bioconductor: limma | Projects | Ecosyste.ms: Papers

10.1038/s41598-021-95293-z

Early prognosis of respiratory virus shedding in humans
Cited by: 3
Author(s): Manuchehr Aminian, Tomojit Ghosh, Amy Peterson, Angela L. Rasmussen, Shannon Stiverson, Kartikay Sharma, Michael Kirby
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pgen.1006801

C. elegans DAF-16/FOXO interacts with TGF-ß/BMP signaling to induce germline tumor formation via mTORC1 activation
Cited by: 21
Author(s): Wenjing Qi, Yizhen Yan, Dietmar Pfeifer, Erika Donner von Gromoff, Yimin Wang, Wolfgang Maier, Ralf Baumeister
Software Mentions: 1
Published: over 9 years ago

10.1038/s41598-021-96855-x

Deep learning from HE slides predicts the clinical benefit from adjuvant chemotherapy in hormone receptor-positive breast cancer patients
Cited by: 5
Author(s): Soo Youn Cho, Jeong Hoon Lee, Jai Min Ryu, Jeong Eon Lee, Eun Yoon Cho, Chang Ho Ahn, Kyunghyun Paeng, Inwan Yoo, Chan‐Young Ock, Sang Yong Song
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pgen.1000223

Variations in Stress Sensitivity and Genomic Expression in Diverse S. cerevisiae Isolates
Cited by: 181
Author(s): Daniel J. Kvitek, Jessica L. Will, Audrey P. Gasch
Software Mentions: 1
Published: almost 18 years ago

10.1038/s41598-021-96875-7

A virus-free cellular model recapitulates several features of severe COVID-19
Cited by: 3
Author(s): G Lavorgna, Giulio Cavalli, Lorenzo Dagna, Silvia Gregori, Alessandro Larcher, Giovanni Landoni, Fabio Ciceri, Francesco Montorsi, Andrea Salonia
Software Mentions: 1
Published: about 5 years ago

10.18632/oncotarget.6978

CTNNA3is a tumor suppressor in hepatocellular carcinomas and is inhibited by miR-425
Cited by: 38
Author(s): Bing He, Ting Li, Lei Guan, Fange Liu, Xuemei Chen, Jing Zhao, Lin Song, Zhizhen Liu, Huqin Zhang
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pgen.1005216

Reprogramming LCLs to iPSCs Results in Recovery of Donor-Specific Gene Expression Signature
Cited by: 29
Author(s): Samantha M. Thomas, Courtney L Kagan, Bryan J. Pavlovic, Jonathan E. Burnett, Kristen Patterson, Jonathan K. Pritchard, Yoav Gilad
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pgen.1005486

A Large-Scale Functional Analysis of Putative Target Genes of Mating-Type Loci Provides Insight into the Regulation of Sexual Development of the Cereal Pathogen Fusarium graminearum
Cited by: 65
Author(s): Hee-Kyoung Kim, Seong-Mi Jo, Gi-Yong Kim, Da-Woon Kim, Yeon-Ki Kim, Sung-Hwan Yun
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pgen.1004203

Cleavage Factor I Links Transcription Termination to DNA Damage Response and Genome Integrity Maintenance in Saccharomyces cerevisiae
Cited by: 18
Author(s): Hélène Gaillard, Andrés Aguilera
Software Mentions: 1
Published: over 12 years ago

10.1038/s41598-021-97433-x

Quantitative global lipidomics analysis of patients with ovarian cancer versus benign adnexal mass
Cited by: 10
Author(s): Matthew F. Buas, Charles W. Drescher, Nicole Urban, Christopher I. Li, Lisa Bettcher, Nitai C. Hait, Kirsten B. Moysich, Kunle Odunsi, Daniel Raftery, Li Yan
Software Mentions: 1
Published: about 5 years ago

10.1038/s41598-021-97406-0

KCa channel blockers increase effectiveness of the EGF receptor TK inhibitor erlotinib in non-small cell lung cancer cells (A549)
Cited by: 14
Author(s): Felix Glaser, Petra Hundehege, Etmar Bulk, Luca Matteo Todesca, Sandra Schimmelpfennig, Elke Nass, Thomas Budde, Sven G. Meuth, Albrecht Schwab
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pgen.1005415

BMP Inhibition in Seminomas Initiates Acquisition of Pluripotency via NODAL Signaling Resulting in Reprogramming to an Embryonal Carcinoma
Cited by: 54
Author(s): Daniel Nettersheim, Sina Jostes, Rakesh Kumar Sharma, Simon Schneider, Andrea Hofmann, Humberto J. Ferreira, Per Hoffmann, Glen Kristiansen, Manel Esteller, Hubert Schorle
Software Mentions: 1
Published: about 11 years ago

10.18632/oncotarget.6985

Common and distinct features of mammary tumors driven by Pten-deletion or activating Pik3ca mutation
Cited by: 10
Author(s): Jeff C. Liu, Dong‐Yu Wang, Sean E. Egan, Eldad Zacksenhaus
Software Mentions: 1
Published: over 10 years ago

10.1038/s41598-021-98580-x

Altered microRNA and mRNA profiles during heart failure in the human sinoatrial node
Cited by: 8
Author(s): Ning Li, Esthela J. Artiga, Anuradha Kalyanasundaram, Brian J. Hansen, Amy Webb, Maciej Pietrzak, Brandon J. Biesiadecki, Bryan A. Whitson, Nahush A. Mokadam, Paul M.L. Janssen, John D. Hummel, Peter J. Mohler, Halina Dobrzynski, Vadim V. Fedorov
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pgen.1002515

