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: cran: tmod
https://packages.ecosyste.ms/registries/cran.r-project.org/packages/tmod
Feature Set Enrichment Analysis for Metabolomics and
Transcriptomics
12 versions
Latest release: over 1 year ago
1 dependent package
385 downloads last month
Papers Mentioning tmod 18
10.3390/metabo9100200
The metaRbolomics Toolbox in Bioconductor and beyondCited by: 61
Author(s): Jan Stanstrup, Corey D. Broeckling, Rick Helmus, Nils Hoffmann, Ewy A. Mathé, Thomas Naake, Luca Nicolotti, Kristian Peters, Johannes Michael Rainer, Reza M. Salek, Tobias Schulze, Emma L. Schymanski, Michael A. Stravs, Etienne Thévenot, Hendrik Treutler, Ralf Weber, Egon Willighagen, Michael Witting, Steffen Neumann
Software Mentions: 92
Published: almost 5 years ago
10.1111/jcmm.16773
Peripheral blood transcriptome heterogeneity and prognostic potential in lung cancer revealed by RNA‐SeqCited by: 3
Author(s): Qi Zhang, Manchao Kuang, Haiyin An, Yajing Zhang, Kai Zhang, Feng Li, Lei Zhang, Shujun Cheng
Software Mentions: 11
Published: about 3 years ago
10.1186/s12859-020-03866-y
Increased biological relevance of transcriptome analyses in human skeletal muscle using a model-specific pipelineCited by: 7
Author(s): Yusuf Khan, Daniel Hammarström, Bent R. Rønnestad, Stian Ellefsen, Rafi Ahmad
Software Mentions: 10
Published: almost 4 years ago
10.3389/fimmu.2020.596173
The Peripheral Blood Transcriptome Is Correlated With PET Measures of Lung Inflammation During Successful Tuberculosis TreatmentCited by: 4
Author(s): Trust Odia, Stephanus T. Malherbe, Stuart Meier, Elizna Maasdorp, Léanie Kleynhans, Nelita du Plessis, André G. Loxton, Daniel E. Zak, Ethan Thompson, Fergal J. Duffy, Helena Kuivaniemi, Katharina Ronacher, Jill Winter, Gerhard Walzl, Gerard Tromp
Software Mentions: 8
Published: over 3 years ago
10.3389/fimmu.2021.694680
Gene Set Enrichment Analysis Reveals Individual Variability in Host Responses in Tuberculosis PatientsCited by: 5
Author(s): Teresa Domaszewska, Joanna Żyła, Raik Otto, Stefan H. E. Kaufmann, January Weiner
Software Mentions: 7
Published: about 3 years ago
10.1172/jci.insight.130090
Cytomegalovirus infection is a risk factor for tuberculosis disease in infantsCited by: 38
Author(s): Julius Müller, Rachel Tanner, Magali Matsumiya, Margaret Ann Snowden, Bernard Landry, Iman Satti, Stephanie A. Harris, Matthew K. O’Shea, Lisa Stockdale, Leanne Marsay, Agnieszka Chomka, Rachel Harrington-Kandt, Zita‐Rose Manjaly Thomas, Vivek Naranbhai, Elena Stylianou, Stanley Kimbung Mbandi, Mark Hatherill, Gregory Hussey, Hassan Mahomed, Michèle Tameris, J. Bruce McClain, Thomas G. Evans, Willem A. Hanekom, Thomas J. Scriba, Helen McShane, Helen A. Fletcher
Software Mentions: 6
Published: almost 5 years ago
10.1128/mBio.01193-19
Determination of an Interaction Network between an Extracellular Bacterial Pathogen and the Human HostCited by: 23
Author(s): Brad Griesenauer, Tuan M. Tran, Kate R. Fortney, Diane M. Janowicz, Paula A. Johnson, Hongyu Gao, Stephen Barnes, Landon Wilson, Yunlong Liu, Stanley M. Spinola
Software Mentions: 5
Published: about 5 years ago
10.3390/cells8080919
The Combination of IFN β and TNF Induces an Antiviral and Immunoregulatory Program via Non-Canonical Pathways Involving STAT2 and IRF9Cited by: 11
Author(s): Mélissa K. Mariani, Pouria Dasmeh, Audray Fortin, Élise Caron, Mario Kalamujic, Alexander N. Harrison, Diana Ioana Hotea, Dacquin M. Kasumba, Sandra Cervantes-Ortiz, Espérance Mukawera, Adrian W.R. Serohijos, Nathalie Grandvaux
Software Mentions: 5
Published: about 5 years ago
10.3389/fimmu.2020.584116
Rheumatoid Arthritis Synovial Fluid Neutrophils Drive Inflammation Through Production of Chemokines, Reactive Oxygen Species, and Neutrophil Extracellular TrapsCited by: 62
Author(s): Helen L. Wright, Max Lyon, Elinor A Chapman, Robert J. Moots, Steven W. Edwards
