Overview of single‐cell RNA sequencing analysis and its application to spermatogenesis research
出版年份 2023 全文链接
标题
Overview of single‐cell RNA sequencing analysis and its application to spermatogenesis research
作者
关键词
-
出版物
Reproductive Medicine and Biology
Volume 22, Issue 1, Pages -
出版商
Wiley
发表日期
2023-01-29
DOI
10.1002/rmb2.12502
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。- Fast and highly sensitive full-length single-cell RNA sequencing using FLASH-seq
- (2022) Vincent Hahaut et al. NATURE BIOTECHNOLOGY
- Origin, specification and differentiation of a rare supporting-like lineage in the developing mouse gonad
- (2022) Chloé Mayère et al. Science Advances
- Single-cell analysis of the developing human testis reveals somatic niche cell specification and fetal germline stem cell establishment
- (2021) Jingtao Guo et al. Cell Stem Cell
- Direct Comparative Analyses of 10X Genomics Chromium and Smart-seq2
- (2021) Xiliang Wang et al. GENOMICS PROTEOMICS & BIOINFORMATICS
- Two distinct Sertoli cell states are regulated via germ cell crosstalk
- (2021) Rachel L Gewiss et al. BIOLOGY OF REPRODUCTION
- Integrated analysis of multimodal single-cell data
- (2021) Yuhan Hao et al. CELL
- scDeepSort: a pre-trained cell-type annotation method for single-cell transcriptomics using deep learning with a weighted graph neural network
- (2021) Xin Shao et al. NUCLEIC ACIDS RESEARCH
- scMRA: a robust deep learning method to annotate scRNA-seq data with multiple reference datasets
- (2021) Musu Yuan et al. BIOINFORMATICS
- Cell-fate transition and determination analysis of mouse male germ cells throughout development
- (2021) Jiexiang Zhao et al. Nature Communications
- Confronting false discoveries in single-cell differential expression
- (2021) Jordan W. Squair et al. Nature Communications
- Dissecting mammalian spermatogenesis using spatial transcriptomics
- (2021) Haiqi Chen et al. Cell Reports
- The Dynamic Transcriptional Cell Atlas of Testis Development during Human Puberty
- (2020) Jingtao Guo et al. Cell Stem Cell
- Single-cell RNAseq analysis of testicular germ and somatic cell development during the perinatal period
- (2020) Kun Tan et al. DEVELOPMENT
- CellPhoneDB: inferring cell–cell communication from combined expression of multi-subunit ligand–receptor complexes
- (2020) Mirjana Efremova et al. Nature Protocols
- Single-cell RNA counting at allele and isoform resolution using Smart-seq3
- (2020) Michael Hagemann-Jensen et al. NATURE BIOTECHNOLOGY
- Benchmarking single-cell RNA-sequencing protocols for cell atlas projects
- (2020) Elisabetta Mereu et al. NATURE BIOTECHNOLOGY
- Generalizing RNA velocity to transient cell states through dynamical modeling
- (2020) Volker Bergen et al. NATURE BIOTECHNOLOGY
- Single-cell multiomics: technologies and data analysis methods
- (2020) Jeongwoo Lee et al. EXPERIMENTAL AND MOLECULAR MEDICINE
- Generation, localization and functions of macrophages during the development of testis
- (2020) Emmi Lokka et al. Nature Communications
- Challenges in unsupervised clustering of single-cell RNA-seq data
- (2019) Vladimir Yu Kiselev et al. NATURE REVIEWS GENETICS
- Dynamic transcriptome profiles within spermatogonial and spermatocyte populations during postnatal testis maturation revealed by single-cell sequencing
- (2019) Kathryn J. Grive et al. PLoS Genetics
- The Neonatal and Adult Human Testis Defined at the Single-Cell Level
- (2019) Abhishek Sohni et al. Cell Reports
- The single-cell transcriptional landscape of mammalian organogenesis
- (2019) Junyue Cao et al. NATURE
- scMatch: a single-cell gene expression profile annotation tool using reference datasets
- (2019) Rui Hou et al. BIOINFORMATICS
- A comparison of single-cell trajectory inference methods
- (2019) Wouter Saelens et al. NATURE BIOTECHNOLOGY
- Spatial transcriptomics coming of age
- (2019) Darren J. Burgess NATURE REVIEWS GENETICS
- ACTINN: Automated Identification of Cell Types in Single Cell RNA Sequencing
- (2019) Feiyang Ma et al. BIOINFORMATICS
- Comprehensive Integration of Single-Cell Data
- (2019) Tim Stuart et al. CELL
- Gene-expression profiling of single cells from archival tissue with laser-capture microdissection and Smart-3SEQ
- (2019) Joseph W Foley et al. GENOME RESEARCH
- Does co-transplantation of mesenchymal and spermatogonial stem cells improve reproductive efficiency and safety in mice?