Neurophysiological Defects and Neuronal Gene Deregulation in Drosophila mir-124 Mutants
Cited by: 45
Author(s): Kailiang Sun, Jakub Orzechowski Westholm, Kazuya Tsurudome, Joshua W. Hagen, Yubing Lu, Minoree Kohwi, Doron Betel, Fen‐Biao Gao, A. Pejmun Haghighi, Chris Q. Doe, Eric C. Lai
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pgen.1003081

dJun and Vri/dNFIL3 Are Major Regulators of Cardiac Aging in Drosophila
Cited by: 50
Author(s): Véronique Monnier, Magali Iché-Torres, Michaël Rera, Vincent Contremoulins, Céline Guichard, Nathalie Lalevée, Hervé Tricoire, Laurent Perrin
Software Mentions: 1
Published: almost 14 years ago

10.1186/1471-2407-10-599

Prioritizing genes associated with prostate cancer development
Cited by: 33
Author(s): Ivan P. Gorlov, Kanishka Sircar, Hongya Zhao, Sankar N. Maity, Nora M. Navone, Olga Y. Gorlova, Patricia Troncoso, Curtis A. Pettaway, Jin Young Byun, Christopher J. Logothetis
Software Mentions: 1
Published: almost 16 years ago

10.1155/2013/197406

A Local Genetic Algorithm for the Identification of Condition-Specific MicroRNA-Gene Modules
Cited by: 0
Author(s): Wenbo Mu, Damian Roqueiro, Yue Dai
Software Mentions: 1
Published: almost 14 years ago

10.1186/2044-5040-1-15

Deregulation of the ubiquitin-proteasome system is the predominant molecular pathology in OPMD animal models and patients
Cited by: 38
Author(s): Seyed Yahya Anvar, Peter A C ‘t Hoen, Andrea Venema, Barbara van der Sluijs, B.G.M. van Engelen, M.M.J. Snoeck, John Vissing, Capucine Trollet, George Dickson, Aymeric Chartier, Martine Simonelig, Gert‐Jan B. van Ommen, Silvère M. van der Maarel, Vered Raz
Software Mentions: 1
Published: over 15 years ago

10.1371/journal.pgen.1003630

Fine Time Course Expression Analysis Identifies Cascades of Activation and Repression and Maps a Putative Regulator of Mammalian Sex Determination
Cited by: 82
Author(s): Steven C. Munger, Anirudh Raju Natarajan, Loren L. Looger, Uwe Ohler, Blanche Capel
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pgen.1003967

A Novel Intergenic ETnII-β Insertion Mutation Causes Multiple Malformations in Polypodia Mice
Cited by: 6
Author(s): Jessica A. Lehoczky, Peedikayil E. Thomas, Kevin M. Patrie, Kailey M. Owens, Lisa M. Villarreal, Kenneth Galbraith, Joe Washburn, Craig Johnson, Bryant J. Gavino, Alexander D. Borowsky, Kathleen J. Millen, Paul Wakenight, William D. Law, Margaret L. Van Keuren, Galina B. Gavrilina, Elizabeth D. Hughes, Thomas L. Saunders, Lesil E Brihn, Joseph H. Nadeau, Jeffrey W. Innis
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pgen.0020159

Evidence for Diversity in Transcriptional Profiles of Single Hematopoietic Stem Cells
Cited by: 47
Author(s): Carlos A. Ramos, Teresa A Bowman, Nathan C. Boles, Akil Merchant, Yayun Zheng, Irma Parra, Suzanne A.W. Fuqua, Chad A. Shaw, Margaret A. Goodell
Software Mentions: 1
Published: about 20 years ago

10.1371/journal.pgen.1003945

Mouse BAZ1A (ACF1) Is Dispensable for Double-Strand Break Repair but Is Essential for Averting Improper Gene Expression during Spermatogenesis
Cited by: 30
Author(s): James A. Dowdle, Monika Mehta, Elizabeth M. Kass, Bao Q. Vuong, Akiko Inagaki, Dieter Egli, Maria Jasin, Scott Keeney
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pgen.1002749

Cohesin Proteins Promote Ribosomal RNA Production and Protein Translation in Yeast and Human Cells
Cited by: 81
Author(s): Tania Bose, Kenneth K. Lee, Shuai Lü, Baoshan Xu, Bethany Harris, Brian D. Slaughter, Jay R. Unruh, Alexander S. Garrett, William McDowell, Andrew Box, Hua Li, Allison Peak, Sreekumar Ramachandran, Chris Seidel, Jennifer L. Gerton
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pgen.1003427

Evolution after Introduction of a Novel Metabolic Pathway Consistently Leads to Restoration of Wild-Type Physiology
Cited by: 45
Author(s): Sean M. Carroll, Christopher J. Marx
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pgen.1000982

Arabidopsis thaliana Chromosome 4 Replicates in Two Phases That Correlate with Chromatin State
Cited by: 68
Author(s): Tae Jin Lee, Pete E. Pascuzzi, Sharon B. Settlage, Randall W. Shultz, Miloš Tanurdžić, Pablo D. Rabinowicz, Margit Menges, Ping Zheng, Dorrie Main, James A. H. Murray, Bryon Sosinski, George C. Allen, Robert A. Martienssen, Linda Hanley‐Bowdoin, Matthew Vaughn, William F. Thompson
Software Mentions: 1
Published: over 16 years ago

10.1371/journal.pgen.1001120

Genetic Deletion of the Desmosomal Component Desmoplakin Promotes Tumor Microinvasion in a Mouse Model of Pancreatic Neuroendocrine Carcinogenesis
Cited by: 50
Author(s): Matthew G. H. Chun, Douglas Hanahan
Software Mentions: 1
Published: about 16 years ago

