TruePrime is a novel method for whole-genome amplification from single cells based on TthPrimPol by Ángel J. Picher, Bettina Budeus, Oliver Wafzig, Carola Krüger, Sara García-Gómez, María I. Martínez-Jiménez, Alberto Díaz-Talavera, Daniela Weber, Luis Blanco, Armin Schneider

“…Single cell genomic analysis needs DNA amplification with high fidelity and accuracy. …”
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UINMF performs mosaic integration of single-cell multi-omic datasets using nonnegative matrix factorization by April R. Kriebel, Joshua D. Welch

“…Single-cell genomic technologies present unique data integration challenges. …”
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Phylogenomics of a new fungal phylum reveals multiple waves of reductive evolution across Holomycota by Luis Javier Galindo, Purificación López-García, Guifré Torruella, Sergey Karpov, David Moreira

“…Here, Galindo et al. sequence single-cell genomes for two atypical parasitic fungi with amoeboid zoospores, and re-evaluate the branching order of early-diverging fungi and the evolution of fungal multicellularity and flagellum-mediated motility.…”
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Calibrating genomic and allelic coverage bias in single-cell sequencing by Zhang, Cheng-Zhong, Francis, Joshua, Cornils, Hauke, Jung, Joonil, Maire, Cecile, Ligon, Keith L., Meyerson, Matthew, Adalsteinsson, Viktor A., Love, John C

“…Artifacts introduced in whole-genome amplification (WGA) make it difficult to derive accurate genomic information from single-cell genomes and require different analytical strategies from bulk genome analysis. …”
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SCSilicon: a tool for synthetic single-cell DNA sequencing data generation by Xikang Feng, Lingxi Chen

“…The performance of computational tools that tackle single-cell genome aberrations may be nevertheless undervalued or overvalued, owing to the insufficient size of benchmarking data. …”
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Single-Circulating Tumor Cell Whole Genome Amplification to Unravel Cancer Heterogeneity and Actionable Biomarkers by Tanzila Khan, Therese M. Becker, Joseph W. Po, Wei Chua, Yafeng Ma

“…However, single-CTC analysis is restricted by the low amounts of DNA in a single cell genome. Whole genome amplification (WGA) techniques have emerged as a key step, enabling single-cell downstream molecular analysis. …”
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Massively parallel whole genome amplification for single-cell sequencing using droplet microfluidics by Masahito Hosokawa, Yohei Nishikawa, Masato Kogawa, Haruko Takeyama

“…Abstract Massively parallel single-cell genome sequencing is required to further understand genetic diversities in complex biological systems. …”
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Myeloid Cell Classification and Therapeutic Opportunities Within the Glioblastoma Tumor Microenvironment in the Single Cell-Omics Era by Collin J. Larkin, Víctor A. Arrieta, Víctor A. Arrieta, Víctor A. Arrieta, Hinda Najem, Hinda Najem, Gongbo Li, Gongbo Li, Peng Zhang, Peng Zhang, Jason Miska, Jason Miska, Peiwen Chen, Peiwen Chen, Charles David James, Charles David James, Adam M. Sonabend, Adam M. Sonabend, Amy B. Heimberger, Amy B. Heimberger

“…Single cell analysis techniques such as single cell genomic and transcriptomic sequencing analysis are on the rise and play an important role in elucidating the glioma TME. …”
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Single-cell multi-omics and lineage tracing to dissect cell fate decision-making by Laleh Haghverdi, Leif S. Ludwig

“…Recent insights obtained from single-cell genomic and integrative lineage-tracing approaches have further aided to identify molecular features predictive of cell fate. …”
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Understanding tumor ecosystems by single-cell sequencing: promises and limitations by Xianwen Ren, Boxi Kang, Zemin Zhang

“…The advent of rapidly developing single-cell sequencing technologies, which include methods related to single-cell genome, epigenome, transcriptome, and multi-omics sequencing, have been applied to cancer research and led to exciting new findings in the fields of cancer evolution, metastasis, resistance to therapy, and tumor microenvironment. …”
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Applications and Achievements of Single-Cell Sequencing in Gastrointestinal Cancer by Zhenliang Xie, Jincheng Li, Pu Huang, Ye Zhang, Jingkuan Yang, Kangdong Liu, Kangdong Liu, Kangdong Liu, Kangdong Liu, Kangdong Liu, Kangdong Liu, Yanan Jiang, Yanan Jiang, Yanan Jiang

