Multi-omics single-cell data integration and regulatory inference with graph-linked embedding
出版年份 2022 全文链接
标题
Multi-omics single-cell data integration and regulatory inference with graph-linked embedding
作者
关键词
-
出版物
NATURE BIOTECHNOLOGY
Volume -, Issue -, Pages -
出版商
Springer Science and Business Media LLC
发表日期
2022-05-03
DOI
10.1038/s41587-022-01284-4
参考文献
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。- Probabilistic harmonization and annotation of single‐cell transcriptomics data with deep generative models
- (2021) Chenling Xu et al. Molecular Systems Biology
- Multi-domain translation between single-cell imaging and sequencing data using autoencoders
- (2021) Karren Dai Yang et al. Nature Communications
- Single-cell multiomics sequencing reveals the functional regulatory landscape of early embryos
- (2021) Yang Wang et al. Nature Communications
- Iterative single-cell multi-omic integration using online learning
- (2021) Chao Gao et al. NATURE BIOTECHNOLOGY
- Computational principles and challenges in single-cell data integration
- (2021) Ricard Argelaguet et al. NATURE BIOTECHNOLOGY
- Single-cell CUT&Tag profiles histone modifications and transcription factors in complex tissues
- (2021) Marek Bartosovic et al. NATURE BIOTECHNOLOGY
- Single cell transcriptional and chromatin accessibility profiling redefine cellular heterogeneity in the adult human kidney
- (2021) Yoshiharu Muto et al. Nature Communications
- Deep generative model embedding of single-cell RNA-Seq profiles on hyperspheres and hyperbolic spaces
- (2021) Jiarui Ding et al. Nature Communications
- Mapping single-cell atlases throughout Metazoa unravels cell type evolution
- (2021) Alexander J Tarashansky et al. eLife
- Manifold alignment for heterogeneous single-cell multi-omics data integration using Pamona
- (2021) Kai Cao et al. BIOINFORMATICS
- A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex
- (2021) Zizhen Yao et al. NATURE
- A transcriptomic atlas of mouse cerebellar cortex comprehensively defines cell types
- (2021) Velina Kozareva et al. NATURE
- Multiscale and integrative single-cell Hi-C analysis with Higashi
- (2021) Ruochi Zhang et al. NATURE BIOTECHNOLOGY
- Benchmarking atlas-level data integration in single-cell genomics
- (2021) Malte D. Luecken et al. NATURE METHODS
- Identification of genomic enhancers through spatial integration of single‐cell transcriptomics and epigenomics
- (2020) Carmen Bravo González‐Blas et al. Molecular Systems Biology
- Unsupervised topological alignment for single-cell multi-omics integration
- (2020) Kai Cao et al. BIOINFORMATICS
- Searching large-scale scRNA-seq databases via unbiased cell embedding with Cell BLAST
- (2020) Zhi-Jie Cao et al. Nature Communications
- Chromatin Potential Identified by Shared Single-Cell Profiling of RNA and Chromatin
- (2020) Sai Ma et al. CELL
- SCIM: universal single-cell matching with unpaired feature sets
- (2020) Stefan G Stark et al. BIOINFORMATICS
- Adversarial deconfounding autoencoder for learning robust gene expression embeddings
- (2020) Ayse B Dincer et al. BIOINFORMATICS
- Slide-seq: A scalable technology for measuring genome-wide expression at high spatial resolution
- (2019) Samuel G. Rodriques et al. SCIENCE
- Integrative single-cell analysis
- (2019) Tim Stuart et al. NATURE REVIEWS GENETICS
- Transcriptome-scale super-resolved imaging in tissues by RNA seqFISH+
- (2019) Chee-Huat Linus Eng et al. NATURE
- Comprehensive Integration of Single-Cell Data
- (2019) Tim Stuart et al. CELL
- Single-Cell Multi-omic Integration Compares and Contrasts Features of Brain Cell Identity
- (2019) Joshua D. Welch et al. CELL
- A compendium of promoter-centered long-range chromatin interactions in the human genome
- (2019) Inkyung Jung et al. NATURE GENETICS
- High-throughput sequencing of the transcriptome and chromatin accessibility in the same cell
- (2019) Song Chen et al. NATURE BIOTECHNOLOGY
- Fast, sensitive and accurate integration of single-cell data with Harmony