10.1016/j.stemcr.2015.02.021

Emergence of a Stage-Dependent Human Liver Disease Signature with Directed Differentiation of Alpha-1 Antitrypsin-Deficient iPS Cells
Cited by: 75
Author(s): Andrew Wilson, Ying Lei, Marc Liesa, Charis Patricia Segeritz, Jason A. Mills, Steven S. Shen, Jyh‐Chang Jean, Geordie C. Lonza, Derek C. Liberti, Alex H. Lang, Jean Nazaire, Adam C. Gower, Franz Josef Müeller, Pankaj Mehta, Adriana Ordóñez, David A. Lomas, Ludovic Vallier, George J. Murphy, Gustavo Mostoslavsky, Avrum Spira, Orian S. Shirihai, María I. Ramirez, Paul Gadue, Darrell N. Kotton
Software Mentions: 1
Published: over 11 years ago

10.1016/j.stemcr.2018.09.015

Human Induced Pluripotent Stem Cell-Derived Astrocytes Are Differentially Activated by Multiple Sclerosis-Associated Cytokines
Cited by: 107
Author(s): Sylvain Perriot, Amandine Mathias, Guillaume Perriard, Mathieu Canales, Nils Jonkmans, Nicolas Mérienne, Cécile Meunier, Lina El Kassar, Anselme L. Perrier, David‐Axel Laplaud, Myriam Schluep, Nicole Déglon, Renaud Du Pasquier
Software Mentions: 1
Published: almost 8 years ago

10.1016/j.stemcr.2019.07.004

A Human Stem Cell Model of Fabry Disease Implicates LIMP-2 Accumulation in Cardiomyocyte Pathology
Cited by: 44
Author(s): Matthew J. Birket, Sophie Raibaud, Miriam Lettieri, Antony Adamson, Valérie Letang, Pauline Cervello, Nicolas Redon, Gwénaëlle Ret, Sandra Viale, Bing Wang, Bruno Biton, Jean‐Claude Guillemot, Vincent Mikol, John P. Leonard, Neil A. Hanley, Cécile Orsini, Jean-Michel Itier
Software Mentions: 1
Published: about 7 years ago

10.1016/j.stemcr.2019.12.012

Senescence-Associated Metabolomic Phenotype in Primary and iPSC-Derived Mesenchymal Stromal Cells
Cited by: 53
Author(s): Eduardo Fernández-Rebollo, Julia Franzen, Roman Goetzke, Jonathan Hollmann, Alina Ostrowska, Matteo Oliverio, Torsten Sieben, Björn Rath, Jan-Wilhelm Kornfeld, Wolfgang Wagner
Software Mentions: 1
Published: over 6 years ago

10.1186/scrt130

The gene expression profiles of induced pluripotent stem cells from individuals with childhood cerebral adrenoleukodystrophy are consistent with proposed mechanisms of pathogenesis
Cited by: 27
Author(s): Xiao Ming Wang, Wing Yan Yik, Peilin Zhang, Wange Lu, Patricia Dranchak, Darryl Shibata, Steven J. Steinberg, Joseph G. Hacia
Software Mentions: 1
Published: about 14 years ago

10.1186/s12859-015-0778-7

Comparing the normalization methods for the differential analysis of Illumina high-throughput RNA-Seq data
Cited by: 147
Author(s): Peipei Li, Yongjun Piao, Ho Sun Shon, Keun Ho Ryu
Software Mentions: 1
Published: almost 11 years ago

10.1186/s13287-017-0582-6

Term amniotic fluid: an unexploited reserve of mesenchymal stromal cells for reprogramming and potential cell therapy applications
Cited by: 36
Author(s): Roksana Moraghebi, Agnete Kirkeby, Patrícia Chaves, Roger Emanuel Rönn, Ewa Sitnicka, Malin Parmar, Marcus Larsson, Andreas Herbst, Niels Bjarne Woods
Software Mentions: 1
Published: about 9 years ago

10.1186/s13287-018-0848-7

Expression profiling of cell-intrinsic regulators in the process of differentiation of human iPSCs into retinal lineages
Cited by: 15
Author(s): Jen Hua Chuang, Aliaksandr A. Yarmishyn, De‐Kuang Hwang, Chih Chien Hsu, Mong‐Lien Wang, Yi Yang, Ke Hung Chien, Shih Hwa Chiou, Chi Hsien Peng, Shih‐Jen Chen
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pgen.1005232

Cell Cycle Control by the Master Regulator CtrA in Sinorhizobium meliloti
Cited by: 88
Author(s): Francesco Pini, Nicole J. De Nisco, Lorenzo Ferri, Jon Penterman, Antonella Fioravanti, Matteo Brilli, Alessio Mengoni, Marco Bazzicalupo, Patrick H. Viollier, Graham C. Walker, Emanuele G. Biondi
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pgen.1008600

The coordinate actions of calcineurin and Hog1 mediate the stress response through multiple nodes of the cell cycle network
Cited by: 10
Author(s): Cassandra M. Leech, Mackenzie J. Flynn, Heather E. Arsenault, Jianhong Ou, Haibo Li, Lihua Julie Zhu, Jennifer A. Benanti
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pgen.1005334

Epigenetic Aging Signatures Are Coherently Modified in Cancer
Cited by: 94
Author(s): Qiong Lin, Wolfgang Wagner
Software Mentions: 1
Published: over 11 years ago

10.18632/oncotarget.7398

Gamabufotalin triggers c-Myc degradation via induction of WWP2 in multiple myeloma cells
Cited by: 20
Author(s): Zhenlong Yu, Tao Li, Chao Wang, Sa Deng, Baojing Zhang, Xiaokui Huo, Bo Zhang, Xiaobo Wang, Yuanyuan Zhong, Xiaochi Ma
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pgen.1006752

