{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,3,26]],"date-time":"2025-03-26T09:06:03Z","timestamp":1742979963199,"version":"3.40.3"},"publisher-location":"Cham","reference-count":26,"publisher":"Springer International Publishing","isbn-type":[{"type":"print","value":"9783319949673"},{"type":"electronic","value":"9783319949680"}],"license":[{"start":{"date-parts":[[2018,1,1]],"date-time":"2018-01-01T00:00:00Z","timestamp":1514764800000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/www.springer.com\/tdm"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2018]]},"DOI":"10.1007\/978-3-319-94968-0_32","type":"book-chapter","created":{"date-parts":[[2018,7,12]],"date-time":"2018-07-12T14:13:51Z","timestamp":1531404831000},"page":"335-346","update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Truncated Robust Principal Component Analysis and Noise Reduction for Single Cell RNA-seq Data"],"prefix":"10.1007","author":[{"given":"Krzysztof","family":"Gogolewski","sequence":"first","affiliation":[]},{"given":"Maciej","family":"Sykulski","sequence":"additional","affiliation":[]},{"given":"Neo Christopher","family":"Chung","sequence":"additional","affiliation":[]},{"given":"Anna","family":"Gambin","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2018,7,13]]},"reference":[{"issue":"2","key":"32_CR1","first-page":"149","volume":"5","author":"G Novelli","year":"2008","unstructured":"Novelli, G., Ciccacci, C., Borgiani, P., Amati, M.P., Abadie, E.: Genetic tests and genomic biomarkers: regulation, qualification and validation. Clin. Cases Miner. Bone Metab. 5(2), 149\u2013154 (2008)","journal-title":"Clin. Cases Miner. Bone Metab."},{"issue":"8","key":"32_CR2","doi-asserted-by":"publisher","first-page":"748","DOI":"10.1038\/nbt.2642","volume":"31","author":"QF Wills","year":"2013","unstructured":"Wills, Q.F., et al.: Single-cell gene expression analysis reveals genetic associations masked in whole-tissue experiments. Nat. Biotechnol. 31(8), 748\u2013752 (2013)","journal-title":"Nat. Biotechnol."},{"key":"32_CR3","doi-asserted-by":"publisher","first-page":"14 p.","DOI":"10.1155\/2017\/6961786","volume":"2017","author":"K Gogolewski","year":"2017","unstructured":"Gogolewski, K., Wronowska, W., Lech, A., Lesyng, B., Gambin, A.: Inferring molecular processes heterogeneity from transcriptional data. Biomed Res. Int. 2017, 14 p. (2017). \nhttps:\/\/doi.org\/10.1155\/2017\/6961786\n\n. Article no. 6961786","journal-title":"Biomed Res. Int."},{"issue":"4","key":"32_CR4","doi-asserted-by":"publisher","first-page":"598","DOI":"10.1016\/j.molcel.2015.05.005","volume":"58","author":"Y Wang","year":"2015","unstructured":"Wang, Y., Navin, N.E.: Advances and applications of single-cell sequencing technologies. Mol. Cell 58(4), 598\u2013609 (2015)","journal-title":"Mol. Cell"},{"issue":"8","key":"32_CR5","doi-asserted-by":"publisher","first-page":"777","DOI":"10.1038\/nbt.2282","volume":"30","author":"D Ramskold","year":"2012","unstructured":"Ramskold, D., et al.: Full-length mRNA-Seq from single-cell levels of RNA and individual circulating tumor cells. Nat. Biotechnol. 30(8), 777\u2013782 (2012)","journal-title":"Nat. Biotechnol."},{"key":"32_CR6","doi-asserted-by":"publisher","DOI":"10.1007\/b98835","volume-title":"Principal Component Analysis","author":"IT Jolliffe","year":"2002","unstructured":"Jolliffe, I.T.: Principal Component Analysis. Springer, Heidelberg (2002). \nhttps:\/\/doi.org\/10.1007\/b98835"},{"key":"32_CR7","doi-asserted-by":"crossref","unstructured":"Bartholomew, D.J., Knott, M., Moustaki, I.: Latent Variable Models and Factor Analysis: A Unified Approach. Wiley Series in Probability and Statistics (2011)","DOI":"10.1002\/9781119970583"},{"issue":"4","key":"32_CR8","doi-asserted-by":"publisher","first-page":"545","DOI":"10.1093\/bioinformatics\/btu674","volume":"31","author":"NC Chung","year":"2015","unstructured":"Chung, N.C., Storey, J.D.: Statistical significance