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: uwot
https://packages.ecosyste.ms/registries/cran.r-project.org/packages/uwot
The Uniform Manifold Approximation and Projection (UMAP) Method
for Dimensionality Reduction
12 versions
Latest release: about 1 year ago
30 dependent packages
30,983 downloads last month
Papers Mentioning uwot 17
10.3390/cancers12040948
Reconstruction of Ewing Sarcoma Developmental Context from Mass-Scale Transcriptomics Reveals Characteristics of EWSR1-FLI1 PermissibilityCited by: 23
Author(s): Henry E. Miller, Aparna Gorthi, Nicklas Bassani, Liesl A. Lawrence, Brian S. Iskra, Alexander J.R. Bishop
Software Mentions: 19
Published: over 4 years ago
10.1186/s13059-020-02116-x
Integrative analyses of single-cell transcriptome and regulome using MAESTROCited by: 107
Author(s): Chenfei Wang, Dongqing Sun, Xin Huang, Changxin Wan, Ziyi Li, Ya Han, Qian Qin, Jingyu Fan, Xintao Qiu, Yingtian Xie, Clifford A. Meyer, Myles Brown, Ming Tang, Henry W. Long, Tao Liu, X. Shirley Liu
Software Mentions: 15
Published: about 4 years ago
10.3389/fimmu.2020.01659
Conventional and Computational Flow Cytometry Analyses Reveal Sustained Human Intrathymic T Cell Development From Birth Until PubertyCited by: 2
Author(s): Marieke Lavaert, Brecht Valcke, Bart Vandekerckhove, Georges Leclercq, Kai Ling Liang, Tom Taghon
Software Mentions: 12
Published: about 4 years ago
10.1186/s40425-019-0764-0
34th Annual Meeting & Pre-Conference Programs of the Society for Immunotherapy of Cancer (SITC 2019): part 2Cited by: 28
Author(s):
Software Mentions: 12
Published: almost 5 years ago
10.1172/jci.insight.138729
CD28 costimulation drives tumor-infiltrating T cell glycolysis to promote inflammationCited by: 45
Author(s): Kathryn E. Beckermann, Rachel Hongo, Xiang Ye, Kirsten Young, Katie Carbonell, Diana C Contreras Healey, Peter J. Siska, Sierra Barone, Caroline E. Roe, Christof C. Smith, Benjamin G. Vincent, Frank M. Mason, Jonathan M. Irish, W. Kimryn Rathmell, Jeffrey C. Rathmell
Software Mentions: 9
Published: about 4 years ago
10.1038/s42003-021-01948-y
High biodiversity in a benzene-degrading nitrate-reducing culture is sustained by a few primary consumersCited by: 9
Author(s): Chrats Melkonian, Lucas Fillinger, Siavash Atashgahi, Ulisses Nunes da Rocha, Eric Kuiper, Brett G. Olivier, Martin Braster, Willi Gottstein, Rick Helmus, John R. Parsons, Hauke Smidt, Marcelle van der Waals, Jan Gerritse, Bernd W. Brandt, Wilfred F. M. Röling, Douwe Molenaar, Rob J.M. van Spanning
Software Mentions: 9
Published: over 3 years ago
10.3389/fgene.2019.00853
SeqDeχ: A Sequence Deconvolution Tool for Genome Separation of Endosymbionts From Mixed Sequencing SamplesCited by: 0
Author(s): Alice Chiodi, Francesco Comandatore, Davide Sassera, Giulio Petroni, Claudio Bandi, Matteo Brilli
Software Mentions: 8
Published: almost 5 years ago
10.1101/2020.11.25.20235150
T cell and antibody functional correlates of severe COVID-19Cited by: 8
Author(s): Krystle K. Q. Yu, Stephanie Fischinger, Malisa T. Smith, Caroline Atyeo, Deniz Cizmeci, Caitlin R Wolf, Erik D. Layton, Jennifer Logue, Melissa S. Aguilar, Kiel Shuey, Carolin Loos, Jingyou Yu, Nicholas Franko, Robert Y. Choi, Anna Wald, Dan H. Barouch, David M. Koelle, Douglas A. Lauffenburger, Helen Y. Chu, Galit Alter, Chetan Seshadri
Software Mentions: 8
Published: almost 4 years ago
10.1101/2021.07.06.21259528
Pre-vaccination and early B cell signatures predict antibody response to SARS-CoV-2 mRNA vaccineCited by: 2
