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: scran
https://packages.ecosyste.ms/registries/bioconductor.org/packages/scran
Methods for Single-Cell RNA-Seq Data Analysis
2 versions
Latest release: 12 months ago
52 dependent packages
329,762 downloads total
Papers Mentioning scran 113
10.7554/eLife.58515
Functional specification of CCK+ interneurons by alternative isoforms of Kv4.3 auxiliary subunitsCited by: 9
Author(s): Viktor János Oláh, David Lukacsovich, Jochen Winterer, Antónia Arszovszki, Andrea Lőrincz, Zoltán Nusser, Csaba Földy, János Szabadics
Software Mentions: 3
Published: over 4 years ago
10.1186/s13578-021-00541-4
Time-course single-cell RNA sequencing reveals transcriptional dynamics and heterogeneity of limbal stem cells derived from human pluripotent stem cellsCited by: 5
Author(s): Chengbo Sun, Hailun Wang, Qiwang Ma, Chao Chen, Jianhui Yue, Bo Li, Xi Zhang
Software Mentions: 3
Published: over 3 years ago
10.7554/eLife.56186
Caenorhabditis elegans processes sensory information to choose between freeloading and self-defense strategiesCited by: 16
Author(s): Jodie A. Schiffer, Francesco A Servello, William R. Heath, Francis Raj Gandhi Amrit, Stephanie V. Stumbur, Matthias Eder, Olivier M F Martin, Sean B Johnsen, Julian A Stanley, Hannah Tam, Sarah J Brennan, Natalie G McGowan, Abigail Vogelaar, Yuyan Xu, William T. Serkin, Arjumand Ghazi, Nicholas Stroustrup, Javier Apfeld
Software Mentions: 3
Published: over 4 years ago
10.1371/journal.pbio.3000152
Single-cell transcriptomics reveals gene expression dynamics of human fetal kidney developmentCited by: 113
Author(s): Mazène Hochane, Patrick R. van den Berg, Xueying Fan, Noémie M. L. P. Bérenger-Currias, Esmée Adegeest, Monika Bialecka, Maaike Nieveen, Maarten Menschaart, Susana M. Chuva de Sousa Lopes, Stefan Semrau
Software Mentions: 3
Published: over 5 years ago
10.3389/fgene.2020.628539
Cell Type-Specific Predictive Models Perform Prioritization of Genes and Gene Sets Associated With AutismCited by: 7
Author(s): Jinting Guan, Yang Wang, Yiping Lin, Qingyang Yin, Yibo Zhuang, Guoli Ji
Software Mentions: 3
Published: over 3 years ago
10.1016/j.stem.2019.12.005
The Dynamic Transcriptional Cell Atlas of Testis Development during Human PubertyCited by: 144
Author(s): Jingtao Guo, Xiaolu Nie, Maria Giebler, Hana Mlčochová, Yueqi Wang, Edward J. Grow, Robin Kim, Melissa D. Tharmalingam, Gabriele Matilionyte, Cecilia Lindskog, Douglas T. Carrell, Rod T. Mitchell, Anne Goriely, James M. Hotaling, Bradley R. Cairns
Software Mentions: 2
Published: over 4 years ago
10.1186/s13073-018-0581-y
Single-cell transcriptomics reveal that PD-1 mediates immune tolerance by regulating proliferation of regulatory T cellsCited by: 28
Author(s): Cherry S. Leung, Kevin Yi Yang, Xisheng Li, Vicken W. Chan, Manching Ku, Herman Waldmann, Shohei Hori, Jason C.H. Tsang, Y.M. Dennis Lo, Kathy O. Lui
Software Mentions: 2
Published: about 6 years ago
10.1186/s13059-020-02078-0
Quantile normalization of single-cell RNA-seq read counts without unique molecular identifiersCited by: 24
Author(s): F. William Townes, Rafael A. Irizarry
Software Mentions: 2
Published: over 4 years ago
10.1186/s13059-020-02015-1
MOFA+: a statistical framework for comprehensive integration of multi-modal single-cell dataCited by: 285
Author(s): Ricard Argelaguet, Damien Arnol, Danila Bredikhin, Yonatan Deloro, Britta Velten, John C. Marioni, Oliver Stegle
Software Mentions: 2
Published: over 4 years ago
10.7554/eLife.52951
Cell type composition and circuit organization of clonally related excitatory neurons in the juvenile mouse neocortexCited by: 32
Author(s): Cathryn R. Cadwell, Federico Scala, Paul G. Fahey, Dmitry Kobak, Shalaka Mulherkar, Fabian H. Sinz, Stelios Papadopoulos, Zheng Huan Tan, Per Johnsson, Leonard Hartmanis, Shuang Li, R. Cotton, Kimberley F. Tolias, Rickard Sandberg, Philipp Berens, Xiaolong Jiang, Andreas S. Tolias
Software Mentions: 2
Published: over 4 years ago
10.3389/fimmu.2021.666935
Single-Cell RNA Sequencing Reveals Tissue Compartment-Specific Plasticity of Mycosis Fungoides Tumor CellsCited by: 24
Author(s): Katharina Rindler, Wolfgang Bauer, Constanze Jonak, Matthias Wielscher, Lisa E. Shaw, Thomas B. Rojahn, Felix M. Thaler, Stefanie Porkert, Ingrid Simonitsch‐Klupp, Wolfgang Weninger, Marius E. Mayerhoefer, Matthias Farlik, Patrick M. Brunner
Software Mentions: 2
Published: over 3 years ago
10.3389/fimmu.2021.613810
Göttingen Minipigs as a Model to Evaluate Longevity, Functionality, and Memory of Immune Response Induced by Pertussis VaccinesCited by: 3
Author(s): Céline Vaure, Véronique Grégoire-Barou, Virginie Courtois, Émilie Chautard, Cyril Dégletagne, Yuanqing Liu
Software Mentions: 2
Published: over 3 years ago
10.1038/s41597-019-0131-5
Deep single-cell RNA sequencing data of individual T cells from treatment-naïve colorectal cancer patientsCited by: 43
Author(s): Yuanyuan Zhang, Liangtao Zheng, Lei Zhang, Xueda Hu, Xianwen Ren
Software Mentions: 2
Published: about 5 years ago