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A single-cell molecular map of mouse gastrulation and early organogenesis
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- Karin D. Prummel & Helena L. Crowell & Susan Nieuwenhuize & Eline C. Brombacher & Stephan Daetwyler & Charlotte Soneson & Jelena Kresoja-Rakic & Agnese Kocere & Manuel Ronner & Alexander Ernst & Zahra, 2022. "Hand2 delineates mesothelium progenitors and is reactivated in mesothelioma," Nature Communications, Nature, vol. 13(1), pages 1-21, December.
- Akram A. Hamed & Daniel J. Kunz & Ibrahim El-Hamamy & Quang M. Trinh & Omar D. Subedar & Laura M. Richards & Warren Foltz & Garrett Bullivant & Matthaeus Ware & Maria C. Vladoiu & Jiao Zhang & Antony , 2022. "A brain precursor atlas reveals the acquisition of developmental-like states in adult cerebral tumours," Nature Communications, Nature, vol. 13(1), pages 1-15, December.
- Jin Ming & Lihui Lin & Jiajun Li & Linlin Wu & Shicai Fang & Tao Huang & Yu Fu & Dong Liu & Wenhui Zhang & Chen Li & Yongzheng Yang & Yi Huang & Yue Qin & Junqi Kuang & Xingnan Huang & Liman Guo & Xia, 2024. "Cell fate decision by a morphogen-transcription factor-chromatin modifier axis," Nature Communications, Nature, vol. 15(1), pages 1-13, December.
- Francisco X. Galdos & Sidra Xu & William R. Goodyer & Lauren Duan & Yuhsin V. Huang & Soah Lee & Han Zhu & Carissa Lee & Nicholas Wei & Daniel Lee & Sean M. Wu, 2022. "devCellPy is a machine learning-enabled pipeline for automated annotation of complex multilayered single-cell transcriptomic data," Nature Communications, Nature, vol. 13(1), pages 1-20, December.
- Brian DeVeale & Leqian Liu & Ryan Boileau & Jennifer Swindlehurst-Chan & Bryan Marsh & Jacob W. Freimer & Adam Abate & Robert Blelloch, 2022. "G1/S restriction point coordinates phasic gene expression and cell differentiation," Nature Communications, Nature, vol. 13(1), pages 1-17, December.
- Guolun Wang & Bingqiang Wen & Minzhe Guo & Enhong Li & Yufang Zhang & Jeffrey A. Whitsett & Tanya V. Kalin & Vladimir V. Kalinichenko, 2024. "Identification of endothelial and mesenchymal FOXF1 enhancers involved in alveolar capillary dysplasia," Nature Communications, Nature, vol. 15(1), pages 1-16, December.
- Arthur S. Lee & Lauren J. Ayers & Michael Kosicki & Wai-Man Chan & Lydia N. Fozo & Brandon M. Pratt & Thomas E. Collins & Boxun Zhao & Matthew F. Rose & Alba Sanchis-Juan & Jack M. Fu & Isaac Wong & X, 2024. "A cell type-aware framework for nominating non-coding variants in Mendelian regulatory disorders," Nature Communications, Nature, vol. 15(1), pages 1-26, December.
- Monika Graf & Marta Interlandi & Natalia Moreno & Dörthe Holdhof & Carolin Göbel & Viktoria Melcher & Julius Mertins & Thomas K. Albert & Dennis Kastrati & Amelie Alfert & Till Holsten & Flavia de Far, 2022. "Single-cell transcriptomics identifies potential cells of origin of MYC rhabdoid tumors," Nature Communications, Nature, vol. 13(1), pages 1-19, December.
- Amir Alavi & Ziv Bar-Joseph, 2020. "Iterative point set registration for aligning scRNA-seq data," PLOS Computational Biology, Public Library of Science, vol. 16(10), pages 1-21, October.
- D. M. Jeziorska & E. A. J. Tunnacliffe & J. M. Brown & H. Ayyub & J. Sloane-Stanley & J. A. Sharpe & B. C. Lagerholm & C. Babbs & A. J. H. Smith & V. J. Buckle & D. R. Higgs, 2022. "On-microscope staging of live cells reveals changes in the dynamics of transcriptional bursting during differentiation," Nature Communications, Nature, vol. 13(1), pages 1-12, December.
- Ran Wang & Xianfa Yang & Jiehui Chen & Lin Zhang & Jonathan A. Griffiths & Guizhong Cui & Yingying Chen & Yun Qian & Guangdun Peng & Jinsong Li & Liantang Wang & John C. Marioni & Patrick P. L. Tam & , 2023. "Time space and single-cell resolved tissue lineage trajectories and laterality of body plan at gastrulation," Nature Communications, Nature, vol. 14(1), pages 1-18, December.
- Shengyong Yu & Chunhua Zhou & Jiangping He & Zhaokai Yao & Xingnan Huang & Bowen Rong & Hong Zhu & Shijie Wang & Shuyan Chen & Xialian Wang & Baomei Cai & Guoqing Zhao & Yuhan Chen & Lizhan Xiao & He , 2022. "BMP4 drives primed to naïve transition through PGC-like state," Nature Communications, Nature, vol. 13(1), pages 1-15, December.
- Laurent Argiro & Céline Chevalier & Caroline Choquet & Nitya Nandkishore & Adeline Ghata & Anaïs Baudot & Stéphane Zaffran & Fabienne Lescroart, 2024. "Gastruloids are competent to specify both cardiac and skeletal muscle lineages," Nature Communications, Nature, vol. 15(1), pages 1-19, December.
