Cargando…

Reconstructing temporal and spatial dynamics from single-cell pseudotime using prior knowledge of real scale cell densities

Modern cytometry methods allow collecting complex, multi-dimensional data sets from heterogeneous cell populations at single-cell resolution. While methods exist to describe the progression and order of cellular processes from snapshots of such populations, these descriptions are limited to arbitrar...

Descripción completa

Detalles Bibliográficos
Autores principales:	Kuritz, Karsten, Stöhr, Daniela, Maichl, Daniela Simone, Pollak, Nadine, Rehm, Markus, Allgöwer, Frank
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Nature Publishing Group UK 2020
Materias:	Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7046765/ https://www.ncbi.nlm.nih.gov/pubmed/32107427 http://dx.doi.org/10.1038/s41598-020-60400-z

Ejemplares similares

PseudoGA: cell pseudotime reconstruction based on genetic algorithm
por: Mondal, Pronoy Kanti, et al.
Publicado: (2021)

Sample-based modeling reveals bidirectional interplay between cell cycle progression and extrinsic apoptosis
por: Imig, Dirke, et al.
Publicado: (2020)

Stress-induced TRAILR2 expression overcomes TRAIL resistance in cancer cell spheroids
por: Stöhr, Daniela, et al.
Publicado: (2020)

Pseudotime estimation: deconfounding single cell time series
por: Reid, John E., et al.
Publicado: (2016)

Slingshot: cell lineage and pseudotime inference for single-cell transcriptomics
por: Street, Kelly, et al.
Publicado: (2018)

PseudotimeDE: inference of differential gene expression along cell pseudotime with well-calibrated p-values from single-cell RNA sequencing data
por: Song, Dongyuan, et al.
Publicado: (2021)

scSTEM: clustering pseudotime ordered single-cell data
por: Song, Qi, et al.
Publicado: (2022)

Molecular estimation of neurodegeneration pseudotime in older brains
por: Mukherjee, Sumit, et al.
Publicado: (2020)

LVPT: Lazy Velocity Pseudotime Inference Method
por: Mao, Shuainan, et al.
Publicado: (2023)

CCPE: cell cycle pseudotime estimation for single cell RNA-seq data
por: Liu, Jiajia, et al.
Publicado: (2021)

A descriptive marker gene approach to single-cell pseudotime inference
por: Campbell, Kieran R, et al.
Publicado: (2019)

DTFLOW: Inference and Visualization of Single-cell Pseudotime Trajectory Using Diffusion Propagation
por: Wei, Jiangyong, et al.
Publicado: (2021)

BLTSA: pseudotime prediction for single cells by branched local tangent space alignment
por: Li, Limin, et al.
Publicado: (2023)

Pseudotime Dynamics in Melanoma Single-Cell Transcriptomes Reveals Different Mechanisms of Tumor Progression
por: Loeffler-Wirth, Henry, et al.
Publicado: (2018)

psupertime: supervised pseudotime analysis for time-series single-cell RNA-seq data
por: Macnair, Will, et al.
Publicado: (2022)

Author Correction: Molecular estimation of neurodegeneration pseudotime in older brains
por: Mukherjee, Sumit, et al.
Publicado: (2020)

TraSig: inferring cell-cell interactions from pseudotime ordering of scRNA-Seq data
por: Li, Dongshunyi, et al.
Publicado: (2022)

A statistical framework for differential pseudotime analysis with multiple single-cell RNA-seq samples
por: Hou, Wenpin, et al.
Publicado: (2021)

A robust and accurate single-cell data trajectory inference method using ensemble pseudotime
por: Zhang, Yifan, et al.
Publicado: (2023)

Depicting pseudotime-lagged causality across single-cell trajectories for accurate gene-regulatory inference
por: Reagor, Caleb C, et al.
Publicado: (2023)

A statistical framework for differential pseudotime analysis with multiple single-cell RNA-seq samples
por: Hou, Wenpin, et al.
Publicado: (2023)

Dictionary learning allows model-free pseudotime estimation of transcriptomic data
por: Rams, Mona, et al.
Publicado: (2022)

Pseudotime dynamics of T cells in pancreatic ductal adenocarcinoma inform distinct functional states within the regulatory and cytotoxic T cells
por: Jainarayanan, Ashwin, et al.
Publicado: (2023)

Bcl-2-mediated control of TRAIL-induced apoptotic response in the non-small lung cancer cell line NCI-H460 is effective at late caspase processing steps
por: Danish, Lubna, et al.
Publicado: (2018)

Investigating the Clinico-Molecular and Immunological Evolution of Lung Adenocarcinoma Using Pseudotime Analysis
por: Lee, Hyunjong, et al.
Publicado: (2022)

Morphological pseudotime ordering and fate mapping reveal diversification of cerebellar inhibitory interneurons
por: Wang, Wendy Xueyi, et al.
Publicado: (2022)

TIPS: trajectory inference of pathway significance through pseudotime comparison for functional assessment of single-cell RNAseq data
por: Zheng, Zihan, et al.
Publicado: (2021)

scFates: a scalable python package for advanced pseudotime and bifurcation analysis from single-cell data
por: Faure, Louis, et al.
Publicado: (2022)

Deciphering colorectal cancer progression features and prognostic signature by single-cell RNA sequencing pseudotime trajectory analysis
por: Bazyari, Mohammad Javad, et al.
Publicado: (2023)

A combination approach of pseudotime analysis and mathematical modeling for understanding drug-resistant mechanisms
por: Magi, Shigeyuki, et al.
Publicado: (2021)

Pseudotime Analysis Reveals Exponential Trends in DNA Methylation Aging with Mortality Associated Timescales
por: Lapborisuth, Kalsuda, et al.
Publicado: (2022)

HopLand: single-cell pseudotime recovery using continuous Hopfield network-based modeling of Waddington’s epigenetic landscape
por: Guo, Jing, et al.
Publicado: (2017)

Integrating the characteristic genes of macrophage pseudotime analysis in single-cell RNA-seq to construct a prediction model of atherosclerosis
por: Tian, Zemin, et al.
Publicado: (2023)

Spatial and temporal attention in developmental dyslexia
por: Ruffino, Milena, et al.
Publicado: (2014)

cFLIP downregulation is an early event required for endoplasmic reticulum stress-induced apoptosis in tumor cells
por: Mora-Molina, Rocío, et al.
Publicado: (2022)

Order Under Uncertainty: Robust Differential Expression Analysis Using Probabilistic Models for Pseudotime Inference
por: Campbell, Kieran R., et al.
Publicado: (2016)

Multiphasic modelling and computation of metastatic lung-cancer cell proliferation and atrophy in brain tissue based on experimental data
por: Ehlers, Wolfgang, et al.
Publicado: (2021)

Correction: Order Under Uncertainty: Robust Differential Expression Analysis Using Probabilistic Models for Pseudotime Inference
Publicado: (2017)

Pseudotime analysis reveals novel regulatory factors for multigenic onset and monogenic transition of odorant receptor expression
por: Hussainy, Mohammad, et al.
Publicado: (2022)

Thermal Textile Pixels: The Characterisation of Temporal and Spatial Thermal Development
por: Stöhr, Adriana, et al.
Publicado: (2019)

Cannot write session to /tmp/vufind_sessions/sess_qupr48bg15g9b3r5ltqibine6b