578
Innate immune activation by checkpoint inhibition in human patient-derived lung cancer tissues
Cited by: 15
Author(s): Teresa W.‐M. Fan, Richard M. Higashi, Hai Song, Saeed Daneshmandi, Angela Mahan, Matthew S. Purdom, Thérèse Bocklage, Thomas Pittman, Daheng He, Chi Wang, Andrew N. Lane
Software Mentions: 1
Published: over 3 years ago
10.1038/cddiscovery.2017.15
Cell-free chromatin from dying cancer cells integrate into genomes of bystander healthy cells to induce DNA damage and inflammation
Cited by: 38
Author(s): Indraneel Mittra, Urmila Samant, Suvarna Sharma, G. Raghuram, Tannistha Saha, Pritishkumar Tidke, Namrata Pancholi, Deepika Gupta, Preeti Prasannan, Ashwini Gaikwad, Nilesh Gardi, Rohan Chaubal, Pawan Upadhyay, Kavita Pal, Bhagyeshri Rane, Alfina Shaikh, Sameer Salunkhe, Shilpee Dutt, Pradyumna Kumar Mishra, Naveen K. Khare, Naveen Kumar Nair, Amit Dutt
Software Mentions: 1
Published: over 7 years ago
10.1038/s41420-018-0096-8
The role of miR-106p-5p in cervical cancer: from expression to molecular mechanism
Cited by: 17
Author(s): Yuexiong Yi, Yanyan Liu, Wanrong Wu, Kejia Wu, Wei Zhang
Software Mentions: 1
Published: about 6 years ago
10.1038/s41419-021-03951-x
Global transcriptomic changes in glomerular endothelial cells in mice with podocyte depletion and glomerulosclerosis
Cited by: 2
Author(s): Jia Fu, Zhengzi Yi, Ming Cai, Yuan Wang, Weijia Zhang, Kyung Hwa Lee, John Cijiang He
Software Mentions: 1
Published: over 3 years ago
10.1038/cddis.2017.49
Neuroblastoma cells depend on HDAC11 for mitotic cell cycle progression and survival
Cited by: 41
Author(s): Theresa Thole, Marco Lodrini, Johannes Fabian, Jasmin Wuenschel, Sebastian Pfeil, Thomas Hielscher, Annette Kopp‐Schneider, Ulrike Heinicke, Simone Fulda, Olaf Witt, Angelika Eggert, Matthias Fischer, Hedwig E. Deubzer
Software Mentions: 1
Published: over 7 years ago
10.1038/s41419-018-1102-z
The thiosemicarbazone Me2NNMe2 induces paraptosis by disrupting the ER thiol redox homeostasis based on protein disulfide isomerase inhibition
Cited by: 33
Author(s): Sonja Hager, Katharina Korbula, Bjoern Bielec, Michael Grusch, Christine Pirker, Markus Schosserer, Lisa Liendl, Magdalena Lang, Johannes Grillari, Karin Nowikovsky, Veronika F.S. Pape, Thomas Mohr, Gergely Szakács, Bernhard K. Keppler, Walter Berger, Christian R. Kowol, Petra Heffeter
Software Mentions: 1
Published: about 6 years ago
10.1038/s41419-020-03029-0
LncRNA MNX1-AS1 promotes progression of intrahepatic cholangiocarcinoma through the MNX1/Hippo axis
Cited by: 20
Author(s): Fengwei Li, Qinjunjie Chen, Hui Xue, Lei Zhang, Kui Wang, Feng Shen
Software Mentions: 1
Published: about 4 years ago
10.7554/eLife.12102
Structural and kinetic analysis of the COP9-Signalosome activation and the cullin-RING ubiquitin ligase deneddylation cycle
Cited by: 72
Author(s): Ruzbeh Mosadeghi, Kurt M. Reichermeier, Martin Winkler, Anne Schreiber, Justin M. Reitsma, Yaru Zhang, Florian Stengel, Junyue Cao, Minsoo Kim, Michael J. Sweredoski, Sonja Hess, Alexander Leitner, Ruedi Aebersold, Matthias Peter, Raymond J. Deshaies, Radoslav I. Enchev
Software Mentions: 1
Published: over 8 years ago
10.1038/s41419-019-1498-0
