4.8 Article

Searching large-scale scRNA-seq databases via unbiased cell embedding with Cell BLAST

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Article Biochemical Research Methods

Dhaka: variational autoencoder for unmasking tumor heterogeneity from single cell genomic data

Sabrina Rashid et al.

Summary: "Dhaka" is a variational autoencoder method for single cell genomic data that efficiently differentiates tumor subpopulations and improves upon prior methods for analysis.

BIOINFORMATICS (2021)

Letter Biotechnology & Applied Microbiology

Droplet scRNA-seq is not zero-inflated

Valentine Svensson

NATURE BIOTECHNOLOGY (2020)

Article Biochemical Research Methods

scVAE: variational auto-encoders for single-cell gene expression data

Christopher Heje Gronbech et al.

BIOINFORMATICS (2020)

Article Biochemistry & Molecular Biology

Comprehensive Integration of Single-Cell Data

Tim Stuart et al.

Article Biochemistry & Molecular Biology

CHETAH: a selective, hierarchical cell type identification method for single-cell RNA sequencing

Jurrian K. de Kanter et al.

NUCLEIC ACIDS RESEARCH (2019)

Article Biochemical Research Methods

Exploring single-cell data with deep multitasking neural networks

Matthew Amodio et al.

NATURE METHODS (2019)

Article Biochemical Research Methods

Fast, sensitive and accurate integration of single-cell data with Harmony

Ilya Korsunsky et al.

NATURE METHODS (2019)

Article Biochemical Research Methods

M3Drop: dropout-based feature selection for scRNASeq

Tallulah S. Andrews et al.

BIOINFORMATICS (2019)

Article Multidisciplinary Sciences

Single-cell RNA-seq denoising using a deep count autoencoder

Goekcen Eraslan et al.

NATURE COMMUNICATIONS (2019)

Article Biotechnology & Applied Microbiology

CellFishing.jl: an ultrafast and scalable cell search method for single-cell RNA sequencing

Kenta Sato et al.

GENOME BIOLOGY (2019)

Article Biotechnology & Applied Microbiology

Normalization and variance stabilization of single-cell RNA-seq data using regularized negative binomial regression

Christoph Hafemeister et al.

GENOME BIOLOGY (2019)

Article Biotechnology & Applied Microbiology

scPred: accurate supervised method for cell-type classification from single-cell RNA-seq data

Jose Alquicira-Hernandez et al.

GENOME BIOLOGY (2019)

Article Mathematical & Computational Biology

PanglaoDB: a web server for exploration of mouse and human single-cell RNA sequencing data

Oscar Franzen et al.

DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION (2019)

Article Biochemistry & Molecular Biology

SCPortalen: human and mouse single-cell centric database

Imad Abugessaisa et al.

NUCLEIC ACIDS RESEARCH (2018)

Article Biochemistry & Molecular Biology

Mapping the Mouse Cell Atlas by Microwell-Seq

Xiaoping Han et al.

Article Biotechnology & Applied Microbiology

Batch effects in single-cell RNA-sequencing data are corrected by matching mutual nearest neighbors

Laleh Haghverdi et al.

NATURE BIOTECHNOLOGY (2018)

Article Biotechnology & Applied Microbiology

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

Andrew Butler et al.

NATURE BIOTECHNOLOGY (2018)

Article Biochemical Research Methods

scmap: projection of single-cell RNA -seq data across data sets

Vladimir Yu Kiselev et al.

NATURE METHODS (2018)

Article Biochemistry & Molecular Biology

CellAtlasSearch: a scalable search engine for single cells

Divyanshu Srivastava et al.

NUCLEIC ACIDS RESEARCH (2018)

Article Multidisciplinary Sciences

A general and flexible method for signal extraction from single-cell RNA-seq data

Davide Risso et al.

NATURE COMMUNICATIONS (2018)

Article Multidisciplinary Sciences

A single-cell atlas of the airway epithelium reveals the CFTR-rich pulmonary ionocyte

Lindsey W. Plasschaert et al.

NATURE (2018)

Article Multidisciplinary Sciences

Population snapshots predict early haematopoietic and erythroid hierarchies

Betsabeh Khoramian Tusi et al.

NATURE (2018)

Article Multidisciplinary Sciences

A revised airway epithelial hierarchy includes CFTR-expressing ionocytes

Daniel T. Montoro et al.

NATURE (2018)

Article Cell Biology

The adult human testis transcriptional cell atlas

Jingtao Guo et al.

CELL RESEARCH (2018)

Article Biochemical Research Methods

Deep generative modeling for single-cell transcriptomics

Romain Lopez et al.

NATURE METHODS (2018)

Article Multidisciplinary Sciences

A web server for comparative analysis of single-cell RNA-seq data

Amir Alavi et al.

NATURE COMMUNICATIONS (2018)

Article Biochemical Research Methods

SPRING: a kinetic interface for visualizing high dimensional single-cell expression data

Caleb Weinreb et al.

BIOINFORMATICS (2018)

Article Cell Biology

Human haematopoietic stem cell lineage commitment is a continuous process

Lars Velten et al.

NATURE CELL BIOLOGY (2017)

Article Biochemical Research Methods

Normalizing single-cell RNA sequencing data: challenges and opportunities

Catalina A. Vallejos et al.

NATURE METHODS (2017)

Article Biochemical Research Methods

powsimR: power analysis for bulk and single cell RNA-seq experiments

Beate Vieth et al.

BIOINFORMATICS (2017)

Article Multidisciplinary Sciences

Oligodendrocyte heterogeneity in the mouse juvenile and adult central nervous system

Sueli Marques et al.

SCIENCE (2016)

Article Mathematical & Computational Biology

Ensembl comparative genomics resources

Javier Herrero et al.

DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION (2016)

Article Mathematical & Computational Biology

The Cell Ontology 2016: enhanced content, modularization, and ontology interoperability

Alexander D. Diehl et al.

JOURNAL OF BIOMEDICAL SEMANTICS (2016)

Article Biotechnology & Applied Microbiology

ZIFA: Dimensionality reduction for zero-inflated single-cell gene expression analysis

Emma Pierson et al.

GENOME BIOLOGY (2015)

Article Biochemical Research Methods

Validation of noise models for single-cell transcriptomics

Dominic Grun et al.

NATURE METHODS (2014)

Article Biochemical Research Methods

Smart-seq2 for sensitive full-length transcriptome profiling in single cells

Simone Picelli et al.

NATURE METHODS (2013)

Article Biochemistry & Molecular Biology

NCBI GEO: archive for functional genomics data sets-update

Tanya Barrett et al.

NUCLEIC ACIDS RESEARCH (2013)

Article Mechanics

Fast unfolding of communities in large networks

Vincent D. Blondel et al.

JOURNAL OF STATISTICAL MECHANICS-THEORY AND EXPERIMENT (2008)

Article Mathematical & Computational Biology

Adjusting batch effects in microarray expression data using empirical Bayes methods

W. Evan Johnson et al.

BIOSTATISTICS (2007)

Article Multidisciplinary Sciences

Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles

A Subramanian et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2005)

Article Multidisciplinary Sciences

Stochastic gene expression in a single cell

MB Elowitz et al.

SCIENCE (2002)