The co-existence of transcriptional activator and transcriptional repressor MEF2 complexes influences tumor aggressiveness
Cited by: 38
Author(s): Eros Di Giorgio, Elisa Franforte, Sebastiano Cefalù, Sabrina Rossi, Angelo Paolo Dei Tos, Monica Brenca, Maurizio Polano, Roberta Maestro, Harikrishnareddy Paluvai, Raffaella Picco, Claudio Brancolini
Software Mentions: 1
Published: over 9 years ago

10.1186/1471-2407-14-353

Investigation of HOXA9 promoter methylation as a biomarker to distinguish oral cancer patients at low risk of neck metastasis
Cited by: 16
Author(s): Kenichiro Uchida, Ratna Veeramachaneni, Bing Huey, Aditi Bhattacharya, Brian L. Schmidt, Donna G. Albertson
Software Mentions: 1
Published: over 12 years ago

10.1186/s12859-019-2944-9

Prediction of regulatory targets of alternative isoforms of the epidermal growth factor receptor in a glioblastoma cell line
Cited by: 4
Author(s): Claus Weinholdt, Henri Wichmann, Johanna Kotrba, David H. Ardell, Matthias Kappler, Alexander W. Eckert, Dirk Vordermark, Ivo Große
Software Mentions: 1
Published: about 7 years ago

10.1186/s13287-020-1576-3

MicroRNA-495 confers inhibitory effects on cancer stem cells in oral squamous cell carcinoma through the HOXC6-mediated TGF-β signaling pathway
Cited by: 20
Author(s): Xiaolong You, Zhengyu Zhou, Wen Chen, Xiaoyong Wei, Heqiang Zhou, Wenzheng Luo
Software Mentions: 1
Published: over 6 years ago

10.1186/s13287-020-01754-z

Long noncoding RNA LINC00314 facilitates osteogenic differentiation of adipose-derived stem cells through the hsa-miR-129-5p/GRM5 axis via the Wnt signaling pathway
Cited by: 15
Author(s): Shi Z, Hua Zhang, Zhiyong Fan, Wei Ma, Yang Song, Ming Li, Tong-qiu Li, Shuxing Cao, Guo-jun Feng
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pgen.1000687

The Euchromatic and Heterochromatic Landscapes Are Shaped by Antagonizing Effects of Transcription on H2A.Z Deposition
Cited by: 119
Author(s): Sara Hardy, Pierre-Étienne Jacques, Nicolas Gévry, Audrey Forest, Marie-Ève Fortin, Liette Laflamme, Luc Gaudreau, François Robert
Software Mentions: 1
Published: about 17 years ago

10.1371/journal.pgen.1007072

A mutation in the viral sensor 2’-5’-oligoadenylate synthetase 2 causes failure of lactation
Cited by: 15
Author(s): Samantha Oakes, David Gallego‐Ortega, Prudence M. Stanford, Simon Junankar, Wendy W.Y. Au, Zoya Kikhtyak, Anita von Korff, C. Marcelo Sergio, Andrew M. K. Law, Lesley Castillo, Stephanie L. Allerdice, Alex Young, Catherine Piggin, Belinda Whittle, Edward M. Bertram, Matthew J. Naylor, Daniel Roden, Jesse Donovan, Alexei Korennykh, Christopher C. Goodnow, Moira K O'Bryan, Christopher J. Ormandy
Software Mentions: 1
Published: almost 9 years ago

10.1186/s12885-020-06743-2

INHBA is a prognostic predictor for patients with colon adenocarcinoma
Cited by: 40
Author(s): Xueying Li, Weiming Yu, Chao Liang, Yuan Xu, Miaozun Zhang, Xiaoyun Ding, Xianlei Cai
Software Mentions: 1
Published: over 6 years ago

10.1186/s13287-021-02160-9

Alpha-enolase (ENO1), identified as an antigen to monoclonal antibody 12C7, promotes the self-renewal and malignant phenotype of lung cancer stem cells by AMPK/mTOR pathway
Cited by: 7
Author(s): Shunbin Xiong, Kai-Yue Cao, Huiqi Liu, Yu Lan, Lixin Sun, Zhihua Yang, Chengai Wu, Yuliang Ran
Software Mentions: 1
Published: over 5 years ago

10.1186/s13287-021-02282-0

Exosomes derived from miR-26a-modified MSCs promote axonal regeneration via the PTEN/AKT/mTOR pathway following spinal cord injury
Cited by: 38
Author(s): Yuyong Chen, Zhenming Tian, Lei He, Can Liu, Nangxiang Wang, Limin Rong, Bin Liu
Software Mentions: 1
Published: over 5 years ago

10.1186/1471-2105-14-92

Inferring microRNA and transcription factor regulatory networks in heterogeneous data
Cited by: 36
Author(s): Thuc Duy Le, Lin Liu, Bing Liu, Anna Tsykin, Gregory J. Goodall, Kenji Satou, Jiuyong Li
Software Mentions: 1
Published: over 13 years ago

10.1002/stem.2093

Genome-Wide MicroRNA and Gene Analysis of Mesenchymal Stem Cell Chondrogenesis Identifies an Essential Role and Multiple Targets for miR-140-5p
Cited by: 69
Author(s): M.J. Barter, M. Tselepi, Rodolfo Gómez, Steven Paul Woods, Hui Wang, Graham R. Smith, Daryl P. Shanley, Ian M. Clark, David A. Young
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pcbi.1004199

Modelling Circulating Tumour Cells for Personalised Survival Prediction in Metastatic Breast Cancer
Cited by: 14
Author(s): Gianluca Ascolani, Annalisa Occhipinti, Píetro Lió
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pcbi.1002486

