Journal articles on the topic 'Single cell sequencing data'
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Shi, Qianqian, Xinxing Li, Qirui Peng, Chuanchao Zhang, and Luonan Chen. "scDA: Single cell discriminant analysis for single-cell RNA sequencing data." Computational and Structural Biotechnology Journal 19 (2021): 3234–44. http://dx.doi.org/10.1016/j.csbj.2021.05.046.
Full textZhao, Xinlei, Shuang Wu, Nan Fang, Xiao Sun, and Jue Fan. "Evaluation of single-cell classifiers for single-cell RNA sequencing data sets." Briefings in Bioinformatics 21, no. 5 (October 23, 2019): 1581–95. http://dx.doi.org/10.1093/bib/bbz096.
Full textSatas, Gryte, and Benjamin J. Raphael. "Haplotype phasing in single-cell DNA-sequencing data." Bioinformatics 34, no. 13 (June 27, 2018): i211—i217. http://dx.doi.org/10.1093/bioinformatics/bty286.
Full textVallejos, Catalina A., John C. Marioni, and Sylvia Richardson. "BASiCS: Bayesian Analysis of Single-Cell Sequencing Data." PLOS Computational Biology 11, no. 6 (June 24, 2015): e1004333. http://dx.doi.org/10.1371/journal.pcbi.1004333.
Full textSchnepp, Patricia M., Mengjie Chen, Evan T. Keller, and Xiang Zhou. "SNV identification from single-cell RNA sequencing data." Human Molecular Genetics 28, no. 21 (August 27, 2019): 3569–83. http://dx.doi.org/10.1093/hmg/ddz207.
Full textGisina, Alisa, Irina Kholodenko, Yan Kim, Maxim Abakumov, Alexey Lupatov, and Konstantin Yarygin. "Glioma Stem Cells: Novel Data Obtained by Single-Cell Sequencing." International Journal of Molecular Sciences 23, no. 22 (November 17, 2022): 14224. http://dx.doi.org/10.3390/ijms232214224.
Full textDai, Hao, Lin Li, Tao Zeng, and Luonan Chen. "Cell-specific network constructed by single-cell RNA sequencing data." Nucleic Acids Research 47, no. 11 (March 13, 2019): e62-e62. http://dx.doi.org/10.1093/nar/gkz172.
Full textZhang, Yinan, Xiaowei Xie, Peng Wu, and Ping Zhu. "SIEVE: identifying robust single cell variable genes for single-cell RNA sequencing data." Blood Science 3, no. 2 (April 2021): 35–39. http://dx.doi.org/10.1097/bs9.0000000000000072.
Full textMyers, Matthew A., Simone Zaccaria, and Benjamin J. Raphael. "Identifying tumor clones in sparse single-cell mutation data." Bioinformatics 36, Supplement_1 (July 1, 2020): i186—i193. http://dx.doi.org/10.1093/bioinformatics/btaa449.
Full textZhao, Peng, Zenglin Xu, Junjie Chen, Yazhou Ren, and Irwin King. "Single Cell Self-Paced Clustering with Transcriptome Sequencing Data." International Journal of Molecular Sciences 23, no. 7 (March 31, 2022): 3900. http://dx.doi.org/10.3390/ijms23073900.
Full textWeber, Leah L., Palash Sashittal, and Mohammed El-Kebir. "doubletD: detecting doublets in single-cell DNA sequencing data." Bioinformatics 37, Supplement_1 (July 1, 2021): i214—i221. http://dx.doi.org/10.1093/bioinformatics/btab266.
Full textGermain, Pierre-Luc, Aaron Lun, Will Macnair, and Mark D. Robinson. "Doublet identification in single-cell sequencing data using scDblFinder." F1000Research 10 (May 16, 2022): 979. http://dx.doi.org/10.12688/f1000research.73600.2.
Full textMustachio, Lisa Maria, and Jason Roszik. "Opportunities for Single-Cell Sequencing Technologies and Data Science." Cancers 12, no. 11 (November 19, 2020): 3433. http://dx.doi.org/10.3390/cancers12113433.
Full textValecha, Monica, and David Posada. "Somatic variant calling from single-cell DNA sequencing data." Computational and Structural Biotechnology Journal 20 (2022): 2978–85. http://dx.doi.org/10.1016/j.csbj.2022.06.013.