Comparison of human isogeneic Wharton’s jelly MSCs and iPSC-derived MSCs reveals differentiation-dependent metabolic responses to IFNG stimulation
Cited by: 12
Author(s): Liani Devito, Michail E. Klontzas, Aleksandra Čvoro, Antonio Galleu, Marisa Simon, Carl Hobbs, Francesco Dazzi, Athanasios Mantalaris, Yacoub Khalaf, Duško Ilić
Software Mentions: 1
Published: over 5 years ago
10.1038/s41419-018-0450-z
miR-381-3p knockdown improves intestinal epithelial proliferation and barrier function after intestinal ischemia/reperfusion injury by targeting nurr1
Cited by: 45
Author(s): Liwei Liu, Jihong Yao, Zhenlu Li, Guo Zu, Decheng Feng, Li Yang, W Qasim, Su Zhang, Tong Li, Huizhi Zeng, Xiaofeng Tian
Software Mentions: 1
Published: over 6 years ago
10.1186/1471-2164-10-236
Transcriptomics reveals extensive inducible biotransformation in the soil-dwelling invertebrate Folsomia candida exposed to phenanthrene
Cited by: 65
Author(s): Benjamin Nota, Mirte Bosse, Bauke Ylstra, Nico M. van Straalen, Dick Roelofs
Software Mentions: 1
Published: almost 16 years ago
10.1038/cddis.2017.544
miR-99a reveals two novel oncogenic proteins E2F2 and EMR2 and represses stemness in lung cancer
Cited by: 68
Author(s): Andrea Feliciano, Yoelsis García-Mayea, Luz Jubierre, Cristina Mir, Manuela Hummel, Josep Castellví, Javier Hernández‐Losa, Rosanna Paciucci, Irene Sansano, Yaxin Sun, Santiago Ramón y Cajal, Hiroshi Kondon, Aroa Soriano, Miguel F. Segura, Alex Lyakhovich, Matilde E. Lleonart
Software Mentions: 1
Published: about 7 years ago
10.1038/s41419-018-1096-6
Integrative analysis of transcriptomics and clinical data uncovers the tumor-suppressive activity of MITF in prostate cancer
Cited by: 12
Author(s): Lorea Valcárcel-Jiménez, Alice Macchia, Natalia Martín-Martín, Ana R. Cortazar, Ariane Schaub-Clerigué, Mikel Pujana-Vaquerizo, Sonia Fernández-Ruiz, Isabel Lacasa-Viscasillas, Aida Santos-Martin, Ana Loizaga-Iriarte, Miguel Unda, Ivana Heřmanová, Ianire Astobiza, Mariona Graupera, Júlia Starková, James D. Sutherland, Rosa Barrio, Ana M. Aransay, Arkaitz Carracedo, Verónica Torrano
Software Mentions: 1
Published: about 6 years ago
10.1038/cddis.2016.180
AKT activation controls cell survival in response to HDAC6 inhibition
Cited by: 21
Author(s): Maciej Kaliszczak, Sebastian Trousil, Taqdir Ali, Eric O. Aboagye
Software Mentions: 1
Published: over 8 years ago
10.1038/s41419-020-2532-y
The circular RNA circMAST1 promotes hepatocellular carcinoma cell proliferation and migration by sponging miR-1299 and regulating CTNND1 expression
Cited by: 26
Author(s): Xuezhong Yu, Ping Sheng, Jing Sun, Xijuang Zhao, Junting Zhang, Yiying Li, YiMeng Zhang, Wenxiu Zhang, Jianqi Wang, Kunpeng Liu, Daling Zhu, Hongchi Jiang
Software Mentions: 1
Published: over 4 years ago
10.1038/s41419-021-03626-7
Circular RNA hsa_circ_101555 promotes hepatocellular carcinoma cell proliferation and migration by sponging miR-145-5p and regulating CDCA3 expression
Cited by: 14
Author(s): Xiaoguang Gu, Jianan Zhang, Yajuan Ran, Hena Pan, JinHong Jia, Ying Zhao, Xin Zhao, Wendi Li, Shasha Song, Xuezhong Yu
Software Mentions: 1
Published: over 3 years ago
10.1038/s41419-021-03601-2