“…SCS is a powerful tool for deciphering the single-cell resolutions of cellular and molecular landscapes, revealing the features of single-cell genomes, transcriptomes, and epigenomes. Recently, SCS has been applied in the field of gastrointestinal cancer research for clarifying the origin and heterogeneity of gastrointestinal cancer, acquiring micro-environmental information, and improving diagnostic and treatment methods. …”
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Mechanisms Generating Cancer Genome Complexity: Back to the Future by Franck Toledo

“…A recent study combining live cell imaging and single-cell genome sequencing suggested that interwoven chromosome breakage-fusion-bridge cycles, micronucleation events and chromothripsis episodes drive cancer genome evolution. …”
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scAbsolute: measuring single-cell ploidy and replication status by Michael P. Schneider, Amy E. Cullen, Justina Pangonyte, Jason Skelton, Harvey Major, Elke Van Oudenhove, Maria J. Garcia, Blas Chaves Urbano, Anna M. Piskorz, James D. Brenton, Geoff Macintyre, Florian Markowetz

“…Correct estimation of the ploidy of single-cell genomes is paramount for downstream analysis. …”
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Single-cell protein-DNA interactomics and multiomics tools for deciphering genome regulation by Xiong Haiqing, Wang Runyu, He Aibin

“…<p indent="0mm">The emergence of single-cell genomic and transcriptomic sequencing accelerates the development of single-cell epigenomic technologies, providing an unprecedented opportunity for decoding cell fate decisions largely encoded in the epigenome. …”
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Computational Methods for Single-cell Multi-omics Integration and Alignment by Stefan Stanojevic, Yijun Li, Aleksandar Ristivojevic, Lana X. Garmire

“…Recently developed technologies to generate single-cell genomic data have made a revolutionary impact in the field of biology. …”
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Whole genome strategies and bioremediation insight into dehalogenase-producing bacteria by Oyewusi, H. A., Wahab, R. A., Huyop, F.

“…WGS of culturable microbes, amplicon sequencing, metagenomics, and single-cell genome analysis are selective techniques integrating genetic information and biochemical mechanisms. …”

Circulating tumor cell heterogeneity in neuroendocrine prostate cancer by single cell copy number analysis by Vincenza Conteduca, Sheng-Yu Ku, Luisa Fernandez, Angel Dago-Rodriquez, Jerry Lee, Adam Jendrisak, Megan Slade, Cole Gilbertson, Jyothi Manohar, Michael Sigouros, Yipeng Wang, Ryan Dittamore, Rick Wenstrup, Juan Miguel Mosquera, Joseph D. Schonhoft, Himisha Beltran

“…We further demonstrate how single-cell genomic analysis of circulating tumor cells combined with a phenotypic evaluation of cellular diversity can be considered as a window into tumor heterogeneity in patients with advanced prostate cancer.…”
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The Bright and Dark Side of DNA Methylation: A Matter of Balance by Marta Borchiellini, Simone Ummarino, Annalisa Di Ruscio

“…Overall, we review the bright (health-related) and dark (disease-related) side of DNA methylation changes, outlining how bulk and single-cell genomic analyses are moving toward the identification of new molecular targets and driving the development of more specific and less toxic demethylating agents.…”
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Exploring DNA quality of single cells for genome analysis with simultaneous whole-genome amplification by Christiane Bäumer, Evelyn Fisch, Holger Wedler, Frank Reinecke, Christian Korfhage

“…Abstract Single cell genome analysis methods are powerful tools to define features of single cells and to identify differences between them. …”
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Integration of single-cell multi-omics for gene regulatory network inference by Xinlin Hu, Yaohua Hu, Fanjie Wu, Ricky Wai Tak Leung, Jing Qin

“…In this review, we introduce technologies for sequencing single-cell genome, transcriptome, and epigenome. At the same time, we present an overview of current GRN reconstruction strategies utilizing different single-cell sequencing data. …”
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