bioconductor: EGSEA | Projects | Ecosyste.ms: Papers

10.12688/f1000research.17824.2

Enhancing gene set enrichment using networks
Cited by: 2
Author(s): Michael Prummer
Software Mentions: 51
Published: over 5 years ago

10.15252/msb.20199247

<i> <scp>STAT</scp> 3 </i> ‐dependent analysis reveals <i> <scp>PDK</scp> 4 </i> as independent predictor of recurrence in prostate cancer
Cited by: 34
Author(s): Monika Oberhuber, Matteo Pecoraro, Mate Rusz, Georg Oberhuber, Maritta Wieselberg, Peter Haslinger, Elisabeth Gurnhofer, Michaela Schlederer, Tanja Limberger, Sabine Lagger, Jan Pěnčík, Petra Kodajova, Sandra Högler, Georg Stockmaier, Sandra Grund-Gröschke, Fritz Aberger, Marco Bolis, Jean-Philippe Theurillat, Robert Wiebringhaus, Theresa R. Weiss, Andrea Haitel, Marc Brehme, Wolfgang Wadsak, Johannes Griss, Thomas Mohr, Alexandra Hofer, Anton Jäger, Jürgen Pollheimer, Gerda Egger, Gunda Koellensperger, Matthias Mann, Brigitte Hantusch, Lukas Kenner
Software Mentions: 21
Published: over 4 years ago

10.12688/f1000research.12544.1

Easy and efficient ensemble gene set testing with EGSEA
Cited by: 45
Author(s): Monther Alhamdoosh, Charity W. Law, Tian Li, Julie Sheridan, Milica Ng, Matthew E. Ritchie
Software Mentions: 12
Published: about 7 years ago

10.1038/s41598-019-39019-2

Prediction of response to anti-cancer drugs becomes robust via network integration of molecular data
Cited by: 10
Author(s): Marcela Franco, Ashwini Jeggari, Sylvain Peuget, Franziska Böttger, Galina Selivanova, Andrey Alexeyenko
Software Mentions: 9
Published: almost 6 years ago

10.3390/e23080945

Statistical Approach of Gene Set Analysis with Quantitative Trait Loci for Crop Gene Expression Studies
Cited by: 1
Author(s): Das S, N. Shesh
Software Mentions: 8
Published: over 3 years ago

10.1186/s12935-020-01661-6

Intestinal region-specific Wnt signalling profiles reveal interrelation between cell identity and oncogenic pathway activity in cancer development
Cited by: 6
Author(s): R. Adam, Sanne M. van Neerven, Cayetano Pleguezuelos-Manzano, Salvatore Simmini, Nicolas Léveillé, Nina E. de Groot, Andrew N Holding, Florian Markowetz, Louis Vermeulen
Software Mentions: 8
Published: almost 4 years ago

10.3389/fncel.2020.612560

Proteomic Characterization of Human Neural Stem Cells and Their Secretome During in vitro Differentiation
Cited by: 19
Author(s): Jakub Červenka, Jiřina Tylečková, Helena Kupcová Skalníková, Kateřina Vodičková Kepková, Ievgeniia Poliakh, Ivona Valeková, Lucie Pfeiferová, Michal Kolář, Michaela Vaškovičová, Tereza Pánková, Petr Vodička
Software Mentions: 7
Published: almost 4 years ago

10.3390/genes11101165

OneStopRNAseq: A Web Application for Comprehensive and Efficient Analyses of RNA-Seq Data
Cited by: 21
Author(s): Rui Li, Kai Hu, Haibo Liu, Michael R. Green, Lihua Julie Zhu
Software Mentions: 7
Published: about 4 years ago

10.1002/jev2.12127

Inflammasome‐induced extracellular vesicles harbour distinct RNA signatures and alter bystander macrophage responses
Cited by: 26
Author(s): Christina F. Budden, Linden J. Gearing, Romina Kaiser, Lena Standke, Paul J. Hertzog, Eicke Latz
Software Mentions: 7
Published: over 3 years ago

10.1002/eji.201948432

CD73 contributes to anti‐inflammatory properties of afferent lymphatic endothelial cells in humans and mice
Cited by: 10
Author(s): Dominik Eichin, Alberto Pessia, Akiko Takeda, Joni Laakkonen, Lydia Bellmann, Matti Kankainen, Beat A. Imhof, Patrizia Stoitzner, Jing Tang, Marko Salmi, Sirpa Jalkanen
Software Mentions: 5
Published: about 4 years ago

10.1002/cti2.1093

Machine learning applied to whole‐blood RNA‐sequencing data uncovers distinct subsets of patients with systemic lupus erythematosus
Cited by: 39
Author(s): William A. Figgett, Katherine Monaghan, Milica Ng, Monther Alhamdoosh, Eugene Maraskovsky, Nicholas J. Wilson, Alberta Hoi, Eric F Morand, Fabienne Mackay
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pbio.3000382