Full textGermain, Pierre-Luc, Aaron Lun, Will Macnair, and Mark D. Robinson. "Doublet identification in single-cell sequencing data using scDblFinder." F1000Research 10 (September 28, 2021): 979. http://dx.doi.org/10.12688/f1000research.73600.1.
Full textVallejos, Catalina A., Davide Risso, Antonio Scialdone, Sandrine Dudoit, and John C. Marioni. "Normalizing single-cell RNA sequencing data: challenges and opportunities." Nature Methods 14, no. 6 (May 15, 2017): 565–71. http://dx.doi.org/10.1038/nmeth.4292.
Full textBai, Yu-Long, Melody Baddoo, Erik K. Flemington, Hani N. Nakhoul, and Yao-Zhong Liu. "Screen technical noise in single cell RNA sequencing data." Genomics 112, no. 1 (January 2020): 346–55. http://dx.doi.org/10.1016/j.ygeno.2019.02.014.
Full textDePasquale, Erica A. K., Daniel J. Schnell, Pieter-Jan Van Camp, Íñigo Valiente-Alandí, Burns C. Blaxall, H. Leighton Grimes, Harinder Singh, and Nathan Salomonis. "DoubletDecon: Deconvoluting Doublets from Single-Cell RNA-Sequencing Data." Cell Reports 29, no. 6 (November 2019): 1718–27. http://dx.doi.org/10.1016/j.celrep.2019.09.082.
Full textChandra, Shilpi, Gregory Seumois, Ciro Ramirez, Gooyoung Seo, Pandurangan Vijayanand, and Mitchell Kronenberg. "Single cell sequencing reveals mouse MAIT cell diversity." Journal of Immunology 202, no. 1_Supplement (May 1, 2019): 65.1. http://dx.doi.org/10.4049/jimmunol.202.supp.65.1.
Full textApsley, Elizabeth J., and Esther B. E. Becker. "Purkinje Cell Patterning—Insights from Single-Cell Sequencing." Cells 11, no. 18 (September 18, 2022): 2918. http://dx.doi.org/10.3390/cells11182918.
Full textPham, Son, Tri Le, Tan Phan, Minh Pham, Huy Nguyen, Loc Lam, Nam Phung, et al. "484 Bioturing browser: interactively explore public single cell sequencing data." Journal for ImmunoTherapy of Cancer 8, Suppl 3 (November 2020): A520. http://dx.doi.org/10.1136/jitc-2020-sitc2020.0484.
Full textTran, Thinh N., and Gary D. Bader. "Tempora: Cell trajectory inference using time-series single-cell RNA sequencing data." PLOS Computational Biology 16, no. 9 (September 9, 2020): e1008205. http://dx.doi.org/10.1371/journal.pcbi.1008205.
Full textTian, Yu, Ruiqing Zheng, Zhenlan Liang, Suning Li, Fang-Xiang Wu, and Min Li. "A data-driven clustering recommendation method for single-cell RNA-sequencing data." Tsinghua Science and Technology 26, no. 5 (October 2021): 772–89. http://dx.doi.org/10.26599/tst.2020.9010028.
Full textVerboom, Karen, Celine Everaert, Nathalie Bolduc, Kenneth J. Livak, Nurten Yigit, Dries Rombaut, Jasper Anckaert, et al. "SMARTer single cell total RNA sequencing." Nucleic Acids Research 47, no. 16 (June 19, 2019): e93-e93. http://dx.doi.org/10.1093/nar/gkz535.
Full textHie, Brian, Joshua Peters, Sarah K. Nyquist, Alex K. Shalek, Bonnie Berger, and Bryan D. Bryson. "Computational Methods for Single-Cell RNA Sequencing." Annual Review of Biomedical Data Science 3, no. 1 (July 20, 2020): 339–64. http://dx.doi.org/10.1146/annurev-biodatasci-012220-100601.
Full textWu, Min, Junhua Xu, Tao Ding, and Jie Gao. "Mixed Distribution Models Based on Single-Cell RNA Sequencing Data." Interdisciplinary Sciences: Computational Life Sciences 13, no. 3 (March 22, 2021): 362–70. http://dx.doi.org/10.1007/s12539-021-00427-6.
