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Items: 16

1.

The role of the microbiome in NAFLD and NASH.

Kolodziejczyk AA, Zheng D, Shibolet O, Elinav E.

EMBO Mol Med. 2018 Dec 27. pii: e9302. doi: 10.15252/emmm.201809302. [Epub ahead of print] Review.

2.

Bile acids in glucose metabolism in health and disease.

Shapiro H, Kolodziejczyk AA, Halstuch D, Elinav E.

J Exp Med. 2018 Feb 5;215(2):383-396. doi: 10.1084/jem.20171965. Epub 2018 Jan 16. Review.

3.

Global and targeted approaches to single-cell transcriptome characterization.

Kolodziejczyk AA, Lönnberg T.

Brief Funct Genomics. 2018 Jul 1;17(4):209-219. doi: 10.1093/bfgp/elx025.

4.

Establishment of mouse expanded potential stem cells.

Yang J, Ryan DJ, Wang W, Tsang JC, Lan G, Masaki H, Gao X, Antunes L, Yu Y, Zhu Z, Wang J, Kolodziejczyk AA, Campos LS, Wang C, Yang F, Zhong Z, Fu B, Eckersley-Maslin MA, Woods M, Tanaka Y, Chen X, Wilkinson AC, Bussell J, White J, Ramirez-Solis R, Reik W, Göttgens B, Teichmann SA, Tam PPL, Nakauchi H, Zou X, Lu L, Liu P.

Nature. 2017 Oct 19;550(7676):393-397. doi: 10.1038/nature24052. Epub 2017 Oct 11.

5.

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
6.

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.

7.

Aging increases cell-to-cell transcriptional variability upon immune stimulation.

Martinez-Jimenez CP, Eling N, Chen HC, Vallejos CA, Kolodziejczyk AA, Connor F, Stojic L, Rayner TF, Stubbington MJT, Teichmann SA, de la Roche M, Marioni JC, Odom DT.

Science. 2017 Mar 31;355(6332):1433-1436. doi: 10.1126/science.aah4115.

8.

Dysbiosis and the immune system.

Levy M, Kolodziejczyk AA, Thaiss CA, Elinav E.

Nat Rev Immunol. 2017 Apr;17(4):219-232. doi: 10.1038/nri.2017.7. Epub 2017 Mar 6. Review.

PMID:
28260787
9.

Classification of low quality cells from single-cell RNA-seq data.

Ilicic T, Kim JK, Kolodziejczyk AA, Bagger FO, McCarthy DJ, Marioni JC, Teichmann SA.

Genome Biol. 2016 Feb 17;17:29. doi: 10.1186/s13059-016-0888-1.

10.

Corrigendum: Characterizing noise structure in single-cell RNA-seq distinguishes genuine from technical stochastic allelic expression.

Kim JK, Kolodziejczyk AA, Ilicic T, Teichmann SA, Marioni JC.

Nat Commun. 2016 Jan 11;7:10415. doi: 10.1038/ncomms10415. No abstract available.

11.
12.

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.

13.

Single-cell transcriptomic reconstruction reveals cell cycle and multi-lineage differentiation defects in Bcl11a-deficient hematopoietic stem cells.

Tsang JC, Yu Y, Burke S, Buettner F, Wang C, Kolodziejczyk AA, Teichmann SA, Lu L, Liu P.

Genome Biol. 2015 Sep 21;16:178. doi: 10.1186/s13059-015-0739-5.

14.

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.

15.

Single-cell RNA sequencing reveals T helper cells synthesizing steroids de novo to contribute to immune homeostasis.

Mahata B, Zhang X, Kolodziejczyk AA, Proserpio V, Haim-Vilmovsky L, Taylor AE, Hebenstreit D, Dingler FA, Moignard V, Göttgens B, Arlt W, McKenzie AN, Teichmann SA.

Cell Rep. 2014 May 22;7(4):1130-42. doi: 10.1016/j.celrep.2014.04.011. Epub 2014 May 10.

16.

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.

PMID:
24056876

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