of variables driving systematic variation in high-dimensional data. Bioinformatics 31(4), 545\u2013554 (2015)","journal-title":"Bioinformatics"},{"key":"32_CR9","doi-asserted-by":"publisher","first-page":"344","DOI":"10.1111\/j.1541-0420.2010.01455.x","volume":"67","author":"JT Leek","year":"2010","unstructured":"Leek, J.T.: Asymptotic conditional singular value decomposition for high-dimensional genomic data. Biometrics 67, 344\u2013352 (2010)","journal-title":"Biometrics"},{"issue":"1","key":"32_CR10","doi-asserted-by":"publisher","first-page":"173","DOI":"10.1186\/s13059-016-1033-x","volume":"17","author":"LF Chu","year":"2016","unstructured":"Chu, L.F., et al.: Single-cell RNA-seq reveals novel regulators of human embryonic stem cell differentiation to definitive endoderm. Genome Biol. 17(1), 173 (2016)","journal-title":"Genome Biol."},{"issue":"1","key":"32_CR11","doi-asserted-by":"publisher","first-page":"145","DOI":"10.1038\/nn.3881","volume":"18","author":"D Usoskin","year":"2015","unstructured":"Usoskin, D., et al.: Unbiased classification of sensory neuron types by large-scale single-cell RNA sequencing. Nat. Neurosci. 18(1), 145\u2013153 (2015)","journal-title":"Nat. Neurosci."},{"key":"32_CR12","doi-asserted-by":"publisher","first-page":"29","DOI":"10.1186\/s13059-016-0888-1","volume":"17","author":"T Ilicic","year":"2016","unstructured":"Ilicic, T., et al.: Classification of low quality cells from single-cell RNA-seq data. Genome Biol. 17, 29 (2016)","journal-title":"Genome Biol."},{"issue":"3","key":"32_CR13","doi-asserted-by":"publisher","first-page":"11:1","DOI":"10.1145\/1970392.1970395","volume":"58","author":"EJ Cand\u00e8s","year":"2011","unstructured":"Cand\u00e8s, E.J., Li, X., Ma, Y., Wright, J.: Robust principal component analysis? J. ACM 58(3), 11:1\u201311:37 (2011)","journal-title":"J. ACM"},{"issue":"6755","key":"32_CR14","doi-asserted-by":"publisher","first-page":"788","DOI":"10.1038\/44565","volume":"401","author":"DD Lee","year":"1999","unstructured":"Lee, D.D., Seung, H.S.: Learning the parts of objects by non-negative matrix factorization. Nature 401(6755), 788\u2013791 (1999)","journal-title":"Nature"},{"issue":"2","key":"32_CR15","first-page":"262","volume":"15","author":"H Zou","year":"2006","unstructured":"Zou, H., Hastie, T., Tibshirani, R.: Sparse principal component analysis. JCGS 15(2), 262\u2013286 (2006)","journal-title":"JCGS"},{"issue":"3","key":"32_CR16","doi-asserted-by":"publisher","first-page":"515","DOI":"10.1093\/biostatistics\/kxp008","volume":"10","author":"DM Witten","year":"2009","unstructured":"Witten, D.M., Tibshirani, R., Hastie, T.: A penalized matrix decomposition, with applications to sparse principal components and canonical correlation analysis. Biostatistics 10(3), 515\u2013534 (2009)","journal-title":"Biostatistics"},{"key":"32_CR17","unstructured":"Yuan, X., Yang, J.: Sparse and Low-Rank Matrix Decomposition Via Alternating Direction Methods. optimization-online.org (2009)"},{"key":"32_CR18","unstructured":"Sykulski, M.: RPCA: RobustPCA: Decompose a Matrix into Low-Rank and Sparse Components (2015). R package version 0.2.3"},{"key":"32_CR19","unstructured":"Baglama, J., Reichel, L., Lewis, B.W.: irlba: Fast Truncated Singular Value Decomposition and Principal Components Analysis for Large Dense and Sparse Matrices (2018). R package version 2.3.2"},{"key":"32_CR20","doi-asserted-by":"crossref","unstructured":"Basu, S., Campbell, H.M., Dittel, B.N., Ray, A.: Purification of specific cell population by fluorescence activated cell sorting (FACS). J. Vis. Exp. 10(41) (2010)","DOI":"10.3791\/1546"},{"key":"32_CR21","doi-asserted-by":"publisher","first-page":"14049","DOI":"10.1038\/ncomms14049","volume":"8","author":"GX Zheng","year":"2017","unstructured":"Zheng, G.X., et al.: Massively parallel digital transcriptional profiling of single cells. Nat. Commun. 8, 14049 (2017)","journal-title":"Nat. Commun."