Inferring cellular trajectories from scRNA-seq using Pseudocell Tracer
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Derek Reiman | Aly A. Khan | Heping Xu | Andrew Sonin | Dianyu Chen | Harinder Singh | Aly A. Khan | Harinder Singh | Derek Reiman | Heping Xu | Dianyu Chen | A. Sonin
[1] Nir Hacohen,et al. Defining Inflammatory Cell States in Rheumatoid Arthritis Joint Synovial Tissues by Integrating Single-cell Transcriptomics and Mass Cytometry , 2018, bioRxiv.
[2] Hannah A. Pliner,et al. Reversed graph embedding resolves complex single-cell trajectories , 2017, Nature Methods.
[3] T. Kallonen,et al. Bach2 regulates AID‐mediated immunoglobulin gene conversion and somatic hypermutation in DT40 B cells , 2017, European journal of immunology.
[4] J. Marioni,et al. Pooling across cells to normalize single-cell RNA sequencing data with many zero counts , 2016, Genome Biology.
[5] Bruce J. Aronow,et al. Single-cell analysis of mixed-lineage states leading to a binary cell fate choice , 2016, Nature.
[6] Xiang Zhou,et al. Accuracy, robustness and scalability of dimensionality reduction methods for single-cell RNA-seq analysis , 2019, Genome Biology.
[7] M. Lenzen,et al. Scientists’ warning on affluence , 2020, Nature Communications.
[8] Fabian J Theis,et al. Single-cell RNA-seq denoising using a deep count autoencoder , 2019, Nature Communications.
[9] James T. Webber,et al. Single-cell transcriptomics of 20 mouse organs creates a Tabula Muris , 2018, Nature.
[10] N. Yamaguchi,et al. Interleukin-5 induces maturation but not class switching of surface IgA-positive B cells into IgA-secreting cells. , 1989, Immunology.
[11] P. Isakson,et al. Interleukin 5 (IL-5) provides a signal that is required in addition to IL-4 for isotype switching to immunoglobulin (Ig) G1 and IgE , 1992, The Journal of experimental medicine.
[12] Xi Chen,et al. Single-cell RNA-seq identifies a PD-1hi ILC progenitor and defines its development pathway , 2016, Nature.
[13] Fabian J Theis,et al. The Human Cell Atlas , 2017, bioRxiv.
[14] G. Kelsoe,et al. In situ studies of the primary immune response to (4-hydroxy-3- nitrophenyl)acetyl. III. The kinetics of V region mutation and selection in germinal center B cells , 1993, The Journal of experimental medicine.
[15] Nicholas M. Luscombe,et al. Generative adversarial networks simulate gene expression and predict perturbations in single cells , 2018, bioRxiv.
[16] Yvan Saeys,et al. A comparison of single-cell trajectory inference methods , 2019, Nature Biotechnology.
[17] Laleh Haghverdi,et al. Batch effects in single-cell RNA-sequencing data are corrected by matching mutual nearest neighbors , 2018, Nature Biotechnology.
[18] J. Moore,et al. Human B cells express IL-5 receptor messenger ribonucleic acid and respond to IL-5 with enhanced IgM production after mitogenic stimulation with Moraxella catarrhalis. , 1996, Journal of immunology.
[19] Nicholas M. Luscombe,et al. Generative adversarial networks simulate gene expression and predict perturbations in single cells , 2018, bioRxiv.
[20] F. Alt,et al. Mechanism and control of class-switch recombination. , 2002, Trends in immunology.
[21] Thomas M. Norman,et al. Perturb-Seq: Dissecting Molecular Circuits with Scalable Single-Cell RNA Profiling of Pooled Genetic Screens , 2016, Cell.
[22] John T. Chang,et al. Early transcriptional and epigenetic regulation of CD 8 + T cell differentiation revealed by single-cell RNA sequencing , 2017 .
[23] Principal Investigators,et al. Single-cell transcriptomics of 20 mouse organs creates a Tabula Muris , 2018 .
[24] Cole Trapnell,et al. The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells , 2014, Nature Biotechnology.
[25] P. Pandolfi,et al. Transcriptional Repression of Stat6-Dependent Interleukin-4-Induced Genes by BCL-6: Specific Regulation of Iɛ Transcription and Immunoglobulin E Switching , 1999, Molecular and Cellular Biology.
[26] Kyoko Ochiai,et al. Orchestration of plasma cell differentiation by Bach2 and its gene regulatory network , 2014, Immunological reviews.
[27] Sarah A Teichmann,et al. Antibody repertoire and gene expression dynamics of diverse human B cell states during affinity maturation , 2020, bioRxiv.
[28] Joseph T. Roland,et al. Unsupervised Trajectory Analysis of Single-Cell RNA-Seq and Imaging Data Reveals Alternative Tuft Cell Origins in the Gut. , 2017, Cell systems.
[29] Boxi Kang,et al. Landscape of Infiltrating T Cells in Liver Cancer Revealed by Single-Cell Sequencing , 2017, Cell.
[30] Karlynn E. Neu,et al. Single-Cell Genomics: Approaches and Utility in Immunology. , 2017, Trends in immunology.
[31] Mario Cortese,et al. Spec-seq unveils transcriptional subpopulations of antibody-secreting cells following influenza vaccination , 2018, The Journal of clinical investigation.
[32] Pierre Machart,et al. Realistic in silico generation and augmentation of single-cell RNA-seq data using generative adversarial networks , 2020, Nature Communications.
[33] C. E. Schrader,et al. Mechanism and regulation of class switch recombination. , 2008, Annual review of immunology.
[34] H. Nakamura,et al. Junctional amino acids determine the maturation pathway of an antibody. , 1999, Immunity.
[35] David Baltimore,et al. Targeted disruption of the p50 subunit of NF-κB leads to multifocal defects in immune responses , 1995, Cell.
[36] Yoshua Bengio,et al. Generative Adversarial Nets , 2014, NIPS.
[37] Michael Meyer-Hermann,et al. Class-Switch Recombination Occurs Infrequently in Germinal Centers. , 2019, Immunity.
[38] L. McHeyzer-Williams,et al. Programming Isotype-Specific Plasma Cell Function. , 2019, Trends in immunology.
[39] J. Yata,et al. Regulation of human IgG subclass production by cytokines. IFN-gamma and IL-6 act antagonistically in the induction of human IgG1 but additively in the induction of IgG2. , 1994, Journal of immunology.
[40] Russell B. Fletcher,et al. Slingshot: cell lineage and pseudotime inference for single-cell transcriptomics , 2017, BMC Genomics.
[41] M. Oosting,et al. Predicting bacterial infection outcomes using single cell RNA-sequencing analysis of human immune cells , 2019, Nature Communications.
[42] S. Phinn,et al. Australian vegetated coastal ecosystems as global hotspots for climate change mitigation , 2019, Nature Communications.
[43] Fabian J Theis,et al. PAGA: graph abstraction reconciles clustering with trajectory inference through a topology preserving map of single cells , 2019, Genome Biology.