Spatial Transcriptomics to define transcriptional patterns of zonation and structural components in the mouse liver
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DOI: 10.1038/s41467-021-27354-w
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- Sonya A. MacParland & Jeff C. Liu & Xue-Zhong Ma & Brendan T. Innes & Agata M. Bartczak & Blair K. Gage & Justin Manuel & Nicholas Khuu & Juan Echeverri & Ivan Linares & Rahul Gupta & Michael L. Cheng, 2018. "Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations," Nature Communications, Nature, vol. 9(1), pages 1-21, December.
- Keren Bahar Halpern & Rom Shenhav & Orit Matcovitch-Natan & Beáta Tóth & Doron Lemze & Matan Golan & Efi E. Massasa & Shaked Baydatch & Shanie Landen & Andreas E. Moor & Alexander Brandis & Amir Gilad, 2017. "Single-cell spatial reconstruction reveals global division of labour in the mammalian liver," Nature, Nature, vol. 542(7641), pages 352-356, February.
- Charlotte L. Scott & Fang Zheng & Patrick De Baetselier & Liesbet Martens & Yvan Saeys & Sofie De Prijck & Saskia Lippens & Chloé Abels & Steve Schoonooghe & Geert Raes & Nick Devoogdt & Bart N. Lambr, 2016. "Bone marrow-derived monocytes give rise to self-renewing and fully differentiated Kupffer cells," Nature Communications, Nature, vol. 7(1), pages 1-10, April.
- Nadim Aizarani & Antonio Saviano & Sagar & Laurent Mailly & Sarah Durand & Josip S. Herman & Patrick Pessaux & Thomas F. Baumert & Dominic Grün, 2019. "A human liver cell atlas reveals heterogeneity and epithelial progenitors," Nature, Nature, vol. 572(7768), pages 199-204, August.
- Keren Bahar Halpern & Rom Shenhav & Orit Matcovitch-Natan & Beáta Tóth & Doron Lemze & Matan Golan & Efi E. Massasa & Shaked Baydatch & Shanie Landen & Andreas E. Moor & Alexander Brandis & Amir Gilad, 2017. "Erratum: Single-cell spatial reconstruction reveals global division of labour in the mammalian liver," Nature, Nature, vol. 543(7647), pages 742-742, March.
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- Wei Liu & Xu Liao & Ziye Luo & Yi Yang & Mai Chan Lau & Yuling Jiao & Xingjie Shi & Weiwei Zhai & Hongkai Ji & Joe Yeong & Jin Liu, 2023. "Probabilistic embedding, clustering, and alignment for integrating spatial transcriptomics data with PRECAST," Nature Communications, Nature, vol. 14(1), pages 1-18, December.
- Tomaz Martini & Cédric Gobet & Andrea Salati & Jérôme Blanc & Aart Mookhoek & Michael Reinehr & Graham Knott & Jessica Sordet-Dessimoz & Felix Naef, 2024. "A sexually dimorphic hepatic cycle of periportal VLDL generation and subsequent pericentral VLDLR-mediated re-uptake," Nature Communications, Nature, vol. 15(1), pages 1-15, December.
- Franziska Hildebrandt & Miren Urrutia Iturritza & Christian Zwicker & Bavo Vanneste & Noémi Van Hul & Elisa Semle & Jaclyn Quin & Tales Pascini & Sami Saarenpää & Mengxiao He & Emma R. Andersson & Cha, 2024. "Host-pathogen interactions in the Plasmodium-infected mouse liver at spatial and single-cell resolution," Nature Communications, Nature, vol. 15(1), pages 1-17, December.
- Haoyang Li & Juexiao Zhou & Zhongxiao Li & Siyuan Chen & Xingyu Liao & Bin Zhang & Ruochi Zhang & Yu Wang & Shiwei Sun & Xin Gao, 2023. "A comprehensive benchmarking with practical guidelines for cellular deconvolution of spatial transcriptomics," Nature Communications, Nature, vol. 14(1), pages 1-10, December.
- Francesca Lazzeri-Barcelo & Nuria Oliva-Vilarnau & Marion Baniol & Barbara Leibiger & Olaf Bergmann & Volker M. Lauschke & Ingo B. Leibiger & Noah Moruzzi & Per-Olof Berggren, 2024. "Intraocular liver spheroids for non-invasive high-resolution in vivo monitoring of liver cell function," Nature Communications, Nature, vol. 15(1), pages 1-14, December.
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