- (2019) Prashant Kadam et al. Stem Cell Research & Therapy
- Slingshot: cell lineage and pseudotime inference for single-cell transcriptomics
- (2018) Kelly Street et al. BMC GENOMICS
- Integrating single-cell transcriptomic data across different conditions, technologies, and species
- (2018) Andrew Butler et al. NATURE BIOTECHNOLOGY
- Spermatogonial stem cells and spermatogenesis in mice, monkeys and men
- (2018) Adetunji P. Fayomi et al. Stem Cell Research
- Single-cell full-length total RNA sequencing uncovers dynamics of recursive splicing and enhancer RNAs
- (2018) Tetsutaro Hayashi et al. Nature Communications
- Uncovering pseudotemporal trajectories with covariates from single cell and bulk expression data
- (2018) Kieran R Campbell et al. Nature Communications
- Sensitive and powerful single-cell RNA sequencing using mcSCRB-seq
- (2018) Johannes W. Bagnoli et al. Nature Communications
- Characterization of germ cell differentiation in the male mouse through single-cell RNA sequencing
- (2018) S. Lukassen et al. Scientific Reports
- Deciphering Cell Lineage Specification during Male Sex Determination with Single-Cell RNA Sequencing
- (2018) Isabelle Stévant et al. Cell Reports
- Single-cell RNA-seq uncovers dynamic processes and critical regulators in mouse spermatogenesis
- (2018) Yao Chen et al. CELL RESEARCH
- Single-Cell RNA Sequencing Analysis Reveals Sequential Cell Fate Transition during Human Spermatogenesis
- (2018) Mei Wang et al. Cell Stem Cell
- A Comprehensive Roadmap of Murine Spermatogenesis Defined by Single-Cell RNA-Seq
- (2018) Christopher Daniel Green et al. DEVELOPMENTAL CELL
- RNA velocity of single cells
- (2018) Gioele La Manno et al. NATURE
- The adult human testis transcriptional cell atlas
- (2018) Jingtao Guo et al. CELL RESEARCH
- Dimensionality reduction for visualizing single-cell data using UMAP
- (2018) Etienne Becht et al. NATURE BIOTECHNOLOGY
- The Mammalian Spermatogenesis Single-Cell Transcriptome, from Spermatogonial Stem Cells to Spermatids
- (2018) Brian P. Hermann et al. Cell Reports
- Delineating biological and technical variance in single cell expression data
- (2017) Ángeles Arzalluz-Luque et al. INTERNATIONAL JOURNAL OF BIOCHEMISTRY & CELL BIOLOGY
- Comparative Analysis of Single-Cell RNA Sequencing Methods
- (2017) Christoph Ziegenhain et al. MOLECULAR CELL
- Multiplexed quantification of proteins and transcripts in single cells
- (2017) Vanessa M Peterson et al. NATURE BIOTECHNOLOGY
- Simultaneous epitope and transcriptome measurement in single cells
- (2017) Marlon Stoeckius et al. NATURE METHODS
- Reversed graph embedding resolves complex single-cell trajectories
- (2017) Xiaojie Qiu et al. NATURE METHODS
- SC3: consensus clustering of single-cell RNA-seq data
- (2017) Vladimir Yu Kiselev et al. NATURE METHODS
- Periodic production of retinoic acid by meiotic and somatic cells coordinates four transitions in mouse spermatogenesis
- (2017) Tsutomu Endo et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Activins in reproductive biology and beyond
- (2016) R. Wijayarathna et al. HUMAN REPRODUCTION UPDATE
- Lessons from non-canonical splicing
- (2016) Christopher R. Sibley et al. NATURE REVIEWS GENETICS
- TSCAN: Pseudo-time reconstruction and evaluation in single-cell RNA-seq analysis
- (2016) Zhicheng Ji et al. NUCLEIC ACIDS RESEARCH
- Spermatogenesis: The Commitment to Meiosis
- (2016) Michael D. Griswold PHYSIOLOGICAL REVIEWS
- Targeting theGdnfGene in peritubular myoid cells disrupts undifferentiated spermatogonial cell development
