Journalartikel - Artikel | 2021 | Peer reviewed

stochprofML: Stochastic Profiling Using Maximum Likelihood Estimation in R

Autor(en)

Amrhein, Lisa ; Fuchs, Christiane

Normierter Zeitschriftentitel

BMC bioinformatics

DOI

10.1186/s12859-021-03970-7

PubMed-ID

33722188

URN

urn:nbn:de:0070-pub-29447355

URL

https://pub.uni-bielefeld.de/record/2944735

Web of Science-ID

000629225900001

Arxiv

2004.08809v1

Weitere Details

Sprache

englisch

Darstellungsform

Text

Band

Artikelnummer

123

Link zum Volltext (intern)

https://pub.uni-bielefeld.de/record/2944735

DDC

330

Background

Tissues are often heterogeneous in their single-cell molecular expression, and this can govern the regulation of cell fate. For the understanding of development and disease, it is important to quantify heterogeneity in a given tissue.
Results

We present the R package stochprofML which uses the maximum likelihood principle to parameterize heterogeneity from the cumulative expression of small random pools of cells. We evaluate the algorithm’s performance in simulation studies and present further application opportunities.
Conclusion

Stochastic profiling outweighs the necessary demixing of mixed samples with a saving in experimental cost and effort and less measurement error. It offers possibilities for parameterizing heterogeneity, estimating underlying pool compositions and detecting differences between cell populations between samples.

Uncertainty Quantification - From Data to Reliable Knowledge

Zitierstile

Amrhein L, Fuchs C. stochprofML: Stochastic Profiling Using Maximum Likelihood Estimation in R. BMC Bioinformatics. 2021;22: 123.

In die Zwischenablage einfügen

Amrhein, L., & Fuchs, C. (2021). stochprofML: Stochastic Profiling Using Maximum Likelihood Estimation in R. BMC Bioinformatics, 22, 123. https://doi.org/10.1186/s12859-021-03970-7

In die Zwischenablage einfügen

Amrhein, Lisa, and Fuchs, Christiane. 2021. “stochprofML: Stochastic Profiling Using Maximum Likelihood Estimation in R”. BMC Bioinformatics 22: 123.

In die Zwischenablage einfügen

Amrhein, L., and Fuchs, C. (2021). stochprofML: Stochastic Profiling Using Maximum Likelihood Estimation in R. BMC Bioinformatics 22:123.

In die Zwischenablage einfügen

Amrhein, L., & Fuchs, C., 2021. stochprofML: Stochastic Profiling Using Maximum Likelihood Estimation in R. BMC Bioinformatics, 22: 123.

In die Zwischenablage einfügen

L. Amrhein and C. Fuchs, “stochprofML: Stochastic Profiling Using Maximum Likelihood Estimation in R”, BMC Bioinformatics, vol. 22, 2021, : 123.

In die Zwischenablage einfügen

Amrhein, L., Fuchs, C.: stochprofML: Stochastic Profiling Using Maximum Likelihood Estimation in R. BMC Bioinformatics. 22, : 123 (2021).

In die Zwischenablage einfügen

Amrhein, Lisa, and Fuchs, Christiane. “stochprofML: Stochastic Profiling Using Maximum Likelihood Estimation in R”. BMC Bioinformatics 22 (2021): 123.

In die Zwischenablage einfügen

Download
RDF/XML-Format
JSON-LD-Format
Turtle-Format
N3-Format

Uncertainty Quantification - From Data to Reliable Knowledge

Zitierstile

Amrhein L, Fuchs C. stochprofML: Stochastic Profiling Using Maximum Likelihood Estimation in R. BMC Bioinformatics. 2021;22: 123.

In die Zwischenablage einfügen

Amrhein, L., & Fuchs, C. (2021). stochprofML: Stochastic Profiling Using Maximum Likelihood Estimation in R. BMC Bioinformatics, 22, 123. https://doi.org/10.1186/s12859-021-03970-7

In die Zwischenablage einfügen

Amrhein, Lisa, and Fuchs, Christiane. 2021. “stochprofML: Stochastic Profiling Using Maximum Likelihood Estimation in R”. BMC Bioinformatics 22: 123.

In die Zwischenablage einfügen

Amrhein, L., and Fuchs, C. (2021). stochprofML: Stochastic Profiling Using Maximum Likelihood Estimation in R. BMC Bioinformatics 22:123.

In die Zwischenablage einfügen

Amrhein, L., & Fuchs, C., 2021. stochprofML: Stochastic Profiling Using Maximum Likelihood Estimation in R. BMC Bioinformatics, 22: 123.

In die Zwischenablage einfügen

L. Amrhein and C. Fuchs, “stochprofML: Stochastic Profiling Using Maximum Likelihood Estimation in R”, BMC Bioinformatics, vol. 22, 2021, : 123.

In die Zwischenablage einfügen

Amrhein, L., Fuchs, C.: stochprofML: Stochastic Profiling Using Maximum Likelihood Estimation in R. BMC Bioinformatics. 22, : 123 (2021).

In die Zwischenablage einfügen

Amrhein, Lisa, and Fuchs, Christiane. “stochprofML: Stochastic Profiling Using Maximum Likelihood Estimation in R”. BMC Bioinformatics 22 (2021): 123.

In die Zwischenablage einfügen

Download
RDF/XML-Format
JSON-LD-Format
Turtle-Format
N3-Format

AMA

APA (6th ed.)

Chicago

Frontiers

Harvard

IEEE

LNCS

MLA