Microarray Analysis of LTR Retrotransposon Silencing Identifies Hdac1 as a Regulator of Retrotransposon Expression in Mouse Embryonic Stem Cells
Cited by: 57
Author(s): Judith Reichmann, James H Crichton, M Madej, Mary Taggart, Philippe Gautier, José L. García‐Pérez, Richard R. Meehan, Ian R. Adams
Software Mentions: 1
Published: over 14 years ago

10.18632/oncotarget.8623

Human mesenchymal stromal cell-secreted lactate induces M2-macrophage differentiation by metabolic reprogramming
Cited by: 110
Author(s): Silvia Selleri, Panojot Bifsha, Sara Civini, Consiglia Pacelli, Mame Massar Dieng, William Lemieux, Ping Jin, Renée Bazin, Natacha Patey, Francesco M. Marincola, Florina Moldovan, Charlotte Zaouter, Louis-Éric Trudeau, Basma Benabdhalla, Isabelle Louis, Christian Beauséjour, David F. Stroncek, Françoise Le Deist, Élie Haddad
Software Mentions: 1
Published: over 10 years ago

10.1155/2016/2626081

Genetic Background of Immune Complications after Allogeneic Hematopoietic Stem Cell Transplantation in Children
Cited by: 3
Author(s): Szymon Skoczeń, Mirosław Bik-Multanowski, Jacek J Pietrzyk, Agnieszka Grabowska, Kamil Fijorek, Wojciech Strojny, Kinga Klus-Kwiecińska, Walentyna Balwierz, Maciej Siedlar
Software Mentions: 1
Published: almost 11 years ago

10.18632/oncotarget.8458

MicroRNA-375/SEC23A as biomarkers of the in vitro efficacy of vandetanib
Cited by: 40
Author(s): Sandra Lassalle, Joséphine Zangari, Alexandra Popa, Marius Ilié, Véronique Hofman, Élodie Long, Martine Patey, Frédérique Tissier, Geneviève Belleannée, H Trouette, Bogdan Catargi, Isabelle Peyrottes, Jean–Louis Sadoul, Olivier Bordone, Christelle Bonnetaud, Catherine Butori, Alexandre Bozec, N. Guevara, J. Santini, Imène Sarah Hénaoui, G. Lemaire, Olivier Blanck, Philippe Vielh, Pascal Barbry, Bernard Mari, Patrick Brest, Paul Hofman
Software Mentions: 1
Published: over 10 years ago

10.1155/2019/1351860

Promoting Osteogenic Differentiation of Human Adipose-Derived Stem Cells by Altering the Expression of Exosomal miRNA
Cited by: 36
Author(s): Shude Yang, Shu Guo, S. Y. Tong, Xu Sun
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pcbi.1007197

Modeling cross-regulatory influences on monolignol transcripts and proteins under single and combinatorial gene knockdowns in Populus trichocarpa
Cited by: 9
Author(s): Megan L. Matthews, Jack Wang, Ronald R. Sederoff, Vincent L. Chiang, Cranos M. Williams
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1003572

Contribution of Network Connectivity in Determining the Relationship between Gene Expression and Metabolite Concentration Changes
Cited by: 62
Author(s): Aleksej Zelezniak, Steven D. Sheridan, Kiran Raosaheb Patil
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pcbi.1007771

Bayesian integrative analysis of epigenomic and transcriptomic data identifies Alzheimer's disease candidate genes and networks
Cited by: 8
Author(s): Hans-Ulrich Klein, Martin Schäfer, David A. Bennett, Holger Schwender, Philip L. De Jager
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1003851

A Novel Model to Combine Clinical and Pathway-Based Transcriptomic Information for the Prognosis Prediction of Breast Cancer
Cited by: 70
Author(s): Sijia Huang, Cameron Yee, Travers Ching, Herbert Yu, Lana X. Garmire
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pcbi.1002531

Viral Perturbations of Host Networks Reflect Disease Etiology
Cited by: 99
Author(s): Natali Gulbahce, Han Yan, Amélie Dricot, Megha Padi, Danielle Byrdsong, Rachel Franchi, Deok-Sun Lee, Orit Rozenblatt-Rosen, Jessica C. Mar, Michael A. Calderwood, Amy Baldwin, Bo Zhao, S. Balaji, Pascal Braun, Nicolas Simonis, Kyung-Won Huh, Karin Hellner, Miranda Grace, Alyce A. Chen, Renee Rubio, Jarrod A. Marto, Nicholas A. Christakis, Elliott Kieff, Frederick P. Roth, Jennifer Roecklein‐Canfield, James A. DeCaprio, Michael E. Cusick, John Quackenbush, David E. Hill, Karl Münger, Marc Vidal, Albert‐László Barabási
Software Mentions: 1
Published: over 14 years ago

10.3390/v10070375

Novel T7 Phage Display Library Detects Classifiers for Active Mycobacterium Tuberculosis Infection
Cited by: 9
Author(s): H. S. Talwar, Samer Najeeb Hanoudi, Sorin Drăghici, Lobelia Samavati
Software Mentions: 1
Published: about 8 years ago

10.7150/thno.43145

Renal tubular Bim mediates the tubule-podocyte crosstalk via NFAT2 to induce podocyte cytoskeletal dysfunction
Cited by: 9
Author(s): Chunmei Xu, Xiaojun Zhou, Tianyue Xie, Yuan Zhou, Qian Zhang, Shan Jiang, Rui Zhang, Lin Liao, Jianjun Dong
Software Mentions: 1
Published: almost 7 years ago

10.7150/thno.45003

Sirt6 deficiency aggravates angiotensin II-induced cholesterol accumulation and injury in podocytes
Cited by: 29
Author(s): Qian Yang, Jijia Hu, Yingjie Yang, Zhaowei Chen, Jun Feng, Zijing Zhu, Huiming Wang, Dingping Yang, Wei Liang, Guohua Ding
Software Mentions: 1
Published: almost 7 years ago

