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: DropletUtils

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

Utilities for Handling Single-Cell Droplet Data
1 version
Latest release: about 1 year ago
10 dependent packages
141,396 downloads total

Papers Mentioning DropletUtils 14

10.1016/j.cell.2020.12.016

Spatiotemporal analysis of human intestinal development at single-cell resolution
Cited by: 215
Author(s): David Fawkner-Corbett, Agne Antanaviciute, Kaushal Parikh, Marta Jagielowicz, Ana Sousa Gerós, Tarun Gupta, Neil Ashley, Doran Khamis, Darren J. Fowler, Edward Morrissey, Christine M. Cunningham, Johnson Prv., Hashem Koohy, Alison Simmons
Software Mentions: 18
Published: almost 4 years ago

10.3389/fgene.2021.689406

Reference Transcriptomes of Porcine Peripheral Immune Cells Created Through Bulk and Single-Cell RNA Sequencing
Cited by: 26
Author(s): Júber Herrera-Uribe, Jayne E Wiarda, Sathesh K Sivasankaran, Lance Daharsh, Haibo Li, Kristen A Byrne, Timothy P. L. Smith, Joan K. Lunney, Crystal L. Loving, Christopher K. Tuggle
Software Mentions: 14
Published: over 3 years ago

10.1186/s13059-019-1662-y

EmptyDrops: distinguishing cells from empty droplets in droplet-based single-cell RNA sequencing data
Cited by: 518
Author(s): Aaron T. L. Lun, Samantha J. Riesenfeld, Tallulah Andrews, Tomás Gomes, John C. Marioni
Software Mentions: 9
Published: over 5 years ago

10.7554/eLife.60188

Combined transient ablation and single-cell RNA-sequencing reveals the development of medullary thymic epithelial cells
Cited by: 42
Author(s): Kristen L. Wells, Corey N. Miller, Andreas R. Gschwind, Wei Wu, Jonah D Phipps, Mark S. Anderson, Lars M. Steinmetz
Software Mentions: 9
Published: about 4 years ago

10.1002/glia.23767

Transcriptional profiling of microglia; current state of the art and future perspectives
Cited by: 72
Author(s): Emma Gerrits, Yang Heng, Erik Boddeke, Bart J. L. Eggen
Software Mentions: 7
Published: about 5 years ago

10.1155/2021/5545261

Ndufs1 Deficiency Aggravates the Mitochondrial Membrane Potential Dysfunction in Pressure Overload-Induced Myocardial Hypertrophy
Cited by: 17
Author(s): Rongjun Zou, Jun Tao, Junxiong Qiu, Wu Shi, Ming‐Hui Zou, Weidan Chen, Wenlei Li, Na Zhou, Shaoli Wang, Li Ma, Xinxin Chen
Software Mentions: 6
Published: almost 4 years ago

10.1186/s12864-021-07435-2

Blinatumomab-induced T cell activation at single cell transcriptome resolution
Cited by: 11
Author(s): Yi Huo, Zhonghua Sheng, Daniel Lu, Daniel C. Ellwanger, Chi-Ming Li, Oliver Homann, Songli Wang, Hong Mei Yin, Ruibao Ren
Software Mentions: 6
Published: almost 4 years ago

10.1186/s12864-021-07930-6

Choice of pre-processing pipeline influences clustering quality of scRNA-seq datasets
Cited by: 4
Author(s): Inbal Shainer, Manuel Stemmer
Software Mentions: 6
Published: over 3 years ago

10.3389/fcell.2020.592348

Limited Mitochondrial Activity Coupled With Strong Expression of CD34, CD90 and EPCR Determines the Functional Fitness of ex vivo Expanded Human Hematopoietic Stem Cells
Cited by: 7
Author(s): Luena Papa, Mansour Djedaini, Tiphaine Martin, Mahtab Zangui, Kristin G. Beaumont, Robert Sebra, Ramon Parsons, Christoph Schaniel, Ronald Hoffman
Software Mentions: 5
Published: about 4 years ago

10.1523/JNEUROSCI.1634-20.2020

Cell Type-Specific Oxidative Stress Genomic Signatures in the Globus Pallidus of Dopamine-Depleted Mice
Cited by: 12
Author(s): Alyssa J. Lawler, Ashley R. Brown, Rachel S. Bouchard, Noelle Toong, Yeonju Kim, Nitinram Velraj, Grant A Fox, Michael Kleyman, Byungsoo Kang, Aryn H. Gittis, Andreas Pfenning
Software Mentions: 5
Published: about 4 years ago

10.3389/fonc.2021.557477

Unraveling Heterogeneity of Tumor Cells and Microenvironment and Its Clinical Implications for Triple Negative Breast Cancer
Cited by: 12
Author(s): Ke Jiang, Mengting Dong, Chunyang Li, Jiayu Sheng
Software Mentions: 5
Published: over 3 years ago

10.1172/jci.insight.151621

Combinatorial transcription factor profiles predict mature and functional human islet α and β cells
Cited by: 21
Author(s): Shristi Shrestha, Diane Saunders, John T. Walker, Joan Camunas-Soler, Xiao-Qing Dai, Rachana Haliyur, Radhika Aramandla, Greg Poffenberger, Nripesh Prasad, Rita Bottino, Roland Stein, Jean‐Philippe Cartailler, Stephen C. J. Parker, Patrick E. MacDonald, Shawn Levy, Alvin C. Powers, Marcela Briššová
Software Mentions: 4
Published: about 3 years ago

10.1016/j.isci.2021.102783

AMPK activation reverts mouse epiblast stem cells to naive state
Cited by: 4
Author(s): Yajing Liu, Junko Yamane, Akito Tanaka, Wataru Fujibuchi, Jun Yamashita
Software Mentions: 4
Published: over 3 years ago

10.1038/s41598-020-67513-5

Enhancing droplet-based single-nucleus RNA-seq resolution using the semi-supervised machine learning classifier DIEM
Cited by: 50
Author(s): Marcus Alvarez, Elior Rahmani, Brandon Jew, Kristina M. Garske, Min‐Hua Zong, Jihane N. Benhammou, Chun Jimmie Ye, Joseph R. Pisegna, Kirsi H. Pietiläinen, Eran Halperin, Päivi Pajukanta
Software Mentions: 3
Published: over 4 years ago