Circ-HMGA2 (hsa_circ_0027446) promotes the metastasis and epithelial-mesenchymal transition of lung adenocarcinoma cells through the miR-1236-3p/ZEB1 axis
Cited by: 24
Author(s): Zhongjian Yu, Xiongjie Zhu, Ying Liu, Min Liang, Meijun Liu, Zhile Liu, Lijie Qin, Xiaogang Wu, Kunpeng Du, Lu Liu, Yong Wang, Yanfang Zheng
Software Mentions: 1
Published: over 3 years ago
10.7554/eLife.51620
An atypical DYRK kinase connects quorum-sensing with posttranscriptional gene regulation in Trypanosoma brucei
Cited by: 28
Author(s): Mathieu Cayla, Lindsay McDonald, Paula MacGregor, Keith R. Matthews
Software Mentions: 1
Published: over 4 years ago
10.1038/s41419-021-03511-3
Sunitinib treatment promotes metastasis of drug-resistant renal cell carcinoma via TFE3 signaling pathway
Cited by: 16
Author(s): Luchao Li, Shuo Zhao, Zhengfang Liu, Nianzhao Zhang, Shengyong Pang, Ji‐Kai Liu, Cheng Liu, Yi‐Ming Fan
Software Mentions: 1
Published: over 3 years ago
10.1038/s41419-020-2543-8
The circular RNA FAM169A functions as a competitive endogenous RNA and regulates intervertebral disc degeneration by targeting miR-583 and BTRC
Cited by: 26
Author(s): Wei Guo, Kun Mu, Bin Zhang, Chao Sun, Ling Zhao, Zhan‐Yin Dong, Qing Cui
Software Mentions: 1
Published: over 4 years ago
10.1038/s41419-020-02771-9
PRMT5 promotes cancer cell migration and invasion through the E2F pathway
Cited by: 17
Author(s): Wojciech Barczak, Jin Li, Simon M. Carr, Shonagh Munro, Samuel R. Ward, Alexander Kanapin, Anastasia Samsonova, Nicholas B. La Thangué
Software Mentions: 1
Published: over 4 years ago
10.1038/s41419-021-03565-3
CircRNA circ_0124554 blocked the ubiquitination of AKT promoting the skip lymphovascular invasion on hepatic metastasis in colorectal cancer
Cited by: 17
Author(s): Junwei Tang, Chuan Zhang, Yuesheng Huang, Lu Wang, Zhiwu Xu, Dongsheng Zhang, Yue Zhang, Wen Peng, Yifei Feng, Yueming Sun
Software Mentions: 1
Published: over 3 years ago
10.1038/s41419-019-2089-9
CircRNA-5692 inhibits the progression of hepatocellular carcinoma by sponging miR-328-5p to enhance DAB2IP expression
Cited by: 155
Author(s): Zhenguo Liu, Yang Yu, Zebing Huang, Yi Kong, Xingwang Hu, Wei Xiao, Jun Quan, Xue Fan
Software Mentions: 1
Published: almost 5 years ago
10.1038/cdd.2015.31
The tumor-modulatory effects of Caspase-2 and Pidd1 do not require the scaffold protein Raidd
Cited by: 19
Author(s): Lukas Peintner, Loretta Dorstyn, Sharad Kumar, Tatsiana Aneichyk, Andreas Villunger, Claudia Manzl
Software Mentions: 1
Published: over 9 years ago
10.1186/1471-2164-12-123
Comparative tissue transcriptomics reveal prompt inter-organ communication in response to local bacterial kidney infection
Cited by: 15
Author(s): Jorrit Boekel, Örjan Källskog, Monica Rydén-Aulin, Mikael Rhen, Agneta Richter‐Dahlfors
Software Mentions: 1
Published: almost 14 years ago
10.1038/cdd.2014.217
CD95 promotes metastatic spread via Sck in pancreatic ductal adenocarcinoma
Cited by: 43
Author(s): Marcin Teodorczyk, Susanne Kleber, Damian Wollny, Julian P. Sefrin, B. Aykut, Álvaro Mateos, Peter Herhaus, Ignacio Sancho‐Martinez, Oliver Hill, Christian Gieffers, Jaromir Sykora, Wilko Weichert, Christian Eisen, Andreas Trumpp, Martin R. Sprick, Frank Bergmann, Thilo Welsch, Ana Martin‐Villalba