- (2019) Ilya Korsunsky et al. NATURE METHODS
- DC3 is a method for deconvolution and coupled clustering from bulk and single-cell genomics data
- (2019) Wanwen Zeng et al. Nature Communications
- Highly scalable generation of DNA methylation profiles in single cells
- (2018) Ryan M Mulqueen et al. NATURE BIOTECHNOLOGY
- Integrating single-cell transcriptomic data across different conditions, technologies, and species
- (2018) Andrew Butler et al. NATURE BIOTECHNOLOGY
- Exponential scaling of single-cell RNA-seq in the past decade
- (2018) Valentine Svensson et al. Nature Protocols
- Integrative analysis of single-cell genomics data by coupled nonnegative matrix factorizations
- (2018) Zhana Duren et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Single-Cell Multi-omics: An Engine for New Quantitative Models of Gene Regulation
- (2018) Jonathan Packer et al. TRENDS IN GENETICS
- scNMT-seq enables joint profiling of chromatin accessibility DNA methylation and transcription in single cells
- (2018) Stephen J. Clark et al. Nature Communications
- Molecular Diversity and Specializations among the Cells of the Adult Mouse Brain
- (2018) Arpiar Saunders et al. CELL
- Cicero Predicts cis-Regulatory DNA Interactions from Single-Cell Chromatin Accessibility Data
- (2018) Hannah A. Pliner et al. MOLECULAR CELL
- Deep generative modeling for single-cell transcriptomics
- (2018) Romain Lopez et al. NATURE METHODS
- A rapid and robust method for single cell chromatin accessibility profiling
- (2018) Xi Chen et al. Nature Communications
- Genetic effects on gene expression across human tissues
- (2017) François Aguet et al. NATURE
- Integrative single-cell analysis of transcriptional and epigenetic states in the human adult brain
- (2017) Blue B Lake et al. NATURE BIOTECHNOLOGY
- SCENIC: single-cell regulatory network inference and clustering
- (2017) Sara Aibar et al. NATURE METHODS
- TRRUST v2: an expanded reference database of human and mouse transcriptional regulatory interactions
- (2017) Heonjong Han et al. NUCLEIC ACIDS RESEARCH
- The Encyclopedia of DNA elements (ENCODE): data portal update
- (2017) Carrie A Davis et al. NUCLEIC ACIDS RESEARCH
- Single-cell methylomes identify neuronal subtypes and regulatory elements in mammalian cortex
- (2017) Chongyuan Luo et al. SCIENCE
- Massively parallel digital transcriptional profiling of single cells
- (2017) Grace X. Y. Zheng et al. Nature Communications
- Lineage-Specific Genome Architecture Links Enhancers and Non-coding Disease Variants to Target Gene Promoters
- (2016) Biola M. Javierre et al. CELL
- Molecular Identity of Human Outer Radial Glia during Cortical Development
- (2015) Alex A. Pollen et al. CELL
- Disruption of DNA-methylation-dependent long gene repression in Rett syndrome
- (2015) Harrison W. Gabel et al. NATURE
- Fixed single-cell transcriptomic characterization of human radial glial diversity
- (2015) Elliot R Thomsen et al. NATURE METHODS
- Epigenomic Signatures of Neuronal Diversity in the Mammalian Brain
- (2015) Alisa Mo et al. NEURON
- Multiplex single-cell profiling of chromatin accessibility by combinatorial cellular indexing
- (2015) D. A. Cusanovich et al. SCIENCE
- Efficient Test and Visualization of Multi-Set Intersections
- (2015) Minghui Wang et al. Scientific Reports
- Smart-seq2 for sensitive full-length transcriptome profiling in single cells
- (2013) Simone Picelli et al. NATURE METHODS
- Exploring the three-dimensional organization of genomes: interpreting chromatin interaction data
- (2013) Job Dekker et al. NATURE REVIEWS GENETICS
- Mass Cytometry: Technique for Real Time Single Cell Multitarget Immunoassay Based on Inductively Coupled Plasma Time-of-Flight Mass Spectrometry
- (2009) Dmitry R. Bandura et al. ANALYTICAL CHEMISTRY
Discover Peeref hubs
Discuss science. Find collaborators. Network.
Join a conversationCreate your own webinar
Interested in hosting your own webinar? Check the schedule and propose your idea to the Peeref Content Team.
Create Now