LATS1/2 suppress NFκB and aberrant EMT initiation to permit pancreatic progenitor differentiation
Cited by: 19
Author(s): Caitlin M. Braitsch, D. Berfin Azizoglu, Yadanar Htike, Haley R. Barlow, Ulrike Schnell, Christopher Chaney, Thomas J. Carroll, Ben Z. Stanger, Ondine Cleaver
Software Mentions: 4
Published: over 5 years ago

10.3390/cancers13174483

Prognostic and Therapeutic Potential of the OIP5 Network in Papillary Renal Cell Carcinoma
Cited by: 6
Author(s): Mathilda Jing Chow, Yan Gu, Lizhi He, Xiaozeng Lin, Ying Dong, Wenjuan Mei, Anil Kapoor, Damu Tang
Software Mentions: 4
Published: about 3 years ago

10.1186/s13023-021-01904-3

Gene expression analysis in EBV-infected ataxia-telangiectasia cell lines by RNA-sequencing reveals protein synthesis defect and immune abnormalities
Cited by: 1
Author(s): Moussab Tatfi, Émeline Perthame, Kenzo-Hugo Hillion, Marie‐Agnès Dillies, Hervé Ménager, Olivier Hermine, Felipe Suárez
Software Mentions: 3
Published: over 3 years ago

10.1371/journal.pone.0231771

Phytoplankton transcriptomic and physiological responses to fixed nitrogen in the California current system
Cited by: 3
Author(s): Irina N. Shilova, Jonathan D. Magasin, Matthew M. Mills, Julie Robidart, Kendra A. Turk‐Kubo, Jonathan P. Zehr
Software Mentions: 3
Published: over 4 years ago

10.15252/emmm.201707565

The cardiac microenvironment uses non‐canonical <scp>WNT</scp> signaling to activate monocytes after myocardial infarction
Cited by: 48
Author(s): Ingmar Sören Meyer, Andreas Jungmann, Christoph Dieterich, Min Zhang, Felix Lasitschka, Susann Werkmeister, Jan Haas, Oliver Müller, Michael Boutros, Matthias Nahrendorf, Hugo A. Katus, Stefan E. Hardt, Florian Leuschner
Software Mentions: 3
Published: over 7 years ago

10.1038/s41598-017-18132-0

IFNγ induces PD-L1 overexpression by JAK2/STAT1/IRF-1 signaling in EBV-positive gastric carcinoma
Cited by: 85
Author(s): Ji Wook Moon, Su Kang Kong, Byung Soo Kim, Hyun Ji Kim, Hyangsoon Lim, Kyeonga Noh, Younghye Kim, Jung Woo Choi, Ju Han Lee, Young Sik Kim
Software Mentions: 3
Published: almost 7 years ago

10.3390/ijms21197101

Transcriptomic Profiling for the Autophagy Pathway in Colorectal Cancer
Cited by: 3
Author(s): Justyna Gil, Paweł Karpiński, Maria M. Sąsiadek
Software Mentions: 3
Published: about 4 years ago

10.1186/s12864-019-5426-6

Sexual dimorphism in brain transcriptomes of Amami spiny rats (Tokudaia osimensis): a rodent species where males lack the Y chromosome
Cited by: 4
Author(s): Madison T. Ortega, Nathan J. Bivens, Takamichi Jogahara, Asato Kuroiwa, Scott A. Givan, Cheryl S. Rosenfeld
Software Mentions: 3
Published: almost 6 years ago

10.1136/jitc-2020-001912

Peptide: MHC-based DNA vaccination strategy to activate natural killer cells by targeting killer cell immunoglobulin-like receptors
Cited by: 8
Author(s): Pauline Rettman, Matthew D. Blunt, Rebecca Fulton, Andrés F. Vallejo, Leidy Bastidas-Legarda, Laura España‐Serrano, Marta E. Polak, Aymen Al‐Shamkhani, Christelle Retière, Salim I. Khakoo
Software Mentions: 2
Published: over 3 years ago

10.3389/fonc.2020.00448

CRISPR/Cas9-Mediated Foxp1 Silencing Restores Immune Surveillance in an Immunocompetent A20 Lymphoma Model
Cited by: 10
Author(s): Suet Ling Felce, Amanda P. Anderson, Shaun Maguire, Duncan M. Gascoyne, Richard N. Armstrong, Kah Keng Wong, Demin Li, Alison H. Banham
Software Mentions: 2
Published: over 4 years ago

10.1038/s12276-019-0226-2

Systems biology approaches to investigating the roles of extracellular vesicles in human diseases
Cited by: 38
Author(s): András Gézsi, Árpád Ferenc Kovács, Tamás Visnovitz, Edit I. Buzás
Software Mentions: 2
Published: over 5 years ago

Ecosyste.ms: Papers

Projects: bioconductor: EGSEA

Papers Mentioning EGSEA 22