10.7150/thno.44877

A novel miR-1291-ERRα-CPT1C axis modulates tumor cell proliferation, metabolism and tumorigenesis
Cited by: 29
Author(s): Yixin Chen, Yanying Zhou, Fangwei Han, Ying-Yuan Zhao, Meijuan Tu, Yong Tao Wang, Can Huang, Shicheng Fan, Panpan Chen, Xinpeng Yao, Lihuan Guan, Ai Ming Yu, Frank J. Gonzalez, Min Huang, Huichang Bi
Software Mentions: 1
Published: almost 7 years ago

10.1080/21505594.2018.1526528

A possible role for fumagillin in cellular damage during host infection by Aspergillus fumigatus
Cited by: 31
Author(s): Xabier Guruceaga, Guillermo Ezpeleta-Lobato, Emilio Mayayo, Mónica Sueiro-Olivares, Ana Abad-Díaz-de-Cerio, José Manuel Aguirre Urízar, Hong G. Liu, Philipp Wiemann, Jin Woo Bok, Scott G. Filler, Nancy P. Keller, Fernando Hernando, Andoni Ramirez‐Garcia, Aitor Rementerı́a
Software Mentions: 1
Published: about 8 years ago

10.1186/s12985-021-01596-y

Identification and characterization of lncRNA AP000253 in occult hepatitis B virus infection
Cited by: 9
Author(s): Qingqin Hao, Zheng Wang, Qinghui Wang, Bo Chen, Huizhong Qian, Xiao Liu, Hong Cao, Wei Xia, Jian Jiang, Zhiyan Lu
Software Mentions: 1
Published: over 5 years ago

10.18632/oncotarget.9019

microRNA-802/Rnd3 pathway imposes on carcinogenesis and metastasis of fine particulate matter exposure
Cited by: 30
Author(s): Xiaobo Li, Yang Lv, Na Gao, Hao Sun, Runze Lu, Hongbao Yang, Chengcheng Zhang, Qingtao Meng, Shenshen Wu, Aiqun Li, Yankai Xia, Rui Chen
Software Mentions: 1
Published: over 10 years ago

10.7150/thno.47239

circPTCH1 promotes invasion and metastasis in renal cell carcinoma via regulating miR-485-5p/MMP14 axis
Cited by: 49
Author(s): Huan Liu, Guanghui Hu, Zaoyu Wang, Qunlong Liu, Jin Zhang, Yonghui Chen, Yiran Huang, Wei Xue, Yunfei Xu, Wei Zhai
Software Mentions: 1
Published: almost 7 years ago

10.7150/thno.48264

Circular RNA circPPM1F modulates M1 macrophage activation and pancreatic islet inflammation in type 1 diabetes mellitus
Cited by: 92
Author(s): Caiyan Zhang, Xiao Han, Lan Yang, Jinrong Fu, Chengjun Sun, Saihua Huang, Wenfeng Xiao, Yajing Gao, Qiuyan Liang, Xiang Wang, Feihong Luo, Wei Lü, Yufeng Zhou
Software Mentions: 1
Published: almost 7 years ago

10.1186/1743-422X-9-61

Systemic virus distribution and host responses in brain and intestine of chickens infected with low pathogenic or high pathogenic avian influenza virus
Cited by: 28
Author(s): J. Post, David W. Burt, J.B.W.J. Cornelissen, Venice Broks, Diana van Zoelen, Ben Peeters, Johanna M.J. Rebel
Software Mentions: 1
Published: over 14 years ago

10.1007/s00428-014-1602-x

Neuropeptide S receptor 1 (NPSR1) activates cancer-related pathways and is widely expressed in neuroendocrine tumors
Cited by: 17
Author(s): Ville Pulkkinen, Sini Ezer, L. Sundman, Jaana Hagström, Satu Maria Remes, Cilla Söderhäll, Dario Greco, Caj Haglund, Juha Kere, Johanna Arola
Software Mentions: 1
Published: over 12 years ago

10.7150/thno.48739

Hypermethylation of GNA14 and its tumor-suppressive role in hepatitis B virus-related hepatocellular carcinoma
Cited by: 16
Author(s): Guangyuan Song, Xiaomei Zhu, Zefeng Xuan, Long Zhao, Haijiang Dong, Jian Chen, Zequn Li, Wenfeng Song, Cheng Jin, Mingmei Zhou, Haiyang Xie, Shusen Zheng, Penghong Song
Software Mentions: 1
Published: almost 6 years ago

10.3390/vaccines9070799

Association of Transcriptomic Signatures of Inflammatory Response with Viral Control after Dendritic Cell-Based Therapeutic Vaccination in HIV-1 Infected Individuals
Cited by: 3
Author(s): Csaba Fehér, Roque Pastor-lbáñez, Lorna Leal, Montserrat Plana, Mireia Arnedo, Henk-Jan van den Ham, Arno C. Andeweg, Rob A. Gruters, Francisco Díez-Fuertes, José Alcamı́, Patrick Aloy, Felipe García
Software Mentions: 1
Published: about 5 years ago

10.7150/thno.45157

Genome-wide study of salivary miRNAs identifies miR-423-5p as promising diagnostic and prognostic biomarker in oral squamous cell carcinoma
Cited by: 31
Author(s): Chiara Romani, Elisa Salviato, Alberto Paderno, Laura Zanotti, Antonella Ravaggi, Alberto Deganello, Giulia Berretti, Tommaso Gualtieri, Sergio Marchini, Maurizio D’Incalci, Davide Mattavelli, Cesare Piazza, Paolo Bossi, Chiara Romualdi, Piero Nicolai, Eliana Bignotti
Software Mentions: 1
Published: almost 6 years ago

