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Single-Cell Multi-omic Integration Compares and Contrasts Features of Brain Cell Identity

Cell, 2019-06, Vol.177 (7), p.1873-1887.e17

2019

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UINMF performs mosaic integration of single-cell multi-omic datasets using nonnegative matrix factorization

Nature communications, 2022-02, Vol.13 (1), p.780-780, Article 780

2022

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MATCHER: manifold alignment reveals correspondence between single cell transcriptome and epigenome dynamics

Genome Biology, 2017-07, Vol.18 (1), p.138-138, Article 138

2017

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MichiGAN: sampling from disentangled representations of single-cell data using generative adversarial networks

Genome Biology, 2021-05, Vol.22 (1), p.158-158, Article 158

2021

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SLICER: inferring branched, nonlinear cellular trajectories from single cell RNA-seq data

Genome Biology, 2016-05, Vol.17 (1), p.106-106, Article 106

2016

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A Wnt-mediated transformation of the bone marrow stromal cell identity orchestrates skeletal regeneration

Nature communications, 2020-01, Vol.11 (1), p.332-332, Article 332

2020

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Single-cell transcriptomics reconstructs fate conversion from fibroblast to cardiomyocyte

Nature (London), 2017-11, Vol.551 (7678), p.100-104

2017

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Bone marrow endosteal stem cells dictate active osteogenesis and aggressive tumorigenesis

Nature communications, 2023-04, Vol.14 (1), p.2383-2383, Article 2383

2023

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Iterative single-cell multi-omic integration using online learning

Nature biotechnology, 2021-08, Vol.39 (8), p.1000-1007

2021

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SquiggleNet: real-time, direct classification of nanopore signals

Genome Biology, 2021-10, Vol.22 (1), p.298-16, Article 298

2021

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Intercellular Interactions of an Adipogenic CXCL12‐Expressing Stromal Cell Subset in Murine Bone Marrow

Journal of bone and mineral research, 2021-06, Vol.36 (6), p.1145-1158

2021

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The fate of early perichondrial cells in developing bones

Nature communications, 2022-11, Vol.13 (1), p.7319-17, Article 7319

2022

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TUT7 catalyzes the uridylation of the 3' end for rapid degradation of histone mRNA

RNA (Cambridge), 2016-11, Vol.22 (11), p.1673-1688

2016

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HIV-1 Vpr combats the PU.1-driven antiviral response in primary human macrophages

Nature communications, 2024-06, Vol.15 (1), p.5514-19, Article 5514

2024

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A subset of replication-dependent histone mRNAs are expressed as polyadenylated RNAs in terminally differentiated tissues

Nucleic acids research, 2016-11, Vol.44 (19), p.9190

2016

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Deep Sequencing Shows Multiple Oligouridylations Are Required for 3′ to 5′ Degradation of Histone mRNAs on Polyribosomes

Molecular cell, 2014-03, Vol.53 (6), p.1020-1030

2014

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Community-wide hackathons to identify central themes in single-cell multi-omics

Genome Biology, 2021-08, Vol.22 (1), p.220-220, Article 220

2021

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PyLiger: scalable single-cell multi-omic data integration in Python

Bioinformatics (Oxford, England), 2022-05, Vol.38 (10), p.2946-2948

2022

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Author Correction: Community-wide hackathons to identify central themes in single-cell multi-omics

Genome Biology, 2021-08, Vol.22 (1), p.246-246, Article 246

2021

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Single-Cell Transcriptomic Analysis Reveals Developmental Relationships and Specific Markers of Mouse Periodontium Cellular Subsets

Frontiers in dental medicine, 2021-08, Vol.2

2021

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Jointly defining cell types from multiple single-cell datasets using LIGER

Nature protocols, 2020-11, Vol.15 (11), p.3632-3662

2020

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PyLiger: scalable single-cell multi-omic data integration in Python

Bioinformatics, 2022-05, Vol.38 (10), p.2946-2948

2022

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Multi-omic single-cell velocity models epigenome–transcriptome interactions and improves cell fate prediction

Nature biotechnology, 2023-03, Vol.41 (3), p.387-398

2023

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EnD-Seq and AppEnD: sequencing 3' ends to identify nontemplated tails and degradation intermediates

RNA (Cambridge), 2015-07, Vol.21 (7), p.1375-1389

2015

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Single-Cell Transcriptomic Analyses of Cell Fate Transitions during Human Cardiac Reprogramming

Cell stem cell, 2019-07, Vol.25 (1), p.149-164.e9

2019

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Single-Cell Multi-omic Integration Compares and Contrasts Features of Brain Cell Identity

UINMF performs mosaic integration of single-cell multi-omic datasets using nonnegative matrix factorization

MATCHER: manifold alignment reveals correspondence between single cell transcriptome and epigenome dynamics

MichiGAN: sampling from disentangled representations of single-cell data using generative adversarial networks

SLICER: inferring branched, nonlinear cellular trajectories from single cell RNA-seq data

A Wnt-mediated transformation of the bone marrow stromal cell identity orchestrates skeletal regeneration

Single-cell transcriptomics reconstructs fate conversion from fibroblast to cardiomyocyte

Bone marrow endosteal stem cells dictate active osteogenesis and aggressive tumorigenesis

Iterative single-cell multi-omic integration using online learning

SquiggleNet: real-time, direct classification of nanopore signals

Intercellular Interactions of an Adipogenic CXCL12‐Expressing Stromal Cell Subset in Murine Bone Marrow

The fate of early perichondrial cells in developing bones

TUT7 catalyzes the uridylation of the 3' end for rapid degradation of histone mRNA

HIV-1 Vpr combats the PU.1-driven antiviral response in primary human macrophages

A subset of replication-dependent histone mRNAs are expressed as polyadenylated RNAs in terminally differentiated tissues

Deep Sequencing Shows Multiple Oligouridylations Are Required for 3′ to 5′ Degradation of Histone mRNAs on Polyribosomes

Community-wide hackathons to identify central themes in single-cell multi-omics

PyLiger: scalable single-cell multi-omic data integration in Python

Author Correction: Community-wide hackathons to identify central themes in single-cell multi-omics

Single-Cell Transcriptomic Analysis Reveals Developmental Relationships and Specific Markers of Mouse Periodontium Cellular Subsets

Jointly defining cell types from multiple single-cell datasets using LIGER

PyLiger: scalable single-cell multi-omic data integration in Python

Multi-omic single-cell velocity models epigenome–transcriptome interactions and improves cell fate prediction

EnD-Seq and AppEnD: sequencing 3' ends to identify nontemplated tails and degradation intermediates

Single-Cell Transcriptomic Analyses of Cell Fate Transitions during Human Cardiac Reprogramming

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