- (2016) Liang-Yu Chen et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Meiotic Silencing in Mammals
- (2015) James M.A. Turner Annual Review of Genetics
- Transcriptional and Translational Heterogeneity among Neonatal Mouse Spermatogonia1
- (2015) Brian P. Hermann et al. BIOLOGY OF REPRODUCTION
- The Transcriptome and DNA Methylome Landscapes of Human Primordial Germ Cells
- (2015) Fan Guo et al. CELL
- Droplet Barcoding for Single-Cell Transcriptomics Applied to Embryonic Stem Cells
- (2015) Allon M. Klein et al. CELL
- Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets
- (2015) Evan Z. Macosko et al. CELL
- Genetic ablation of androgen receptor signaling in fetal Leydig cell lineage affects Leydig cell functions in adult testis
- (2015) Elena M. Kaftanovskaya et al. FASEB JOURNAL
- Fetal Leydig Cells Persist as an Androgen-Independent Subpopulation in the Postnatal Testis
- (2015) Yuichi Shima et al. MOLECULAR ENDOCRINOLOGY
- Single-cell messenger RNA sequencing reveals rare intestinal cell types
- (2015) Dominic Grün et al. NATURE
- Spatial reconstruction of single-cell gene expression data
- (2015) Rahul Satija et al. NATURE BIOTECHNOLOGY
- IGF-1R Signaling Is Essential for the Proliferation of Cultured Mouse Spermatogonial Stem Cells by Promoting the G2/M Progression of the Cell Cycle
- (2015) Si Wang et al. STEM CELLS AND DEVELOPMENT
- Macrophages Contribute to the Spermatogonial Niche in the Adult Testis
- (2015) Tony DeFalco et al. Cell Reports
- Peritubular Myoid Cells Participate in Male Mouse Spermatogonial Stem Cell Maintenance
- (2014) Liang-Yu Chen et al. ENDOCRINOLOGY
- Functional and molecular features of the Id4+ germline stem cell population in mouse testes
- (2014) F. Chan et al. GENES & DEVELOPMENT
- PAX7 expression defines germline stem cells in the adult testis
- (2014) Gina M. Aloisio et al. JOURNAL OF CLINICAL INVESTIGATION
- The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells
- (2014) Cole Trapnell et al. NATURE BIOTECHNOLOGY
- Full-length RNA-seq from single cells using Smart-seq2
- (2014) Simone Picelli et al. Nature Protocols
- Single-cell RNA-seq: advances and future challenges
- (2014) Antoine-Emmanuel Saliba et al. NUCLEIC ACIDS RESEARCH
- The regulation of spermatogenesis by androgens
- (2014) Lee B. Smith et al. SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY
- Bmi1 expression in long-term germ stem cells
- (2014) Yoshihiro Komai et al. Scientific Reports
- Toward a More Precise and Informative Nomenclature Describing Fetal and Neonatal Male Germ Cells in Rodents1
- (2013) John R. McCarrey BIOLOGY OF REPRODUCTION
- NOTCH signaling in Sertoli cells regulates gonocyte fate
- (2013) Thomas Xavier Garcia et al. CELL CYCLE
- Constitutive activation of NOTCH1 signaling in Sertoli cells causes gonocyte exit from quiescence
- (2013) Thomas Xavier Garcia et al. DEVELOPMENTAL BIOLOGY
- Quantitative single-cell RNA-seq with unique molecular identifiers
- (2013) Saiful Islam et al. NATURE METHODS
- Smart-seq2 for sensitive full-length transcriptome profiling in single cells
- (2013) Simone Picelli et al. NATURE METHODS
- Gata4 Is Required for Formation of the Genital Ridge in Mice
- (2013) Yueh-Chiang Hu et al. PLoS Genetics
- Retinoic acid signaling in Sertoli cells regulates organization of the blood-testis barrier through cyclical changes in gene expression
- (2012) K. Hasegawa et al. DEVELOPMENT
- Activin Signaling Regulates Sertoli Cell Differentiation and Function
- (2012) Peter K. Nicholls et al. ENDOCRINOLOGY
- Full-length mRNA-Seq from single-cell levels of RNA and individual circulating tumor cells