- Geethika Arekatla & Stavroula Skylaki & David Corredor Suarez & Hartland Jackson & Denis Schapiro & Stefanie Engler & Markus Auler & German Camargo Ortega & Simon Hastreiter & Andreas Reimann & Dirk L, 2024. "Identification of an embryonic differentiation stage marked by Sox1 and FoxA2 co-expression using combined cell tracking and high dimensional protein imaging," Nature Communications, Nature, vol. 15(1), pages 1-16, December.
- Ajita Shree & Musale Krushna Pavan & Hamim Zafar, 2023. "scDREAMER for atlas-level integration of single-cell datasets using deep generative model paired with adversarial classifier," Nature Communications, Nature, vol. 14(1), pages 1-19, December.
- C. Biben & T. S. Weber & K. S. Potts & J. Choi & D. C. Miles & A. Carmagnac & T. Sargeant & C. A. Graaf & K. A. Fennell & A. Farley & O. J. Stonehouse & M. A. Dawson & D. J. Hilton & S. H. Naik & S. T, 2023. "In vivo clonal tracking reveals evidence of haemangioblast and haematomesoblast contribution to yolk sac haematopoiesis," Nature Communications, Nature, vol. 14(1), pages 1-14, December.
- Javier Rodríguez-Ubreva & Anna Arutyunyan & Marc Jan Bonder & Lucía Del Pino-Molina & Stephen J. Clark & Carlos de la Calle-Fabregat & Luz Garcia-Alonso & Louis-François Handfield & Laura Ciudad & Edu, 2022. "Single-cell Atlas of common variable immunodeficiency shows germinal center-associated epigenetic dysregulation in B-cell responses," Nature Communications, Nature, vol. 13(1), pages 1-18, December.
- Nimrod Rappoport & Elad Chomsky & Takashi Nagano & Charlie Seibert & Yaniv Lubling & Yael Baran & Aviezer Lifshitz & Wing Leung & Zohar Mukamel & Ron Shamir & Peter Fraser & Amos Tanay, 2023. "Single cell Hi-C identifies plastic chromosome conformations underlying the gastrulation enhancer landscape," Nature Communications, Nature, vol. 14(1), pages 1-17, December.
- Luke Simpson & Andrew Strange & Doris Klisch & Sophie Kraunsoe & Takuya Azami & Daniel Goszczynski & Triet Minh & Benjamin Planells & Nadine Holmes & Fei Sang & Sonal Henson & Matthew Loose & Jennifer, 2024. "A single-cell atlas of pig gastrulation as a resource for comparative embryology," Nature Communications, Nature, vol. 15(1), pages 1-16, December.
- Andreas Fønss Møller & Jesper Grud Skat Madsen, 2023. "JOINTLY: interpretable joint clustering of single-cell transcriptomes," Nature Communications, Nature, vol. 14(1), pages 1-15, December.
- Jiachen Li & Xiaoyong Pan & Ye Yuan & Hong-Bin Shen, 2024. "TFvelo: gene regulation inspired RNA velocity estimation," Nature Communications, Nature, vol. 15(1), pages 1-15, December.
- Yi-Cheng Chang & Jan Manent & Jan Schroeder & Siew Fen Lisa Wong & Gabriel M. Hauswirth & Natalia A. Shylo & Emma L. Moore & Annita Achilleos & Victoria Garside & Jose M. Polo & Paul Trainor & Edwina , 2022. "Nr6a1 controls Hox expression dynamics and is a master regulator of vertebrate trunk development," Nature Communications, Nature, vol. 13(1), pages 1-19, December.
- Mingze Gao & Chen Qiao & Yuanhua Huang, 2022. "UniTVelo: temporally unified RNA velocity reinforces single-cell trajectory inference," Nature Communications, Nature, vol. 13(1), pages 1-11, December.
- Ankit Agrawal & Stefan Thomann & Sukanya Basu & Dominic Grün, 2024. "NiCo identifies extrinsic drivers of cell state modulation by niche covariation analysis," Nature Communications, Nature, vol. 15(1), pages 1-22, December.
- Jeremy Lotto & Rebecca Cullum & Sibyl Drissler & Martin Arostegui & Victoria C. Garside & Bettina M. Fuglerud & Makenna Clement-Ranney & Avinash Thakur & T. Michael Underhill & Pamela A. Hoodless, 2023. "Cell diversity and plasticity during atrioventricular heart valve EMTs," Nature Communications, Nature, vol. 14(1), pages 1-16, December.
- Xavier Grau-Bové & Lucie Subirana & Lydvina Meister & Anaël Soubigou & Ana Neto & Anamaria Elek & Silvia Naranjo & Oscar Fornas & Jose Luis Gomez-Skarmeta & Juan J. Tena & Manuel Irimia & Stéphanie Be, 2024. "An amphioxus neurula stage cell atlas supports a complex scenario for the emergence of vertebrate head mesoderm," Nature Communications, Nature, vol. 15(1), pages 1-18, December.
- Allen W. Lynch & Myles Brown & Clifford A. Meyer, 2023. "Multi-batch single-cell comparative atlas construction by deep learning disentanglement," Nature Communications, Nature, vol. 14(1), pages 1-22, December.