},{"key":"32_CR22","first-page":"3221","volume":"15","author":"L Maaten van der","year":"2014","unstructured":"van der Maaten, L.: Accelerating t-SNE using tree-based algorithms. J. Mach. Learn. Res. 15, 3221\u20133245 (2014)","journal-title":"J. Mach. Learn. Res."},{"issue":"3","key":"32_CR23","doi-asserted-by":"publisher","first-page":"281","DOI":"10.1046\/j.1365-2567.2001.01248.x","volume":"103","author":"T Ohkawa","year":"2001","unstructured":"Ohkawa, T., et al.: Systematic characterization of human CD8+ T cells with natural killer cell markers in comparison with natural killer cells and normal CD8+ T cells. Immunology 103(3), 281\u2013290 (2001)","journal-title":"Immunology"},{"issue":"16","key":"32_CR24","doi-asserted-by":"publisher","first-page":"74","DOI":"10.1182\/blood-2010-02-258558","volume":"116","author":"L Ziegler-Heitbrock","year":"2010","unstructured":"Ziegler-Heitbrock, L., et al.: Nomenclature of monocytes and dendritic cells in blood. Blood 116(16), 74\u201380 (2010)","journal-title":"Blood"},{"issue":"2","key":"32_CR25","first-page":"97","volume":"9","author":"PG Chu","year":"2001","unstructured":"Chu, P.G., Arber, D.A.: CD79: a review. Appl. Immunohistochem. Mol. Morphol. 9(2), 97\u2013106 (2001)","journal-title":"Appl. Immunohistochem. Mol. Morphol."},{"issue":"9","key":"32_CR26","first-page":"923","volume":"19","author":"M Adachi","year":"1991","unstructured":"Adachi, M., Ryo, R., Sato, T., Yamaguchi, N.: Platelet factor 4 gene expression in a human megakaryocytic leukemia cell line (CMK) and its differentiated subclone (CMK11-5). Exp. Hematol. 19(9), 923\u2013927 (1991)","journal-title":"Exp. Hematol."}],"container-title":["Lecture Notes in Computer Science","Bioinformatics Research and Applications"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1007\/978-3-319-94968-0_32","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2019,11,15]],"date-time":"2019-11-15T01:06:25Z","timestamp":1573779985000},"score":1,"resource":{"primary":{"URL":"http:\/\/link.springer.com\/10.1007\/978-3-319-94968-0_32"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2018]]},"ISBN":["9783319949673","9783319949680"],"references-count":26,"URL":"https:\/\/doi.org\/10.1007\/978-3-319-94968-0_32","relation":{},"ISSN":["0302-9743","1611-3349"],"issn-type":[{"type":"print","value":"0302-9743"},{"type":"electronic","value":"1611-3349"}],"subject":[],"published":{"date-parts":[[2018]]},"assertion":[{"value":"13 July 2018","order":1,"name":"first_online","label":"First Online","group":{"name":"ChapterHistory","label":"Chapter History"}},{"value":"ISBRA","order":1,"name":"conference_acronym","label":"Conference Acronym","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"International Symposium on Bioinformatics Research and Applications","order":2,"name":"conference_name","label":"Conference Name","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"Beijing","order":3,"name":"conference_city","label":"Conference City","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"China","order":4,"name":"conference_country","label":"Conference Country","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"2018","order":5,"name":"conference_year","label":"Conference Year","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"8 June 2018","order":7,"name":"conference_start_date","label":"Conference Start Date","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"11 June 2018","order":8,"name":"conference_end_date","label":"Conference End Date","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"14","order":9,"name":"conference_number","label":"Conference Number","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"isbra2018","order":10,"name":"conference_id","label":"Conference ID","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"http:\/\/alan.cs.gsu.edu\/isbra18\/","order":11,"name":"conference_url","label":"Conference URL","group":{"name":"ConferenceInfo","label":"Conference Information"}}]}}