Full textYu, Zhenhua, and Fang Du. "AMC: accurate mutation clustering from single-cell DNA sequencing data." Bioinformatics 38, no. 6 (December 24, 2021): 1732–34. http://dx.doi.org/10.1093/bioinformatics/btab857.
Full textQin, Fei, Xizhi Luo, Feifei Xiao, and Guoshuai Cai. "SCRIP: an accurate simulator for single-cell RNA sequencing data." Bioinformatics 38, no. 5 (December 7, 2021): 1304–11. http://dx.doi.org/10.1093/bioinformatics/btab824.
Full textDas, Samarendra, and Shesh N. Rai. "Statistical methods for analysis of single-cell RNA-sequencing data." MethodsX 8 (2021): 101580. http://dx.doi.org/10.1016/j.mex.2021.101580.
Full textQi, Ren, Anjun Ma, Qin Ma, and Quan Zou. "Clustering and classification methods for single-cell RNA-sequencing data." Briefings in Bioinformatics 21, no. 4 (July 4, 2019): 1196–208. http://dx.doi.org/10.1093/bib/bbz062.
Full textDuan, Bin, Shaoqi Chen, Xiaohan Chen, Chenyu Zhu, Chen Tang, Shuguang Wang, Yicheng Gao, Shaliu Fu, and Qi Liu. "Integrating multiple references for single-cell assignment." Nucleic Acids Research 49, no. 14 (May 25, 2021): e80-e80. http://dx.doi.org/10.1093/nar/gkab380.
Full textVu, Trung Nghia, Ha-Nam Nguyen, Stefano Calza, Krishna R. Kalari, Liewei Wang, and Yudi Pawitan. "Cell-level somatic mutation detection from single-cell RNA sequencing." Bioinformatics 35, no. 22 (April 26, 2019): 4679–87. http://dx.doi.org/10.1093/bioinformatics/btz288.
Full textShparberg, Rachel, Chitra Umala Dewi, Vikkitharan Gnanasambandapillai, Liwan Liyanage, and Michael D. O'Connor. "Single cell RNA-sequencing data generated from human pluripotent stem cell-derived lens epithelial cells." Data in Brief 34 (February 2021): 106657. http://dx.doi.org/10.1016/j.dib.2020.106657.
Full textSturm, Gregor, Tamas Szabo, Georgios Fotakis, Marlene Haider, Dietmar Rieder, Zlatko Trajanoski, and Francesca Finotello. "Scirpy: a Scanpy extension for analyzing single-cell T-cell receptor-sequencing data." Bioinformatics 36, no. 18 (July 2, 2020): 4817–18. http://dx.doi.org/10.1093/bioinformatics/btaa611.
Full textDu, Rose, Vince Carey, and Scott T. Weiss. "deconvSeq: deconvolution of cell mixture distribution in sequencing data." Bioinformatics 35, no. 24 (May 30, 2019): 5095–102. http://dx.doi.org/10.1093/bioinformatics/btz444.
Full textLiu, Yunqing, Na Lu, Changwei Bi, Tingyu Han, Guo Zhuojun, Yunchi Zhu, Yixin Li, Chunpeng He, and Zuhong Lu. "FEM: mining biological meaning from cell level in single-cell RNA sequencing data." PeerJ 9 (November 30, 2021): e12570. http://dx.doi.org/10.7717/peerj.12570.
Full textZhao, Xin, Shouguo Gao, Sachiko Kajigaya, Qingguo Liu, Zhijie Wu, Xingmin Feng, Fengkui Zhang, and Neal S. Young. "Single-Cell RNA Sequencing of Healthy Human Marrow Hematopoietic Cells." Blood 134, Supplement_1 (November 13, 2019): 4997. http://dx.doi.org/10.1182/blood-2019-123249.
Full textWang, Mengyuan, Jiatao Gan, Changfeng Han, Yanbing Guo, Kaihao Chen, Ya-zhou Shi, and Ben-gong Zhang. "Imputation Methods for scRNA Sequencing Data." Applied Sciences 12, no. 20 (October 21, 2022): 10684. http://dx.doi.org/10.3390/app122010684.
