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Items: 13

1.

A rapid and robust method for single cell chromatin accessibility profiling.

Chen X, Miragaia RJ, Natarajan KN, Teichmann SA.

Nat Commun. 2018 Dec 17;9(1):5345. doi: 10.1038/s41467-018-07771-0.

2.

Distinctive features of lincRNA gene expression suggest widespread RNA-independent functions.

Tuck AC, Natarajan KN, Rice GM, Borawski J, Mohn F, Rankova A, Flemr M, Wenger A, Nutiu R, Teichmann S, Bühler M.

Life Sci Alliance. 2018 Jul 31;1(4):e201800124. doi: 10.26508/lsa.201800124. eCollection 2018 Aug.

3.

Single cell transcriptomics of pluripotent stem cells: reprogramming and differentiation.

Natarajan KN, Teichmann SA, Kolodziejczyk AA.

Curr Opin Genet Dev. 2017 Oct;46:66-76. doi: 10.1016/j.gde.2017.06.003. Epub 2017 Jul 1. Review.

PMID:
28675884
4.

Flipping between Polycomb repressed and active transcriptional states introduces noise in gene expression.

Kar G, Kim JK, Kolodziejczyk AA, Natarajan KN, Torlai Triglia E, Mifsud B, Elderkin S, Marioni JC, Pombo A, Teichmann SA.

Nat Commun. 2017 Jun 26;8(1):36. doi: 10.1038/s41467-017-00052-2.

5.

SC3: consensus clustering of single-cell RNA-seq data.

Kiselev VY, Kirschner K, Schaub MT, Andrews T, Yiu A, Chandra T, Natarajan KN, Reik W, Barahona M, Green AR, Hemberg M.

Nat Methods. 2017 May;14(5):483-486. doi: 10.1038/nmeth.4236. Epub 2017 Mar 27.

6.

Power analysis of single-cell RNA-sequencing experiments.

Svensson V, Natarajan KN, Ly LH, Miragaia RJ, Labalette C, Macaulay IC, Cvejic A, Teichmann SA.

Nat Methods. 2017 Apr;14(4):381-387. doi: 10.1038/nmeth.4220. Epub 2017 Mar 6.

7.

Erratum to: Single cell analysis of CD4+ T cell differentiation reveals three major cell states and progressive acceleration of proliferation.

Proserpio V, Piccolo A, Haim-Vilmovsky L, Kar G, Lönnberg T, Svensson V, Pramanik J, Natarajan KN, Zhai W, Zhang X, Donati G, Kayikci M, Kotar J, McKenzie AN, Montandon R, James KR, Fernandez-Ruiz D, Heath WR, Haque A, Billker O, Woodhouse S, Cicuta P, Nicodemi M, Teichmann SA.

Genome Biol. 2016 Jun 22;17(1):133. No abstract available.

8.

Single-cell analysis of CD4+ T-cell differentiation reveals three major cell states and progressive acceleration of proliferation.

Proserpio V, Piccolo A, Haim-Vilmovsky L, Kar G, Lönnberg T, Svensson V, Pramanik J, Natarajan KN, Zhai W, Zhang X, Donati G, Kayikci M, Kotar J, McKenzie AN, Montandon R, Billker O, Woodhouse S, Cicuta P, Nicodemi M, Teichmann SA.

Genome Biol. 2016 May 12;17:103. doi: 10.1186/s13059-016-0957-5. Erratum in: Genome Biol. 2016;17(1):133.

9.

The systems biology format converter.

Rodriguez N, Pettit JB, Dalle Pezze P, Li L, Henry A, van Iersel MP, Jalowicki G, Kutmon M, Natarajan KN, Tolnay D, Stefan MI, Evelo CT, Le Novère N.

BMC Bioinformatics. 2016 Apr 5;17:154. doi: 10.1186/s12859-016-1000-2.

10.

Single Cell RNA-Sequencing of Pluripotent States Unlocks Modular Transcriptional Variation.

Kolodziejczyk AA, Kim JK, Tsang JC, Ilicic T, Henriksson J, Natarajan KN, Tuck AC, Gao X, Bühler M, Liu P, Marioni JC, Teichmann SA.

Cell Stem Cell. 2015 Oct 1;17(4):471-85. doi: 10.1016/j.stem.2015.09.011.

11.

Computational assignment of cell-cycle stage from single-cell transcriptome data.

Scialdone A, Natarajan KN, Saraiva LR, Proserpio V, Teichmann SA, Stegle O, Marioni JC, Buettner F.

Methods. 2015 Sep 1;85:54-61. doi: 10.1016/j.ymeth.2015.06.021. Epub 2015 Jul 2.

12.

Computational analysis of cell-to-cell heterogeneity in single-cell RNA-sequencing data reveals hidden subpopulations of cells.

Buettner F, Natarajan KN, Casale FP, Proserpio V, Scialdone A, Theis FJ, Teichmann SA, Marioni JC, Stegle O.

Nat Biotechnol. 2015 Feb;33(2):155-60. doi: 10.1038/nbt.3102. Epub 2015 Jan 19.

PMID:
25599176
13.

BioModels: ten-year anniversary.

Chelliah V, Juty N, Ajmera I, Ali R, Dumousseau M, Glont M, Hucka M, Jalowicki G, Keating S, Knight-Schrijver V, Lloret-Villas A, Natarajan KN, Pettit JB, Rodriguez N, Schubert M, Wimalaratne SM, Zhao Y, Hermjakob H, Le Novère N, Laibe C.

Nucleic Acids Res. 2015 Jan;43(Database issue):D542-8. doi: 10.1093/nar/gku1181. Epub 2014 Nov 20.

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