- (2012) Daniel Ramsköld et al. NATURE BIOTECHNOLOGY
- Inhibitor of DNA Binding 4 Is Expressed Selectively by Single Spermatogonia in the Male Germline and Regulates the Self-Renewal of Spermatogonial Stem Cells in Mice1
- (2011) Melissa J. Oatley et al. BIOLOGY OF REPRODUCTION
- Unstable Side Population Phenotype of Mouse Spermatogonial Stem Cells In Vitro
- (2011) Takashi SHINOHARA et al. JOURNAL OF REPRODUCTION AND DEVELOPMENT
- Counting absolute numbers of molecules using unique molecular identifiers
- (2011) Teemu Kivioja et al. NATURE METHODS
- Activin A Balances Sertoli and Germ Cell Proliferation in the Fetal Mouse Testis
- (2010) S. H. S. Mendis et al. BIOLOGY OF REPRODUCTION
- Sprouty1 Regulates Reversible Quiescence of a Self-Renewing Adult Muscle Stem Cell Pool during Regeneration
- (2010) Kelly L. Shea et al. Cell Stem Cell
- Glial cell line-derived neurotrophic factor is constitutively produced by human testicular peritubular cells and may contribute to the spermatogonial stem cell niche in man
- (2010) K. Spinnler et al. HUMAN REPRODUCTION
- Spermatogonial stem cell regulation and spermatogenesis
- (2010) B. T. Phillips et al. PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
- The pluripotency factor LIN28 marks undifferentiated spermatogonia in mouse
- (2009) Ke Zheng et al. BMC DEVELOPMENTAL BIOLOGY
- Colony stimulating factor 1 is an extrinsic stimulator of mouse spermatogonial stem cell self-renewal
- (2009) J. M. Oatley et al. DEVELOPMENT
- The heterogeneity of spermatogonia is revealed by their topology and expression of marker proteins including the germ cell-specific proteins Nanos2 and Nanos3
- (2009) Hitomi Suzuki et al. DEVELOPMENTAL BIOLOGY
- Pluripotency of mouse spermatogonial stem cells maintained by IGF-1- dependent pathway
- (2009) Yen-Hua Huang et al. FASEB JOURNAL
- Cyclin D2 Is Critical for Intermediate Progenitor Cell Proliferation in the Embryonic Cortex
- (2009) S. B. Glickstein et al. JOURNAL OF NEUROSCIENCE
- Casting back to stem cells
- (2009) Shosei Yoshida NATURE CELL BIOLOGY
- Mechanisms guiding primordial germ cell migration: strategies from different organisms
- (2009) Brian E. Richardson et al. NATURE REVIEWS MOLECULAR CELL BIOLOGY
- Phenotypic Plasticity of Mouse Spermatogonial Stem Cells
- (2009) Hiroko Morimoto et al. PLoS One
- Fetal Leydig Cell Origin and Development
- (2009) S.L. Griswold et al. Sexual Development
- Identification of Spermatogonial Stem Cell Subsets by Morphological Analysis and Prospective Isolation
- (2009) Laura Grisanti et al. STEM CELLS
- Platelet-Derived Growth Factor Receptor β-Subtype Regulates Proliferation and Migration of Gonocytes
- (2008) Sabrina Basciani et al. ENDOCRINOLOGY
- Mouse differentiating spermatogonia can generate germinal stem cells in vivo
- (2008) Vilma Barroca et al. NATURE CELL BIOLOGY
- The mouse X chromosome is enriched for multicopy testis genes showing postmeiotic expression
- (2008) Jacob L Mueller et al. NATURE GENETICS
- Stage-specific gene expression is a fundamental characteristic of rat spermatogenic cells and Sertoli cells
- (2008) D. S. Johnston et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Peritubular Myoid Cells Are Not the Migrating Population Required for Testis Cord Formation in the XY Gonad
- (2008) J. Cool et al. Sexual Development
Discover Peeref hubs
Discuss science. Find collaborators. Network.
Join a conversationPublish scientific posters with Peeref
Peeref publishes scientific posters from all research disciplines. Our Diamond Open Access policy means free access to content and no publication fees for authors.
Learn More