Software Mentions: 1
Published: almost 10 years ago
10.1186/s12964-019-0463-y
Phosphorylation of NFATC1 at PIM1 target sites is essential for its ability to promote prostate cancer cell migration and invasion
Cited by: 17
Author(s): Sini K. Eerola, Niina M. Santio, Sanni Rinne, Petri Kouvonen, Garry L. Corthals, Mauro Scaravilli, Giovanni Scala, Angela Serra, Dario Greco, Pekka Ruusuvuori, Leena Latonen, Eeva-Marja Rainio, Tapio Visakorpi, Päivi J. Koskinen
Software Mentions: 1
Published: about 5 years ago
10.1186/s13578-021-00531-6
Neural stemness contributes to cell tumorigenicity
Cited by: 13
Author(s): Liyang Xu, Min Zhang, Lihua Shi, Xiaoli Yang, Lü Chen, Ning Cao, Anhua Lei, Ying Cao
Software Mentions: 1
Published: almost 4 years ago
10.1371/journal.pone.0087740
Tolerogenic Properties of Lymphatic Endothelial Cells Are Controlled by the Lymph Node Microenvironment
Cited by: 79
Author(s): Jarish N. Cohen, Eric F. Tewalt, Sherin J. Rouhani, Erica L. Buonomo, Amber N. Bruce, Xiaojiang Xu, Stefan Bekiranov, Yang–Xin Fu, Víctor H. Engelhard
Software Mentions: 1
Published: almost 11 years ago
10.1371/journal.pone.0198055
Construction and analysis of mRNA, miRNA, lncRNA, and TF regulatory networks reveal the key genes associated with prostate cancer
Cited by: 55
Author(s): Yun Ye, Su-Liang Li, Shengyu Wang
Software Mentions: 1
Published: over 6 years ago
10.1371/journal.pone.0029907
Genome-Wide Analyses of Nkx2-1 Binding to Transcriptional Target Genes Uncover Novel Regulatory Patterns Conserved in Lung Development and Tumors
Cited by: 42
Author(s): Jean-Bosco Tagne, Sumeet Gupta, Adam C. Gower, Steven S. Shen, Saaket Varma, Meenakshi Lakshminarayanan, Yuxia Cao, Avrum Spira, Thomas L. Volkert, María I. Ramirez
Software Mentions: 1
Published: almost 13 years ago
10.1371/journal.pone.0189639
Genome-wide microarray analysis leads to identification of genes in response to herbicide, metribuzin in wheat leaves
Cited by: 8
Author(s): Whitney Pilcher, Hana Zandkarimi, Kelly Arceneaux, Stephen A. Harrison, Niranjan Baisakh
Software Mentions: 1
Published: almost 7 years ago
10.3389/fonc.2020.571524
Identification of Key Gene Signatures Associated With Bone Metastasis in Castration-Resistant Prostate Cancer Using Co-Expression Analysis
Cited by: 5
Author(s): Zhongxiang Yu, Hanlin Zou, Huihao Wang, Qi Li, Dong Yu
Software Mentions: 1
Published: almost 4 years ago
10.1371/journal.pone.0239551
Transcriptomics predicts compound synergy in drug and natural product treated glioblastoma cells
Cited by: 14
Author(s): Lavinia Lorena Pruteanu, Liliya Kopanitsa, Dezső Módos, Edgars Kletnieks, Elena I. Samarova, Andreas Bender, Leonardo D. Gomez, David Bailey
Software Mentions: 1
Published: about 4 years ago
10.1186/1471-2164-13-447
Genetic module and miRNome trait analyses reflect the distinct biological features of endothelial progenitor cells from different anatomic locations
Cited by: 22
Author(s): Cheng-Chung Cheng, Hung-Hao Lo, Tse‐Shun Huang, Yi-Chieh Cheng, Shi-Ting Chang, Shing‐Jyh Chang, Hsei–Wei Wang
Software Mentions: 1
Published: about 12 years ago
10.1371/journal.pone.0111460
