DC3 is a method for deconvolution and coupled clustering from bulk and single-cell genomics data by Wanwen Zeng, Xi Chen, Zhana Duren, Yong Wang, Rui Jiang, Wing Hung Wong

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Anaerobic derivates of mitochondria and peroxisomes in the free-living amoeba Pelomyxa schiedti revealed by single-cell genomics by Kristína Záhonová, Sebastian Cristian Treitli, Tien Le, Ingrid Škodová-Sveráková, Pavla Hanousková, Ivan Čepička, Jan Tachezy, Vladimír Hampl

“…Conclusions This study revealed the presence and partially annotated the function of anaerobic derivates of mitochondria and peroxisomes in P. schiedti using single-cell genomics, localizations in yeast heterologous systems, and transmission electron microscopy. …”
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Single-Cell, Genome-wide Sequencing Identifies Clonal Somatic Copy-Number Variation in the Human Brain by Xuyu Cai, Gilad D. Evrony, Hillel S. Lehmann, Princess C. Elhosary, Bhaven K. Mehta, Annapurna Poduri, Christopher A. Walsh

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What's new is old: resolving the identity of Leptothrix ochracea using single cell genomics, pyrosequencing and FISH. by Emily J Fleming, Amy E Langdon, Manuel Martinez-Garcia, Ramunas Stepanauskas, Nicole J Poulton, E Dashiell P Masland, David Emerson

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Scarf enables a highly memory-efficient analysis of large-scale single-cell genomics data by Parashar Dhapola, Johan Rodhe, Rasmus Olofzon, Thomas Bonald, Eva Erlandsson, Shamit Soneji, Göran Karlsson

“…As the scale of single-cell genomics experiments grows into the millions, the computational requirements to process this data are beyond the reach of many. …”
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RDAClone: Deciphering Tumor Heterozygosity through Single-Cell Genomics Data Analysis with Robust Deep Autoencoder by Jie Xia, Lequn Wang, Guijun Zhang, Chunman Zuo, Luonan Chen

Subjects: “…single-cell genomics sequencing…”
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Author Correction: Clonal evolution of acute myeloid leukemia revealed by high-throughput single-cell genomics by Kiyomi Morita, Feng Wang, Katharina Jahn, Tianyuan Hu, Tomoyuki Tanaka, Yuya Sasaki, Jack Kuipers, Sanam Loghavi, Sa A. Wang, Yuanqing Yan, Ken Furudate, Jairo Matthews, Latasha Little, Curtis Gumbs, Jianhua Zhang, Xingzhi Song, Erika Thompson, Keyur P. Patel, Carlos E. Bueso-Ramos, Courtney D. DiNardo, Farhad Ravandi, Elias Jabbour, Michael Andreeff, Jorge Cortes, Kapil Bhalla, Guillermo Garcia-Manero, Hagop Kantarjian, Marina Konopleva, Daisuke Nakada, Nicholas Navin, Niko Beerenwinkel, P. Andrew Futreal, Koichi Takahashi

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Seeing the full picture of brain development: an interview with Aparna Bhaduri on single-cell genomics and developmental neuroscience

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Publisher Correction: Clonal evolution of acute myeloid leukemia revealed by high-throughput single-cell genomics by Kiyomi Morita, Feng Wang, Katharina Jahn, Tianyuan Hu, Tomoyuki Tanaka, Yuya Sasaki, Jack Kuipers, Sanam Loghavi, Sa A. Wang, Yuanqing Yan, Ken Furudate, Jairo Matthews, Latasha Little, Curtis Gumbs, Jianhua Zhang, Xingzhi Song, Erika Thompson, Keyur P. Patel, Carlos E. Bueso-Ramos, Courtney D. DiNardo, Farhad Ravandi, Elias Jabbour, Michael Andreeff, Jorge Cortes, Kapil Bhalla, Guillermo Garcia-Manero, Hagop Kantarjian, Marina Konopleva, Daisuke Nakada, Nicholas Navin, Niko Beerenwinkel, P. Andrew Futreal, Koichi Takahashi

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Optimal tuning of weighted kNN- and diffusion-based methods for denoising single cell genomics data. by Andreas Tjärnberg, Omar Mahmood, Christopher A Jackson, Giuseppe-Antonio Saldi, Kyunghyun Cho, Lionel A Christiaen, Richard A Bonneau

