scShapes: a statistical framework for identifying distribution shapes in single-cell RNA-sequencing data

scShapes: a statistical framework for identifying distribution shapes in single-cell RNA-sequencing data

(2023) Malindrie Dharmaratne et al.   GigaScience

UMI or not UMI, that is the question for scRNA-seq zero-inflation

(2021) Yingying Cao et al.   NATURE BIOTECHNOLOGY

The mitochondrial carrier SFXN1 is critical for complex III integrity and cellular metabolism

(2021) Michelle Grace Acoba et al.   Cell Reports

Metformin Attenuates ROS via FOXO3 Activation in Immune Cells

(2021) Jelka Hartwig et al.   Frontiers in Immunology

Droplet scRNA-seq is not zero-inflated

(2020) Valentine Svensson   NATURE BIOTECHNOLOGY

Single-cell RNA-sequencing of differentiating iPS cells reveals dynamic genetic effects on gene expression

(2020) Anna S. E. Cuomo et al.   Nature Communications

Benefits of Metformin in Attenuating the Hallmarks of Aging

(2020) Ameya S. Kulkarni et al.   Cell Metabolism

The effects of environmental stressors on candidate aging associated genes

(2020) Mariana Andrawus et al.   EXPERIMENTAL GERONTOLOGY

The changing mouse embryo transcriptome at whole tissue and single-cell resolution

(2020) Peng He et al.   NATURE

A single-cell atlas of the peripheral immune response in patients with severe COVID-19

(2020) Aaron J. Wilk et al.   NATURE MEDICINE

COVID-19 and Oxidative Stress

(2020) B. V. Chernyak et al.   BIOCHEMISTRY-MOSCOW

Ageing and sources of transcriptional heterogeneity

(2019) Chrysa Nikopoulou et al.   BIOLOGICAL CHEMISTRY

Transcriptional Dysregulation Study Reveals a Core Network Involving the Progression of Alzheimer's Disease

(2019) Guofeng Meng et al.   Frontiers in Aging Neuroscience

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

Cellular Senescence: Defining a Path Forward

(2019) Vassilis Gorgoulis et al.   CELL

Single-cell transcriptomics of human T cells reveals tissue and activation signatures in health and disease

(2019) Peter A. Szabo et al.   Nature Communications

β-Catenin: A Metazoan Filter for Biological Noise?

(2019) Saba Rezaei-Lotfi et al.   Frontiers in Genetics

M3S: a comprehensive model selection for multi-modal single-cell RNA sequencing data

(2019) Yu Zhang et al.   BMC BIOINFORMATICS

Metformin regulates metabolic and nonmetabolic pathways in skeletal muscle and subcutaneous adipose tissues of older adults

(2018) Ameya S Kulkarni et al.   AGING CELL

DEsingle for detecting three types of differential expression in single-cell RNA-seq data

(2018) Zhun Miao et al.   BIOINFORMATICS

Integrating single-cell transcriptomic data across different conditions, technologies, and species

(2018) Andrew Butler et al.   NATURE BIOTECHNOLOGY

Bias, robustness and scalability in single-cell differential expression analysis

(2018) Charlotte Soneson et al.   NATURE METHODS

A new and intuitive test for zero modification

(2018) Paul Wilson et al.   STATISTICAL MODELLING

The nuclear receptor RXRA controls cellular senescence by regulating calcium signaling

(2018) Xingjie Ma et al.   AGING CELL

Genomic encoding of transcriptional burst kinetics

(2018) Anton J. M. Larsson et al.   NATURE

Scaling single-cell genomics from phenomenology to mechanism

(2017) Amos Tanay et al.   NATURE

Massively parallel digital transcriptional profiling of single cells

(2017) Grace X. Y. Zheng et al.   Nature Communications

Revealing the vectors of cellular identity with single-cell genomics

(2016) Allon Wagner et al.   NATURE BIOTECHNOLOGY

Long live FOXO: unraveling the role of FOXO proteins in aging and longevity

(2015) Rute Martins et al.   AGING CELL

Computational analysis of cell-to-cell heterogeneity in single-cell RNA-sequencing data reveals hidden subpopulations of cells

(2015) Florian Buettner et al.   NATURE BIOTECHNOLOGY

Efficient Test and Visualization of Multi-Set Intersections

(2015) Minghui Wang et al.   Scientific Reports

Regression Models for Count Data inR

(2015) Achim Zeileis et al.   Journal of Statistical Software

Bayesian approach to single-cell differential expression analysis

(2014) Peter V Kharchenko et al.   NATURE METHODS

The Hallmarks of Aging

(2013) Carlos López-Otín et al.   CELL

Single-cell transcriptomics reveals bimodality in expression and splicing in immune cells

(2013) Alex K. Shalek et al.   NATURE

Making a Noisy Gene: HDACs Turn Up the Static

(2012) Roshan M. Kumar et al.   MOLECULAR CELL

Metformin induces apoptosis of lung cancer cells through activating JNK/p38 MAPK pathway and GADD153

(2011) N. WU et al.   NEOPLASMA

GeneCards Version 3: the human gene integrator

(2010) M. Safran et al.   Database-The Journal of Biological Databases and Curation

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Premature Aging in Skeletal Muscle Lacking Serum Response Factor

(2008) Charlotte Lahoute et al.   PLoS One