10.1038/s41385-019-0176-y

The IL-33/ST2 pathway shapes the regulatory T cell phenotype to promote intestinal cancer
Cited by: 101
Author(s): Eva Pastille, Marie-Hélène Wasmer, Alexandra Adamczyk, Vivian Vu, Lukas F. Mager, Nhi Ngo Thi Phuong, Vittoria Palmieri, Cédric Simillion, Wiebke Hansen, Stefan Kasper, Martin Schüler, Beat Muggli, Kathy D. McCoy, Jan Buer, Inti Zlobec, Astrid M. Westendorf, Philippe Krebs
Software Mentions: 1
Published: over 7 years ago

10.1016/j.omto.2021.03.016

MicroRNA-499 serves as a sensitizer for lung cancer cells to radiotherapy by inhibition of CK2α-mediated phosphorylation of p65
Cited by: 2
Author(s): Yu‐Shui Ma, Bowen Shi, Haimin Lu, Pengfei Xie, Rui Xin, Zhijun Wu, Yi Shi, Yuzhen Yin, Likun Hou, Chengyou Jia, Wei Wu, Zhongwei Lv, Fei Yu, Wang Gaoren, Ji‐Bin Liu, Gengxi Jiang
Software Mentions: 1
Published: over 5 years ago

10.1186/s12885-015-1827-3

Gene expression profiling analysis of CRTC1-MAML2 fusion oncogene-induced transcriptional program in human mucoepidermoid carcinoma cells
Cited by: 28
Author(s): Jie Chen, Jianliang Li, Zirong Chen, James D. Griffin, Lizi Wu
Software Mentions: 1
Published: almost 11 years ago

10.1016/j.omto.2020.03.021

Analysis of Lung Adenocarcinoma Subtypes Based on Immune Signatures Identifies Clinical Implications for Cancer Therapy
Cited by: 43
Author(s): Feng Xu, Jiexin Chen, Xianghong Yang, Xin-Bin Hong, Zixiong Li, Ling Lin, Yongsong Chen
Software Mentions: 1
Published: over 6 years ago

10.1016/j.omto.2020.12.010

The long non-coding RNA SNHG4/microRNA-let-7e/KDM3A/p21 pathway is involved in the development of non-small cell lung cancer
Cited by: 15
Author(s): Fan Wang, Qingqing Quan
Software Mentions: 1
Published: over 5 years ago

10.1016/j.omtn.2020.01.019

Discovering Cancer-Related miRNAs from miRNA-Target Interactions by Support Vector Machines
Cited by: 7
Author(s): Cong Pian, Shanjun Mao, Guangle Zhang, Jin Du, Fēi Li, Suet Yi Leung, Xiaodan Fan
Software Mentions: 1
Published: over 6 years ago

10.1136/thoraxjnl-2015-207236

Latrophilin receptors: novel bronchodilator targets in asthma
Cited by: 12
Author(s): Alen Faiz, Chantal Donovan, Maartje A.E. Nieuwenhuis, Maarten van den Berge, Dirkje S. Postma, Sean Yao, C Y Park, Robert Hirsch, J. J. Fredberg, Gavin Tjin, Andrew J. Halayko, Karen Limbert Rempel, Jeremy P. T. Ward, Tak H. Lee, Yohan Bossé, David C. Nickle, Ma’en Obeidat, Judith M. Vonk, Judith L. Black, Brian G. Oliver, Ramaswamy Krishnan, Brian J. McParland, Jane E. Bourke, Janette K. Burgess
Software Mentions: 1
Published: over 10 years ago

10.18632/oncotarget.9978

Role of microRNA-4516 involved autophagy associated with exposure to fine particulate matter
Cited by: 33
Author(s): Xiaobo Li, Yang Lv, Jihong Hao, Hao Sun, Na Gao, Chengcheng Zhang, Runze Lu, Shizhi Wang, Lihong Ye, Yuepu Pu, Rui Chen
Software Mentions: 1
Published: over 10 years ago

10.1016/j.toxrep.2019.09.010

Cross-species comparison of CAR-mediated procarcinogenic key events in a 3D liver microtissue model
Cited by: 6
Author(s): Simon Plummer, Bobby Beaumont, Stephanie Jean Wallace, Graeme Ball, Jayne Wright, Elizabeth McInnes, Richard A. Currie, Rich Peffer, David E. Cowie
Software Mentions: 1
Published: almost 8 years ago

10.1186/s12885-021-08212-w

SNX10 and PTGDS are associated with the progression and prognosis of cervical squamous cell carcinoma
Cited by: 8
Author(s): Pinping Jiang, Ying Cao, Feng Gao, Wei Sun, Jinhui Liu, Ziyan Ma, Minhao Xie, Shilong Fu
Software Mentions: 1
Published: over 5 years ago

10.3390/toxics8010012

Potential of Inactivated Bifidobacterium Strain in Attenuating Benzo(A)Pyrene Exposure-Induced Damage in Colon Epithelial Cells In Vitro
Cited by: 7
Author(s): Mengfan Xu, Lili Fu, Junwen Zhang, Tao Wang, Junfeng Fan, Baoqing Zhu, Piotr Dziugan, Bolin Zhang
Software Mentions: 1
Published: over 6 years ago

10.1186/1471-2407-9-321

Identification of Achaete-scute complex-like 1 (ASCL1) target genes and evaluation of DKK1 and TPH1 expression in pancreatic endocrine tumours
Cited by: 10
Author(s): Térèse Johansson, Gunnar Westin, Britt Skogseid
Software Mentions: 1
Published: about 17 years ago