The TLR4 D299G and T399I SNPs Are Constitutively Active to Up-Regulate Expression of Trif-Dependent Genes
Cited by: 19
Author(s): Georgina L. Hold, Susan H. Berry, Karin A. Saunders, Janice E. Drew, Claus Mayer, Heather Brookes, Emad El-Omar, Clare E. Bryant
Software Mentions: 1
Published: about 10 years ago
10.3389/fonc.2020.01031
Identification of Aberrantly Methylated Differentially CpG Sites in Hepatocellular Carcinoma and Their Association With Patient Survival
Cited by: 2
Author(s): Renguo Guan, Weimin Guo, Wang Hong, Ye Lin, Xiongfeng Zou, Ning Shi, Dongyang Yang, Yu Zhou, Zhixiang Jian, Haosheng Jin, Weidong Lin, Min Yu
Software Mentions: 1
Published: over 4 years ago
10.3389/fonc.2020.585452
Mechanism and Molecular Network of RBM8A-Mediated Regulation of Oxaliplatin Resistance in Hepatocellular Carcinoma
Cited by: 9
Author(s): Rong Liang, Jinyan Zhang, Zhihui Liu, Ziyu Liu, Qian Li, Xi Luo, Yongqiang Li, Jiazhou Ye, Yan Lin
Software Mentions: 1
Published: almost 4 years ago
10.1371/journal.pone.0024717
MiR-886-3p Regulates Cell Proliferation and Migration, and Is Dysregulated in Familial Non-Medullary Thyroid Cancer
Cited by: 52
Author(s): Yin Xiong, Lisa Zhang, Alisha K. Holloway, Xiaolin Wu, Ling Su, Electron Kebebew
Software Mentions: 1
Published: about 13 years ago
10.1371/journal.pone.0243964
High-dose corticosteroid pulse therapy increases the survival rate in COVID-19 patients at risk of hyper-inflammatory response
Cited by: 37
Author(s): Miguel Ángel López Zúñiga, Aida Moreno‐Moral, Ana Ocaña-Granados, Francisco Andrés Padilla-Moreno, Alba María Castillo-Fernández, Dionisio Guillamón-Fernández, Carolina Ramírez-Sánchez, María Sánchez-Palop, Justo Martínez-Colmenero, María Amparo Pimentel-Villar, Sara Blázquez-Roselló, José Juan Moreno-Sánchez, María Ángeles López-Vílchez, Inmaculada Prior-Sánchez, Rosario Jódar-Moreno, Marı́a Ruz
Software Mentions: 1
Published: almost 4 years ago
10.1371/journal.pone.0056280
miR-21 Promotes Fibrogenic Epithelial-to-Mesenchymal Transition of Epicardial Mesothelial Cells Involving Programmed Cell Death 4 and Sprouty-1
Cited by: 78
Author(s): Hasse Brønnum, Ditte Caroline Andersen, Mikael Schneider, Maria Boysen Sandberg, Tilde V Eskildsen, Solveig Beck Nielsen, Raghu Kalluri, Søren Paludan Sheikh
Software Mentions: 1
Published: almost 12 years ago
10.1523/ENEURO.0040-17.2017
Histone Hypervariants H2A.Z.1 and H2A.Z.2 Play Independent and Context-Specific Roles in Neuronal Activity-Induced Transcription of<i>Arc/Arg3.1</i>and Other Immediate Early Genes
Cited by: 37
Author(s): Carissa J. Dunn, Pushpita Sarkar, Emma R. Bailey, Shannon Farris, Mei Zhao, James M. Ward, Serena M. Dudek, Ramendra N. Saha
Software Mentions: 1
Published: over 7 years ago
10.1371/journal.pone.0107055
Lung Fibroblasts from Patients with Idiopathic Pulmonary Fibrosis Exhibit Genome-Wide Differences in DNA Methylation Compared to Fibroblasts from Nonfibrotic Lung
Cited by: 68
Author(s): Steven K. Huang, Anne M. Scruggs, Richard C. McEachin, Eric S. White, Marc Peters‐Golden
Software Mentions: 1
Published: about 10 years ago
10.1371/journal.pone.0011561
Gene Network Disruptions and Neurogenesis Defects in the Adult Ts1Cje Mouse Model of Down Syndrome