“…The analysis of single-cell genomics data presents several statistical challenges, and extensive efforts have been made to produce methods for the analysis of this data that impute missing values, address sampling issues and quantify and correct for noise. …”
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Novel insights into breast cancer copy number genetic heterogeneity revealed by single-cell genome sequencing by Timour Baslan, Jude Kendall, Konstantin Volyanskyy, Katherine McNamara, Hilary Cox, Sean D'Italia, Frank Ambrosio, Michael Riggs, Linda Rodgers, Anthony Leotta, Junyan Song, Yong Mao, Jie Wu, Ronak Shah, Rodrigo Gularte-Mérida, Kalyani Chadalavada, Gouri Nanjangud, Vinay Varadan, Assaf Gordon, Christina Curtis, Alex Krasnitz, Nevenka Dimitrova, Lyndsay Harris, Michael Wigler, James Hicks

“…Our data highlight the power of single-cell genomics in dissecting, in its many forms, intra-tumoral genetic heterogeneity of CNAs, the magnitude with which CNA heterogeneity affects the genomes of breast cancers, and the potential importance of CNA heterogeneity in phenomena such as therapeutic resistance and disease relapse.…”
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Uncultured prokaryotic genomes in the spotlight: An examination of publicly available data from metagenomics and single-cell genomics by Koji Arikawa, Masahito Hosokawa

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A single cell genomics atlas of the Drosophila larval eye reveals distinct photoreceptor developmental timelines by Komal Kumar Bollepogu Raja, Kelvin Yeung, Yoon-Kyung Shim, Yumei Li, Rui Chen, Graeme Mardon

“…However, a high-resolution single cell genomics resource that accurately profiles all major cell types of the larval eye disc and their spatiotemporal relationships is lacking. …”
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Population-level single-cell genomics reveals conserved gene programs in systemic juvenile idiopathic arthritis by Emely L. Verweyen, Kairavee Thakkar, Sanjeev Dhakal, Elizabeth Baker, Kashish Chetal, Daniel Schnell, Scott Canna, Alexei A. Grom, Nathan Salomonis, Grant S. Schulert

“…While current single-cell genomics methods provide insights into known disease subtypes, these analysis methods do not readily reveal novel cell-type perturbation programs shared among distinct patient subsets. …”
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Characterizing chromatin landscape from aggregate and single-cell genomic assays using flexible duration modeling by Mariano I. Gabitto, Anders Rasmussen, Orly Wapinski, Kathryn Allaway, Nicholas Carriero, Gordon J. Fishell, Richard Bonneau

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Application of the single cell genomics in deciphering tumor heterogeneity and its role in tumor progression and drug resistance by Marjanovic, Nemanja.

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Single-cell genomics based on Raman sorting reveals novel carotenoid-containing bacteria in the Red Sea. by Song, Y, Kaster, A, Vollmers, J, Song, Y, Davison, P, Frentrup, M, Preston, G, Thompson, I, Murrell, J, Yin, H, Hunter, C, Huang, W

“…Cell sorting coupled with single-cell genomics is a powerful tool to circumvent cultivation of microorganisms and reveal microbial ‘dark matter’. …”

Single-cell genomics based on Raman sorting reveals novel carotenoid-containing bacteria in the Red Sea by Song, Y, Kaster, A, Vollmers, J, Song, Y, Davison, P, Frentrup, M, Preston, G, Thompson, I, Murrell, J, Yin, H, Hunter, C, Huang, W

“…Cell sorting coupled with single-cell genomics is a powerful tool to circumvent cultivation of microorganisms and reveal microbial ‘dark matter’. …”

It is time for a new type of type to facilitate naming the microbial world by M. Palmer, I. Sutcliffe, S.N. Venter, B.P. Hedlund

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Single cell characterization of B-lymphoid differentiation and leukemic cell states during chemotherapy in ETV6-RUNX1-positive pediatric leukemia identifies drug-targetable transcr... by Juha Mehtonen, Susanna Teppo, Mari Lahnalampi, Aleksi Kokko, Riina Kaukonen, Laura Oksa, Maria Bouvy-Liivrand, Alena Malyukova, Artturi Mäkinen, Saara Laukkanen, Petri I. Mäkinen, Samuli Rounioja, Pekka Ruusuvuori, Olle Sangfelt, Riikka Lund, Tapio Lönnberg, Olli Lohi, Merja Heinäniemi

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