10.3390/toxins10050199

Saccharomyces cerevisiae Boulardii Reduces the Deoxynivalenol-Induced Alteration of the Intestinal Transcriptome
Cited by: 18
Author(s): Imourana Alassane-Kpémbi, Philippe Pinton, Jean-François Hupé, Manon Neves, Yannick Lippi, Sylvie Combes, Mathieu Castex, Isabelle P. Oswald
Software Mentions: 1
Published: over 8 years ago

10.18632/oncotarget.10022

CCI-007, a novel small molecule with cytotoxic activity against infant leukemia with MLL rearrangements
Cited by: 10
Author(s): Klaartje Somers, Daria A. Chudakova, Shiloh Middlemiss, Victoria W. Wen, Molly Clifton, Alan Kwek, Bing Liu, Chelsea Mayoh, Angelika Bongers, Mawar Karsa, Sukey Pan, Sarah Cruikshank, Marissa J. Scandlyn, Wendi Hoang, Toshihiko Imamura, Ursula R. Kees, Andrei V. Gudkov, Olga B. Chernova, Michelle Haber, Murray D. Norris, Michelle J. Henderson
Software Mentions: 1
Published: over 10 years ago

10.3390/toxins12100645

Bacillus cereus Decreases NHE and CLO Exotoxin Synthesis to Maintain Appropriate Proteome Dynamics During Growth at Low Temperature
Cited by: 6
Author(s): Catherine Duport, Ludivine Rousset, Béatrice Alpha-Bazin, Jean Armengaud
Software Mentions: 1
Published: about 6 years ago

10.3390/toxins12100621

Indoxyl Sulfate-Mediated Metabolic Alteration of Transcriptome Signatures in Monocytes of Patients with End-Stage Renal Disease (ESRD)
Cited by: 2
Author(s): Hee Young Kim, Su Jeong Lee, Yuri Hwang, Ga Hye Lee, Chae Eun Yoon, Hyeon Chang Kim, Tae Hyun Yoo, Won Woo Lee
Software Mentions: 1
Published: about 6 years ago

10.18632/oncotarget.9903

SOX2 is essential for in vivo reprogramming of seminoma-like TCam-2 cells to an embryonal carcinoma-like fate
Cited by: 44
Author(s): Daniel Nettersheim, Alena Heimsoeth, Sina Jostes, Simon Schneider, Martin Fellermeyer, Andrea Hofmann, Hubert Schorle
Software Mentions: 1
Published: over 10 years ago

10.1186/s40035-020-00194-2

Paroxetine ameliorates prodromal emotional dysfunction and late-onset memory deficit in Alzheimer’s disease mice
Cited by: 11
Author(s): Penghui Ai, Si Chen, Xiandong Liu, Xiaona Zhu, Yuan‐Bo Pan, Donghan Feng, Shengdi Chen, Nan‐Jie Xu, Suya Sun
Software Mentions: 1
Published: over 6 years ago

10.18632/oncotarget.10489

The miR-644a/CTBP1/p53 axis suppresses drug resistance by simultaneous inhibition of cell survival and epithelial-mesenchymal transition in breast cancer
Cited by: 47
Author(s): Umar Raza, Özge Saatçi, Stefan Uhlmann, Suhail A. Ansari, Erol Eyüpoğlu, Emre Yurdusev, Merve Mutlu, Pelin G. Ersan, M. K. Altundag, Jitao David Zhang, Hayriye Tatlı Doğan, Gülnur Güler, Özgür Şahin
Software Mentions: 1
Published: over 10 years ago

10.18632/oncotarget.16646

Serotonergic system antagonists target breast tumor initiating cells and synergize with chemotherapy to shrink human breast tumor xenografts
Cited by: 33
Author(s): William D. Gwynne, Robin Hallett, Adele Girgis-Gabardo, Bojana Bojović, Anna Dvorkin‐Gheva, Craig Aarts, Kay Dias, Anita Bane, John A. Hassell
Software Mentions: 1
Published: over 9 years ago

10.18632/oncotarget.16521

Metallothionein 1M suppresses tumorigenesis in hepatocellular carcinoma
Cited by: 13
Author(s): Chenglin Fu, Bing Pan, Juhua Pan, Meifu Gan
Software Mentions: 1
Published: over 9 years ago

10.1016/j.omtn.2019.12.029

RETRACTED: The Potential Therapeutic Role of Exosomal MicroRNA-520b Derived from Normal Fibroblasts in Pancreatic Cancer
Cited by: 16
Author(s): Huijuan Shi, Hui Li, Tiantian Zhen, Yu Dong, Xiaojuan Pei, Xiangliang Zhang
Software Mentions: 1
Published: over 6 years ago

10.1038/tp.2016.131

MicroRNAs as biomarkers for major depression: a role for let-7b and let-7c
Cited by: 94
Author(s): Anand Gururajan, Marie Naughton, Karen A. Scott, Richard M. O’Connor, Gerard M. Moloney, Gerard Clarke, Joshua L. Dowling, Annabel Walsh, Muhammad Ismail, George Shorten, Lucinda V. Scott, Declan M. McLoughlin, John F. Cryan, Timothy G. Dinan
Software Mentions: 1
Published: about 10 years ago

10.1038/tp.2016.78

Differential expression of transcriptional regulatory units in the prefrontal cortex of patients with bipolar disorder: potential role of early growth response gene 3
Cited by: 27
Author(s): Bianca Pfaffenseller, Pedro Vieira da Silva Magalhães, Marco Antônio De Bastiani, Mauro A. A. Castro, Amelia L. Gallitano, Flávio Kapczinski, Fábio Klamt
Software Mentions: 1
Published: over 10 years ago

Projects: bioconductor: limma

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Papers Mentioning limma 7,776