Quantification of protein abundance and interaction defines a mechanism for operation of the circadian clock

Autor: Alex A Koch, James S Bagnall, Nicola J Smyllie, Nicola Begley, Antony D Adamson, Jennifer L Fribourgh, David G Spiller, Qing-Jun Meng, Carrie L Partch, Korbinian Strimmer, Thomas A House, Michael H Hastings, Andrew SI Loudon

Publikováno v: eLife, Vol 11 (2022)

The mammalian circadian clock exerts control of daily gene expression through cycles of DNA binding. Here, we develop a quantitative model of how a finite pool of BMAL1 protein can regulate thousands of target sites over daily time scales. We used qu

Externí odkaz: https://doaj.org/article/12909e7319834f59a2d8e05b4469036f

Inferring Gene Dependency Networks from Genomic Longitudinal Data: a Functional Data Approach

Autor: Rainer Opgen-Rhein, Korbinian Strimmer

Publikováno v: Revstat Statistical Journal, Vol 4, Iss 1 (2006)

A key aim of systems biology is to unravel the regulatory interactions among genes and gene products in a cell. Here we investigate a graphical model that treats the observed gene expression over time as realizations of random curves. This approach i

Externí odkaz: https://doaj.org/article/d3463848ebe942bcb943597624c1e933

Quantification of protein abundance and interaction defines a mechanism for operation of the circadian clock

Autor: James S Bagnall, Alex A Koch, Nicola J Smyllie, Nicola Begley, Antony D Adamson, Jennifer L Fribourgh, David G Spiller, Qing-Jun Meng, Carrie L Partch, Korbinian Strimmer, Thomas A House, Michael H Hastings, Andrew SI Loudon

Publikováno v: Koch, A, Bagnall, J, Smyllie, N J, Begley, N, Adamson, A, Fribourgh, J L, Spiller, D, Meng, Q-J, Partch, C L, Strimmer, K, House, T, Hastings, M H & Loudon, A 2022, ' Quantification of protein abundance and interaction defines a mechanism for operation of the circadian clock ', eLife, vol. 11, e73976 . https://doi.org/10.7554/eLife.73976

The mammalian circadian clock exerts control of daily gene expression through cycles of DNA binding. Here, we develop a quantitative model of how a finite pool of BMAL1 protein can regulate thousands of target sites over daily time scales. We used qu

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::bda5ec2b702d72fdf720c555831088b1
https://research.manchester.ac.uk/en/publications/238e144d-a42e-4255-b827-1bca6bd15350

Quantification of circadian interactions and protein abundance defines a mechanism for operational stability of the circadian clock

Autor: Michael H. Hastings, Korbinian Strimmer, Andrew S. I. Loudon, Nicola J. Smyllie, Alex A. Koch, Thomas House, Nicola Begley, Carrie L. Partch, Antony Adamson, David G. Spiller, Qing-Jun Meng, Jennifer L. Fribourgh, James Bagnall

The mammalian circadian clock exerts substantial control of daily gene expression through cycles of DNA binding. Understanding of mechanisms driving the circadian clock is hampered by lack of quantitative data, without which predictive mathematical m

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::331ede3812dadd198d35b62e38ea7712
https://doi.org/10.1101/2021.08.27.456017

Gene ranking and biomarker discovery under correlation

Autor: Verena Zuber, Korbinian Strimmer

Publikováno v: Bioinformatics. 25:2700-2707

Biomarker discovery and gene ranking is a standard task in genomic high throughput analysis. Typically, the ordering of markers is based on a stabilized variant of the t-score, such as the moderated t or the SAM statistic. However, these procedures i

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::3464ff00e3729d3844fe73c3f872226e
https://doi.org/10.1093/bioinformatics/btp460