Software Mentions: 5
Published: over 3 years ago
10.1038/s41598-020-73942-z
Blood RNA signatures predict recent tuberculosis exposure in mice, macaques and humansCited by: 2
Author(s): Russell Ault, Colwyn A Headley, Alexander E. Hare, Bridget Carruthers, Asunción Mejías, Joanne Turner
Software Mentions: 4
Published: almost 4 years ago
10.3389/fnins.2018.00742
Transcriptomic Characterization of the Human Habenula Highlights Drug Metabolism and the Neuroimmune SystemCited by: 22
Author(s): Bernard Le Foll, Leon French
Software Mentions: 3
Published: almost 6 years ago
10.3389/fnana.2019.00094
Transcriptomic Characterization of the Human Insular Cortex and ClaustrumCited by: 8
Author(s): Christine Ibrahim, Bernard Le Foll, Leon French
Software Mentions: 3
Published: almost 5 years ago
10.1038/srep43478
The influence of haemoglobin and iron on in vitro mycobacterial growth inhibition assaysCited by: 29
Author(s): Rachel Tanner, Matthew K. O’Shea, Andrew Dickson White, Julius Müller, Rachel Harrington-Kandt, Magali Matsumiya, Mike Dennis, Eneida Abreu Parizotto, Stephanie A. Harris, Elena Stylianou, Vivek Naranbhai, Paulo Bettencourt, Hal Drakesmith, Sally Sharpe, Helen A. Fletcher, Helen McShane
Software Mentions: 3
Published: over 7 years ago
10.1038/s41598-019-47350-x
The Henna pigment Lawsone activates the Aryl Hydrocarbon Receptor and impacts skin homeostasisCited by: 17
Author(s): Laura Lozza, Pedro Moura-Alves, Teresa Domaszewska, Carolina Lage Crespo, Ioana Streață, Annika Kreuchwig, Andreas Puyskens, Marina Bechtle, Marion Klemm, Ulrike Zedler, Bogdan Silviu Ungureanu, Ute Guhlich-Bornhof, Anne-Britta Koehler, Manuela Stäber, Hans-Joachim Mollenkopf, Robert Hurwitz, Jens Furkert, Gerd Krause, January Weiner, António Jacinto, Mihai Ioana, Maria Leite‐de‐Moraes, Frank Siebenhaar, Marcus Maurer, Stefan H. E. Kaufmann
Software Mentions: 3
Published: about 5 years ago
10.1038/s41598-019-56994-8
Characterization of potential biomarkers of reactogenicity of licensed antiviral vaccines: randomized controlled clinical trials conducted by the BIOVACSAFE consortiumCited by: 19
Author(s): January Weiner, David Lewis, Jeroen Maertzdorf, Hans-Joachim Mollenkopf, Caroline L. Bodinham, Kat Pizzoferro, Catherine Linley, Aldona Greenwood, Alberto Mantovani, Barbara Bottazzi, Philippe Denoël, Geert Leroux‐Roels, Kent E. Kester, Ingileif Jónsdóttir, Robert A. van den Berg, Stefan H. E. Kaufmann, Giuseppe Del Giudice
Software Mentions: 3
Published: over 4 years ago
10.1128/CVI.00439-16
Safety and Immunogenicity of the Recombinant Mycobacterium bovis BCG Vaccine VPM1002 in HIV-Unexposed Newborn Infants in South AfricaCited by: 106
Author(s): André G. Loxton, Julia K. Knaul, Leander Grode, Andrea Gutschmidt, Christiane Meller, B. Eisele, Hilary Johnstone, Gian D. van der Spuy, Jeroen Maertzdorf, Stefan H. E. Kaufmann, Anneke C. Hesseling, Gerhard Walzl, Mark F. Cotton
Software Mentions: 2
Published: over 7 years ago
10.1371/journal.pgen.1004166
DAAM Is Required for Thin Filament Formation and Sarcomerogenesis during Muscle Development in DrosophilaCited by: 35
Author(s): Imre Molnár, Ede Migh, Szilárd Szikora, Tibor Kalmár, Attila Gergely Végh, F. Deák, Szilvia Barkó, Beáta Bugyi, Zacharias Orfanos, János Kovács, Gábor Juhász, György Váró, Miklós Nyitrai, John C. Sparrow, József Mihály
Software Mentions: 2
Published: over 10 years ago
10.3389/fimmu.2017.01563
Molecular Signatures of Immunity and Immunogenicity in Infection and VaccinationCited by: 16
Author(s): Mariëlle C. Haks, Barbara Bottazzi, Valentina Cecchinato, Corinne De Gregorio, Giuseppe Del Giudice, Stefan H. E. Kaufmann, Antonio Lanzavecchia, David Lewis, Jeroen Maertzdorf, Alberto Mantovani, Federica Sallusto, Marina Sironi, Mariagrazia Uguccioni, Tom H. M. Ottenhoff
Software Mentions: 2
Published: almost 7 years ago