abstract = {The common approach to the multiplicity problem calls for controlling the familywise error rate (FWER). This approach, though, has faults, and we point out a few. A different approach to problems of multiple significance testing is presented. It calls for controlling the expected proportion of falsely rejected hypotheses-the false discovery rate. This error rate is equivalent to the FWER when all hypotheses are true but is smaller otherwise. Therefore, in problems where the control of the false discovery rate rather than that of the FWER is desired, there is potential for a gain in power. A simple sequential Bonferroni-type procedure is proved to control the false discovery rate for independent test statistics, and a simulation study shows that the gain in power is substantial. The use of the new procedure and the appropriateness of the criterion are illustrated with examples.},
author = {Street, Kelly and Risso, Davide and Fletcher, Russell B and Das, Diya and Ngai, John and Yosef, Nir and Purdom, Elizabeth and Dudoit, Sandrine},
title = {Slingshot: Cell lineage and pseudotime inference for single-cell transcriptomics},
year = {2017},
doi = {10.1101/128843},
publisher = {Cold Spring Harbor Laboratory},
abstract = {Single-cell transcriptomics allows researchers to investigate complex communities of heterogeneous cells. These methods can be applied to stem cells and their descendants in order to chart the progression from multipotent progenitors to fully differentiated cells. While a number of statistical and computational methods have been proposed for analyzing cell lineages, the problem of accurately characterizing multiple branching lineages remains difficult to solve. Here, we introduce a novel method, Slingshot, for inferring multiple developmental lineages from single-cell gene expression data. Slingshot is a uniquely robust and flexible tool for inferring developmental lineages and ordering cells to reflect continuous, branching processes.},
author={van der Maaten, Laurens and Hinton, Geoffrey},
...
...
@@ -244,3 +305,31 @@
}
@article{Street_2017,
author={Street, Kelly and Risso, Davide and Fletcher, Russell B and Das, Diya and Ngai, John and Yosef, Nir and Purdom, Elizabeth and Dudoit, Sandrine},
title={Slingshot: Cell lineage and pseudotime inference for single-cell transcriptomics},
year={2017},
doi={10.1101/128843},
publisher={Cold Spring Harbor Laboratory},
abstract={Single-cell transcriptomics allows researchers to investigate complex communities of heterogeneous cells. These methods can be applied to stem cells and their descendants in order to chart the progression from multipotent progenitors to fully differentiated cells. While a number of statistical and computational methods have been proposed for analyzing cell lineages, the problem of accurately characterizing multiple branching lineages remains difficult to solve. Here, we introduce a novel method, Slingshot, for inferring multiple developmental lineages from single-cell gene expression data. Slingshot is a uniquely robust and flexible tool for inferring developmental lineages and ordering cells to reflect continuous, branching processes.},