Full textGuo, Tiantian, Yang Chen, Minglei Shi, Xiangyu Li, and Michael Q. Zhang. "Integration of single cell data by disentangled representation learning." Nucleic Acids Research 50, no. 2 (November 24, 2021): e8-e8. http://dx.doi.org/10.1093/nar/gkab978.
Full textBalzer, Michael S., Ziyuan Ma, Jianfu Zhou, Amin Abedini, and Katalin Susztak. "How to Get Started with Single Cell RNA Sequencing Data Analysis." Journal of the American Society of Nephrology 32, no. 6 (March 15, 2021): 1279–92. http://dx.doi.org/10.1681/asn.2020121742.
Full textPosada, David. "CellCoal: Coalescent Simulation of Single-Cell Sequencing Samples." Molecular Biology and Evolution 37, no. 5 (February 6, 2020): 1535–42. http://dx.doi.org/10.1093/molbev/msaa025.
Full textWen, Zi-Hang, Jeremy L. Langsam, Lu Zhang, Wenjun Shen, and Xin Zhou. "A Bayesian factorization method to recover single-cell RNA sequencing data." Cell Reports Methods 2, no. 1 (January 2022): 100133. http://dx.doi.org/10.1016/j.crmeth.2021.100133.
Full textTsyvina, Viachaslau, Alex Zelikovsky, Sagi Snir, and Pavel Skums. "Inference of mutability landscapes of tumors from single cell sequencing data." PLOS Computational Biology 16, no. 11 (November 30, 2020): e1008454. http://dx.doi.org/10.1371/journal.pcbi.1008454.
Full textLei, Haoyun, Bochuan Lyu, E. Michael Gertz, Alejandro A. Schäffer, Xulian Shi, Kui Wu, Guibo Li, et al. "Tumor Copy Number Deconvolution Integrating Bulk and Single-Cell Sequencing Data." Journal of Computational Biology 27, no. 4 (April 1, 2020): 565–98. http://dx.doi.org/10.1089/cmb.2019.0302.
Full textFischer, David S., Anna K. Fiedler, Eric M. Kernfeld, Ryan M. J. Genga, Aimée Bastidas-Ponce, Mostafa Bakhti, Heiko Lickert, Jan Hasenauer, Rene Maehr, and Fabian J. Theis. "Inferring population dynamics from single-cell RNA-sequencing time series data." Nature Biotechnology 37, no. 4 (April 2019): 461–68. http://dx.doi.org/10.1038/s41587-019-0088-0.
Full textHu, Ming-Wen, Dong Won Kim, Sheng Liu, Donald J. Zack, Seth Blackshaw, and Jiang Qian. "PanoView: An iterative clustering method for single-cell RNA sequencing data." PLOS Computational Biology 15, no. 8 (August 30, 2019): e1007040. http://dx.doi.org/10.1371/journal.pcbi.1007040.
Full textVu, Trung Nghia, Quin F. Wills, Krishna R. Kalari, Nifang Niu, Liewei Wang, Yudi Pawitan, and Mattias Rantalainen. "Isoform-level gene expression patterns in single-cell RNA-sequencing data." Bioinformatics 34, no. 14 (February 27, 2018): 2392–400. http://dx.doi.org/10.1093/bioinformatics/bty100.
Full textPouyan, Maziyar Baran, and Dennis Kostka. "Random forest based similarity learning for single cell RNA sequencing data." Bioinformatics 34, no. 13 (June 27, 2018): i79—i88. http://dx.doi.org/10.1093/bioinformatics/bty260.
Full textWu, Peng, Yan Gao, Weilong Guo, and Ping Zhu. "Using local alignment to enhance single-cell bisulfite sequencing data efficiency." Bioinformatics 35, no. 18 (February 19, 2019): 3273–78. http://dx.doi.org/10.1093/bioinformatics/btz125.
Full textAlJanahi, Aisha A., Mark Danielsen, and Cynthia E. Dunbar. "An Introduction to the Analysis of Single-Cell RNA-Sequencing Data." Molecular Therapy - Methods & Clinical Development 10 (September 2018): 189–96. http://dx.doi.org/10.1016/j.omtm.2018.07.003.
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