Cited by: 45
Author(s): Chelsee Hewitt, King-Hwa Ling, Tobias D. Merson, Ken M. Simpson, Matthew E. Ritchie, Sarah L. King, Melanie April Pritchard, Gordon K. Smyth, Tim Thomas, Hamish S. Scott, Anne K. Voss
Software Mentions: 1
Published: over 14 years ago
10.1371/journal.pone.0089839
Association of Childhood Chronic Physical Aggression with a DNA Methylation Signature in Adult Human T Cells
Cited by: 74
Author(s): Nadine Provençal, Matthew Suderman, Claire Guillemin, Frank Vitaro, Sylvana M. Côté, Michael Hallett, Richard E. Tremblay, Moshe Szyf
Software Mentions: 1
Published: over 10 years ago
10.1371/journal.pone.0020408
ALTERED MERISTEM PROGRAM 1 Is involved in Development of Seed Dormancy in Arabidopsis
Cited by: 27
Author(s): J. Griffiths, José M. Barrero, Jennifer Taylor, Chris A. Helliwell, Frank Gubler
Software Mentions: 1
Published: over 13 years ago
10.1371/journal.pone.0173822
In silico search for modifier genes associated with pancreatic and liver disease in Cystic Fibrosis
Cited by: 14
Author(s): Pascal Trouvé, Emmanuelle Génin, Claude Férec
Software Mentions: 1
Published: over 7 years ago
10.1371/journal.pone.0174718
T cell subtypes and reciprocal inflammatory mediator expression differentiate P. falciparum memory recall responses in asymptomatic and symptomatic malaria patients in southeastern Haiti
Cited by: 6
Author(s): Jason Lehmann, Joseph J. Campo, Micheline Cicéron, C. P. Raccurt, Jacques Boncy, Valery E. Madsen Beau De Rochars, Anthony P. Cannella
Software Mentions: 1
Published: over 7 years ago
10.1371/journal.pone.0122290
Developmental Exposure to Estrogen Alters Differentiation and Epigenetic Programming in a Human Fetal Prostate Xenograft Model
Cited by: 17
Author(s): Camelia M. Saffarini, Elizabeth V. McDonnell-Clark, Ali Amin, Susan M. Huse, Kim Boekelheide
Software Mentions: 1
Published: over 9 years ago
10.1186/1471-2164-15-1114
Genes associated with thermosensitive genic male sterility in rice identified by comparative expression profiling
Cited by: 21
Author(s): Yufang Pan, Qiaofeng Li, Zhizheng Wang, Yang Wang, Rui Ma, Lili Zhu, Guangcun He, Rongzhi Chen
Software Mentions: 1
Published: almost 10 years ago
10.1371/journal.pone.0168669
Claudin-Low Breast Cancer; Clinical &amp; Pathological Characteristics
Cited by: 111
Author(s): Kay Dias, Anna Dvorkin‐Gheva, Robin Hallett, Ying Wu, John A. Hassell, Gregory R. Pond, Mark Levine, Timothy J. Whelan, Anita Bane
Software Mentions: 1
Published: almost 8 years ago
10.1371/journal.pone.0184399
PreImplantation Factor in endometriosis: A potential role in inducing immune privilege for ectopic endometrium
Cited by: 8
Author(s): Marco Sbracia, Brett McKinnon, F. Scarpellini, Daniela Marconi, Gabriele Rossi, Cedric Simmilion, Michael D. Mueller, Eytan R. Barnea, Martin Mueller
Software Mentions: 1
Published: about 7 years ago
10.1371/journal.pone.0108267
tBRD-1 Selectively Controls Gene Activity in the Drosophila Testis and Interacts with Two New Members of the Bromodomain and Extra-Terminal (BET) Family
Cited by: 14
Author(s): Ina Theofel, Marek Bartkuhn, Tim Hundertmark, Thomas Boettger, Stefanie Gärtner, Katja Leser, Stephan Awe, Michael Schipper, Renate Renkawitz‐Pohl, Christina Rathke
