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• Mikocziova, Ivana; Gidoni, Moriah; Lindeman, Ida; Peres, Ayelet; Snir, Omri; Yaari, Gur & Sollid, Ludvig Magne (2020). Polymorphisms in human immunoglobulin heavy chain variable genes and their upstream regions. Nucleic Acids Research.  ISSN 0305-1048.  48(10), s 5499- 5510 . doi: https://doi.org/10.1093/nar/gkaa310
• Gidoni, Moriah; Snir, Omri; Peres, Ayelet; Polak, Pazit; Lindeman, Ida; Mikocziova, Ivana; Sarna, Vikas Kumar; Lundin, Knut Erik Aslaksen; Clouser, Christopher; Vigneault, Francois; Collins, Andrew M.; Sollid, Ludvig Magne & Yaari, Gur (2019). Mosaic deletion patterns of the human antibody heavy chain gene locus shown by Bayesian haplotyping. Nature Communications.  ISSN 2041-1723.  10:628, s 1- 14 . doi: 10.1038/s41467-019-08489-3 Full text in Research Archive.
• Lindeman, Ida & Stubbington, Michael J.T. (2019). Antigen Receptor Sequence Reconstruction and Clonality Inference from scRNA-Seq Data, In Guo-Cheng Yuan (ed.),  Computational Methods for Single-Cell Data Analysis.  Humana Press.  ISBN 978-1-4939-9056-6.  Chapter 15.  s 223 - 249 Full text in Research Archive.
• Miragaia, Ricardo J.; Gomes, Tomás; Chomka, Agnieszka; Jardine, Laura; Riedel, Angela; Hegazy, Ahmed N.; Whibley, Natasha; Tucci, Andrea; Chen, Xi; Lindeman, Ida; Emerton, Guy; Krausgruber, Thomas; Shields, Jacqueline; Haniffa, Muzlifah; Powrie, Fiona & Teichmann, Sarah A. (2019). Single-cell transcriptomics of regulatory T cells reveals trajectories of tissue adaptation. Immunity.  ISSN 1074-7613.  50(2), s 493- 504.e7 . doi: 10.1016/j.immuni.2019.01.001 Full text in Research Archive.
• Yao, Ying; Zia, Asima; Wyrozemski, Lukasz Adam; Lindeman, Ida; Sandve, Geir Kjetil & Qiao, Shuo Wang (2018). Exploiting antigen receptor information to quantify index switching in single-cell transcriptome sequencing experiments. PLOS ONE.  ISSN 1932-6203.  13(12), s 1- 17 . doi: 10.1371/journal.pone.0208484 Full text in Research Archive.
• Schjerven, Hilde; Ayongaba, Etapon Fonabei; Aghajanirefah, Ali; McLaughlin, Jami; Cheng, Donghui; Geng, Huimin; Boyd, Joseph R; Eggesbø, Linn Margrethe; Lindeman, Ida; Heath, Jessica L; Park, Eugene; Witte, Owen N.; Smale, Stephen T.; Frietze, Seth & Müschen, Markus (2017). Genetic analysis of Ikaros target genes and tumor suppressor function in BCR-ABL1+ pre–B ALL. Journal of Experimental Medicine (JEM).  ISSN 0022-1007.  214(3), s 793- 814 . doi: 10.1084/jem.20160049 Full text in Research Archive.

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• Lindeman, Ida; Emerton, Guy; Mamanova, Lira; Snir, Omri; Polanski, Krzysztof; Qiao, Shuo Wang; Sollid, Ludvig Magne; Teichmann, Sarah A & Stubbington, Michael J. T. (2018). BraCeR: B-cell-receptor reconstruction and clonality inference from single-cell RNA-seq. Nature Methods.  ISSN 1548-7091.  15(8), s 563- 565 . doi: 10.1038/s41592-018-0082-3 Full text in Research Archive.

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