Author(s): Lela Kardava, Nicholas Rachmaninoff, Lau Ww, Buckner Cm, Krittin Trihemasava, de Assis Fl, W Wang, X Zhang, Y Wang, Cheng Feng Chiang, Sandeep Narpala, Robert Reger, McCormack Ge, Seamon Ca, Childs Rw, A. F. Suffredini, Strich, Chertow Ds, Davey Rt, Sneller Mc, Sarah O’Connell, Li Y, Adrian B. McDermott, Tae‐Wook Chun, Fauci As, Tsang Js, Susan Moir
Software Mentions: 6
Published: about 3 years ago
10.1172/jci.insight.149185
Th1 polarization defines the synovial fluid T cell compartment in oligoarticular juvenile idiopathic arthritisCited by: 16
Author(s): Amélie M. Julé, Kacie J. Hoyt, Kevin Wei, María Gutiérrez‐Arcelus, Maria Taylor, Julie Ng, James A. Lederer, Siobhan Case, Margaret H. Chang, Ezra Cohen, Fatma Dedeoğlu, Melissa Hazen, Jonathan S Hausmann, Olha Halyabar, Erin Janssen, Jeffrey Lo, Mindy S. Lo, Esra Meidan, Jay Roberts, Mary Beth Son, Robert P. Sundel, Pui Y. Lee, Talal Chatila, Peter A. Nigrović, Lauren A. Henderson
Software Mentions: 6
Published: almost 3 years ago
10.1016/j.xcrm.2020.100039
Human Tumor-Infiltrating MAIT Cells Display Hallmarks of Bacterial Antigen Recognition in Colorectal CancerCited by: 27
Author(s): Shamin Li, Yannick Simoni, Étienne Becht, Chiew Yee Loh, Naisi Li, Daniel M. Lachance, Si-Lin Koo, Teck Por Lim, Emile Tan, Ronnie Mathew, Andrew Nguyen, Justin Golovato, Julia D. Berkson, Martin Prlic, Bernett Lee, Samuel S. Minot, Niranjan Nagarajan, Neelendu Dey, Daniel S.W. Tan, Iain Bee Huat Tan, Evan W. Newell
Software Mentions: 5
Published: over 4 years ago
10.3390/ijms21175990
Peripheral Cytokine Levels Differ by HPV Status and Change Treatment-Dependently in Patients with Head and Neck Squamous Cell CarcinomaCited by: 14
Author(s): D Mytilineos, Jasmin Ezić, Adrian von Witzleben, Joannis Mytilineos, Ramin Lotfi, Daniel E. Fürst, Chrysanthi Tsamadou, Marie‐Nicole Theodoraki, Angelika Oster, Gunnar Völkel, Hans A. Kestler, Cornelia Brunner, Patrick J. Schuler, Johannes Doescher, Thomas Hoffmann, Simon Laban
Software Mentions: 4
Published: about 4 years ago
10.1016/j.immuni.2020.06.013
An Integrated Multi-omic Single-Cell Atlas of Human B Cell IdentityCited by: 129
Author(s): David R. Glass, Albert Tsai, John Paul Oliveria, Felix J. Hartmann, Samuel C. Kimmey, Ariel A. Calderon, Luciene Borges, Marla C. Glass, Lisa E. Wagar, Mark M. Davis, Sean C. Bendall
Software Mentions: 4
Published: about 4 years ago
10.7554/eLife.64653
Unsupervised machine learning reveals key immune cell subsets in COVID-19, rhinovirus infection, and cancer therapyCited by: 13
Author(s): Sierra Barone, Alberta Paul, Lyndsey M. Muehling, Joanne Lannigan, William W. Kwok, Ronald B. Turner, Judith A. Woodfolk, Jonathan M. Irish
Software Mentions: 4
Published: about 3 years ago
10.1016/j.cell.2020.05.024
Population Structure, Stratification, and Introgression of Human Structural VariationCited by: 56
Author(s): Mohamed A. Almarri, Anders Bergström, Javier Prado-Martinez, Fengtang Yang, Beiyuan Fu, Alistair S. Dunham, Yuan Chen, Matthew E. Hurles, Chris Tyler‐Smith, Yali Xue
Software Mentions: 2
Published: about 4 years ago
10.1186/s12915-020-0754-1
Evolution of metabolic capabilities and molecular features of diplonemids, kinetoplastids, and euglenidsCited by: 40
Author(s): Anzhelika Butenko, Frederik Opperdoes, Olga Flegontova, Aleš Horák, Vladimı́r Hampl, Patrick J. Keeling, Ryan M.R. Gawryluk, Denis V. Tikhonenkov, Pavel Flegontov, Julius Lukeš
Software Mentions: 2
Published: over 4 years ago
10.1002/cti2.1346
LIR‐1 educates expanded human NK cells and defines a unique antitumor NK cell subset with potent antibody‐dependent cellular cytotoxicityCited by: 6
Author(s): Caroline Leijonhufvud, Robert Reger, Filip Segerberg, Jakob Theorell, Heinrich Schlums, Yenan T. Bryceson, Richard W. Childs, Mattias Carlsten
Software Mentions: 1
Published: over 3 years ago