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: DEsingle

https://packages.ecosyste.ms/registries/bioconductor.org/packages/DEsingle

DEsingle for detecting three types of differential expression in single-cell RNA-seq data
1 version
Latest release: about 1 year ago
1 dependent package
20,819 downloads total

Papers Mentioning DEsingle 15

10.3389/fgene.2019.00317

Single-Cell RNA-Seq Technologies and Related Computational Data Analysis
Cited by: 549
Author(s): Geng Chen, Baitang Ning, Tieliu Shi
Software Mentions: 13
Published: over 5 years ago

Human intestinal tissue-resident memory T cells comprise transcriptionally and functionally distinct subsets
Cited by: 47
Author(s): Michael Fitzpatrick, Nicholas M. Provine, Lucy C. Garner, Kate Powell, Ali Amini, Sophie Irwin, Helen Ferry, Tim Ambrose, Peter J. Friend, Georgios Vrakas, Srikanth Reddy, Elizabeth Soilleux, Paul Klenerman, Philip Allan
Software Mentions: 9
Published: almost 4 years ago

10.1186/s12864-019-5926-4

lncDIFF: a novel quasi-likelihood method for differential expression analysis of non-coding RNA
Cited by: 6
Author(s): Qian Li, Xiaoqing Yu, Ritu Chaudhary, Robbert J.C. Slebos, Christine H. Chung, Xuefeng Wang
Software Mentions: 8
Published: over 5 years ago

10.3389/fgene.2019.01331

Reproducibility of Methods to Detect Differentially Expressed Genes from Single-Cell RNA Sequencing
Cited by: 50
Author(s): Tian Mou, Wenjiang Deng, Fengyun Gu, Yudi Pawitan, Trung Nghia Vu
Software Mentions: 8
Published: almost 5 years ago

10.1186/s12859-019-2599-6

Comparative analysis of differential gene expression analysis tools for single-cell RNA sequencing data
Cited by: 189
Author(s): Tianyu Wang, Boyang Li, Craig E. Nelson, Sheida Nabavi
Software Mentions: 7
Published: almost 6 years ago

10.3389/fpls.2021.661361

Unraveling Root Development Through Single-Cell Omics and Reconstruction of Gene Regulatory Networks
Cited by: 2
Author(s): Laura Serrano-Ron, Javier Cabrera, Pablo Pérez-García, Miguel A. Moreno-Risueño
Software Mentions: 7
Published: over 3 years ago

10.7150/thno.54917

Single-cell transcriptome profiling reveals vascular endothelial cell heterogeneity in human skin
Cited by: 36
Author(s): Qingyang Li, Zhenlai Zhu, Lei Wang, Yi‐Ting Lin, Hui Fang, Jie Lei, Tianyu Cao, Gang Wang, Erle Dang
Software Mentions: 6
Published: almost 4 years ago

10.3389/fnins.2021.591122

Single-Cell Transcriptomics: Current Methods and Challenges in Data Acquisition and Analysis
Cited by: 40
Author(s): Asif Adil, Vijay Kumar, Arif Tasleem Jan, M. Asger
Software Mentions: 6
Published: over 3 years ago

10.7150/thno.58433

Single-cell transcriptomic profiling provides insights into the toxic effects of Zearalenone exposure on primordial follicle assembly
Cited by: 20
Author(s): Yu Tian, Mingyu Zhang, Ai-Hong Zhao, Li Kong, Junjie Wang, Wei Shen, Lan Li
Software Mentions: 6
Published: almost 4 years ago

10.3389/fgene.2021.648898

A Novel Method to Identify the Differences Between Two Single Cell Groups at Single Gene, Gene Pair, and Gene Module Levels
Cited by: 1
Author(s): Lingyu Cui, Bo Wang, Caixia Ren, Ailan Wang, Hong An, Wei Liang
Software Mentions: 5
Published: almost 4 years ago

10.3389/fcell.2020.588041

Identification of Differential Gene Groups From Single-Cell Transcriptomes Using Network Entropy
Cited by: 3
Author(s): Yanglan Gan, Shanshan Liang, Qingting Wei, Guobing Zou
Software Mentions: 5
Published: about 4 years ago

10.3389/fgene.2021.735103

Editorial: Computational Tools in Inferring Cancer Tissue-of-Origin and Molecular Classification Towards Personalized Cancer Therapy, Volume II
Cited by: 0
Author(s): Ling Kui, Wenzhe Mao, Aasim Majeed, Jian Chen
Software Mentions: 4
Published: over 3 years ago

10.3389/fnmol.2021.718241

Single-Cell RNA-Seq of Cisplatin-Treated Adult Stria Vascularis Identifies Cell Type-Specific Regulatory Networks and Novel Therapeutic Gene Targets
Cited by: 13
Author(s): Ian Taukulis, Rafal T. Olszewski, Soumya Korrapati, Katharine A. Fernandez, Erich T. Boger, Tracy S. Fitzgerald, Robert J. Morell, Lisa L. Cunningham, Michael Hoa
Software Mentions: 3
Published: over 3 years ago

10.1002/advs.202100629

Pulmonary Aerosol Delivery of Let‐7b microRNA Confers a Striking Inhibitory Effect on Lung Carcinogenesis through Targeting the Tumor Immune Microenvironment
Cited by: 13
Author(s): Qi Zhang, Jing Pan, Donghai Xiong, Yian Wang, Mark Steven Miller, Shizuko Sei, Robert H. Shoemaker, Alberto Izzotti, Ming You
Software Mentions: 2
Published: over 3 years ago

10.1016/j.csbj.2021.01.025

Systems biology analysis identifies TNFRSF9 as a functional marker of tumor-infiltrating regulatory T-cell enabling clinical outcome prediction in lung cancer
Cited by: 12
Author(s): Jae Won Cho, Jimin Son, Sang Jun Ha, Insuk Lee
Software Mentions: 2
Published: almost 4 years ago