Software Mentions: 1
Published: about 10 years ago
10.1371/journal.pone.0078102
The Transcriptional Repressor TupA in Aspergillus niger Is Involved in Controlling Gene Expression Related to Cell Wall Biosynthesis, Development, and Nitrogen Source Availability
Cited by: 19
Author(s): Doreen Schachtschabel, Mark Arentshorst, Benjamin Nitsche, Sam Morris, Kristian Fog Nielsen, Cees A. M. J. J. van den Hondel, Frans M. Klis, Arthur F. J. Ram
Software Mentions: 1
Published: about 11 years ago
10.18632/aging.202553
Identification of a ten-long noncoding RNA signature for predicting the survival and immune status of patients with bladder urothelial carcinoma based on the GEO database: a superior machine learning model
Cited by: 2
Author(s): Xudong Mao, ShiHan Chen, Gong-hui Li
Software Mentions: 1
Published: almost 4 years ago
10.3389/fonc.2021.699847
Gimap5 Inhibits Lung Cancer Growth by Interacting With M6PR
Cited by: 4
Author(s): Pei Dai, Zhongxiang Tang, Pinglang Ruan, Ousman Bajinka, Dan Liu, Yurong Tan
Software Mentions: 1
Published: about 3 years ago
10.1186/1471-2164-7-252
Microarray analysis after RNA amplification can detect pronounced differences in gene expression using limma
Cited by: 451
Author(s): Ilhem Diboun, Lorenz Wernisch, Christine A. Orengo, M Koltzenburg
Software Mentions: 1
Published: about 18 years ago
10.1371/journal.pone.0112786
Whole Blood Transcriptional Profiling Reveals Deregulation of Oxidative and Antioxidative Defence Genes in Myelofibrosis and Related Neoplasms. Potential Implications of Downregulation of Nrf2 for Genomic Instability and Disease Progression
Cited by: 55
Author(s): Hans Carl Hasselbalch, Mads Thomassen, Caroline Hasselbalch Riley, Lasse Kjær, Thomas Stauffer Larsen, Morten Krogh Jensen, Ole Weis Bjerrum, Torben A. Kruse, Vibe Skov
Software Mentions: 1
Published: about 10 years ago
10.1371/journal.pone.0186855
Enhanced chromatin accessibility of the dosage compensated Drosophila male X-chromosome requires the CLAMP zinc finger protein
Cited by: 28
Author(s): Jennifer A. Urban, Guray Kuzu, Sarah K. Bowman, Benjamin S. Scruggs, Telmo Henriques, Robert E. Kingston, Karen Adelman, Michael Y. Tolstorukov, Erica Larschan
Software Mentions: 1
Published: about 7 years ago
10.1371/journal.pone.0078302
Multi-TGDR: A Regularization Method for Multi-Class Classification in Microarray Experiments
Cited by: 16
Author(s): Suyan Tian, Mayte Suárez‐Fariñas
Software Mentions: 1
Published: about 11 years ago
10.1371/journal.pone.0184976
Lactobacillus paracasei feeding improves immune control of influenza infection in mice
Cited by: 69
Author(s): Nouria Belkacem, Nicolas Serafini, Richard Wheeler, Muriel Derrien, Lilia Boucinha, Aurélie Couesnon, Nadine Cerf–Bensussan, Ivo Gomperts Boneca, James P. Di Santo, Muhamed-Kheir Taha, Raphaëlle Bourdet‐Sicard
Software Mentions: 1
Published: about 7 years ago
10.3389/fonc.2020.606928
Autophagy Gene Panel-Based Prognostic Model in Myelodysplastic Syndrome
Cited by: 2
Author(s): Ming-Jing Wang, Weiyi Liu, Xueying Wang, Yumeng Li, Haiyan Xiao, Richeng Quan, Gang Huang, Xiaomei Hu
Software Mentions: 1
Published: almost 4 years ago