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Results: 1 to 20 of 46


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.


Molecular and neuronal homology between the olfactory systems of zebrafish and mouse.

Saraiva LR, Ahuja G, Ivandic I, Syed AS, Marioni JC, Korsching SI, Logan DW.

Sci Rep. 2015 Jun 25;5:11487. doi: 10.1038/srep11487.


BASiCS: Bayesian Analysis of Single-Cell Sequencing Data.

Vallejos CA, Marioni JC, Richardson S.

PLoS Comput Biol. 2015 Jun 24;11(6):e1004333. doi: 10.1371/journal.pcbi.1004333. eCollection 2015 Jun.


The technology and biology of single-cell RNA sequencing.

Kolodziejczyk AA, Kim JK, Svensson V, Marioni JC, Teichmann SA.

Mol Cell. 2015 May 21;58(4):610-20. doi: 10.1016/j.molcel.2015.04.005. Review.


High-throughput spatial mapping of single-cell RNA-seq data to tissue of origin.

Achim K, Pettit JB, Saraiva LR, Gavriouchkina D, Larsson T, Arendt D, Marioni JC.

Nat Biotechnol. 2015 May;33(5):503-9. doi: 10.1038/nbt.3209. Epub 2015 Apr 13.


Computational and analytical challenges in single-cell transcriptomics.

Stegle O, Teichmann SA, Marioni JC.

Nat Rev Genet. 2015 Mar;16(3):133-45. doi: 10.1038/nrg3833. Epub 2015 Jan 28. Review.


Testing the mean matrix in high-dimensional transposable data.

Touloumis A, Tavaré S, Marioni JC.

Biometrics. 2015 Mar;71(1):157-66. doi: 10.1111/biom.12257. Epub 2015 Jan 23.


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.


Genome-wide bisulfite sequencing in zygotes identifies demethylation targets and maps the contribution of TET3 oxidation.

Peat JR, Dean W, Clark SJ, Krueger F, Smallwood SA, Ficz G, Kim JK, Marioni JC, Hore TA, Reik W.

Cell Rep. 2014 Dec 24;9(6):1990-2000. doi: 10.1016/j.celrep.2014.11.034. Epub 2014 Dec 12.


Single Cell Genomics meeting in Stockholm: from single cells to cell types.

Scialdone A, Achim K, Marioni JC.

Genome Biol. 2014 Oct 18;15(10):496. doi: 10.1186/s13059-014-0496-x.


Contributions to drug resistance in glioblastoma derived from malignant cells in the sub-ependymal zone.

Piccirillo SG, Spiteri I, Sottoriva A, Touloumis A, Ber S, Price SJ, Heywood R, Francis NJ, Howarth KD, Collins VP, Venkitaraman AR, Curtis C, Marioni JC, Tavaré S, Watts C.

Cancer Res. 2015 Jan 1;75(1):194-202. doi: 10.1158/0008-5472.CAN-13-3131. Epub 2014 Nov 18.


Multi-species, multi-transcription factor binding highlights conserved control of tissue-specific biological pathways.

Ballester B, Medina-Rivera A, Schmidt D, Gonzàlez-Porta M, Carlucci M, Chen X, Chessman K, Faure AJ, Funnell AP, Goncalves A, Kutter C, Lukk M, Menon S, McLaren WM, Stefflova K, Watt S, Weirauch MT, Crossley M, Marioni JC, Odom DT, Flicek P, Wilson MD.

Elife. 2014 Oct 3;3:e02626. doi: 10.7554/eLife.02626.


High-resolution mapping of transcriptional dynamics across tissue development reveals a stable mRNA-tRNA interface.

Schmitt BM, Rudolph KL, Karagianni P, Fonseca NA, White RJ, Talianidis I, Odom DT, Marioni JC, Kutter C.

Genome Res. 2014 Nov;24(11):1797-807. doi: 10.1101/gr.176784.114. Epub 2014 Aug 13.


Long-range enhancers regulating Myc expression are required for normal facial morphogenesis.

Uslu VV, Petretich M, Ruf S, Langenfeld K, Fonseca NA, Marioni JC, Spitz F.

Nat Genet. 2014 Jul;46(7):753-8. doi: 10.1038/ng.2971. Epub 2014 May 25.


Random monoallelic gene expression increases upon embryonic stem cell differentiation.

Eckersley-Maslin MA, Thybert D, Bergmann JH, Marioni JC, Flicek P, Spector DL.

Dev Cell. 2014 Feb 24;28(4):351-65. doi: 10.1016/j.devcel.2014.01.017.


Expression Atlas update--a database of gene and transcript expression from microarray- and sequencing-based functional genomics experiments.

Petryszak R, Burdett T, Fiorelli B, Fonseca NA, Gonzalez-Porta M, Hastings E, Huber W, Jupp S, Keays M, Kryvych N, McMurry J, Marioni JC, Malone J, Megy K, Rustici G, Tang AY, Taubert J, Williams E, Mannion O, Parkinson HE, Brazma A.

Nucleic Acids Res. 2014 Jan;42(Database issue):D926-32. doi: 10.1093/nar/gkt1270. Epub 2013 Dec 4.


Accounting for technical noise in single-cell RNA-seq experiments.

Brennecke P, Anders S, Kim JK, Kołodziejczyk AA, Zhang X, Proserpio V, Baying B, Benes V, Teichmann SA, Marioni JC, Heisler MG.

Nat Methods. 2013 Nov;10(11):1093-5. doi: 10.1038/nmeth.2645. Epub 2013 Sep 22. Erratum in: Nat Methods. 2014 Feb;11(2):210.


Cooperativity and rapid evolution of cobound transcription factors in closely related mammals.

Stefflova K, Thybert D, Wilson MD, Streeter I, Aleksic J, Karagianni P, Brazma A, Adams DJ, Talianidis I, Marioni JC, Flicek P, Odom DT.

Cell. 2013 Aug 1;154(3):530-40. doi: 10.1016/j.cell.2013.07.007.


Peroxiredoxin-3 is overexpressed in prostate cancer and promotes cancer cell survival by protecting cells from oxidative stress.

Whitaker HC, Patel D, Howat WJ, Warren AY, Kay JD, Sangan T, Marioni JC, Mitchell J, Aldridge S, Luxton HJ, Massie C, Lynch AG, Neal DE.

Br J Cancer. 2013 Aug 20;109(4):983-93. doi: 10.1038/bjc.2013.396. Epub 2013 Jul 23.


bioWeb3D: an online webGL 3D data visualisation tool.

Pettit JB, Marioni JC.

BMC Bioinformatics. 2013 Jun 7;14:185. doi: 10.1186/1471-2105-14-185.

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