Significance analysis and statistical mechanics: an application to clustering
View Publication On PubMed
Export 
BiBTeXThis Letter addresses the statistical significance of structures in random data: given a set of vectors and a measure of mutual similarity, how likely is it that a subset of these vectors forms a cluster with enhanced similarity among its elements? The computation of this cluster p value for randomly distributed vectors is mapped onto a well-defined problem of statistical mechanics. We solve this problem analytically, establishing a connection between the physics of quenched disorder and multiple-testing statistics in clustering and related problems. In an application to gene expression data, we find a remarkable link between the statistical significance of a cluster and the functional relationships between its genes.
SEEK ID: https://fairdomhub.org/publications/111
PubMed ID: 21231375
Projects: Noisy-Strep
Publication type: Not specified
Journal: Phys. Rev. Lett.
Citation:
Date Published: 27th Nov 2009
Registered Mode: Not specified
Export PNG
Download
Submitter
Views: 4184
Created: 23rd Feb 2011 at 10:44
Last updated: 8th Dec 2022 at 17:26
TagsThis item has not yet been tagged.
AttributionsNone
Related items
Projects: Noisy-Strep
Institutions: University of Cologne
With a background in the statistical mechanics of disordered systems, my research focusses on the interface between statistical physics and molecular biology. At the centre is the relationship between fluctuations and noise in biological systems, the corresponding statistical ensembles, and biological function. This connection emerges at very different levels and timescales, from stochastic modeling of gene expression to the population dynamics of regulatory DNA.
SysMO is a European transnational funding and research initiative on "Systems Biology of Microorganisms".
The goal pursued by SysMO was to record and describe the dynamic molecular processes going on in unicellular microorganisms in a comprehensive way and to present these processes in the form of computerized mathematical models.
Systems biology will raise biomedical and biotechnological research to a new quality level and contribute markedly to progress in understanding. Pooling European research ...
Projects: BaCell-SysMO, COSMIC, SUMO, KOSMOBAC, SysMO-LAB, PSYSMO, SCaRAB, MOSES, TRANSLUCENT, STREAM, SulfoSys, SysMO DB, SysMO Funders, SilicoTryp, Noisy-Strep
Web page: http://sysmo.net/
Bistable switches are the key elements of the regulatory networks governing cell development, differentiation and life-strategy decisions. Transcriptional noise is a main determinant that causes switching between different states in bistable systems. By using the human pathogen Streptococcus pneumoniae as a model bacterium, we will investigate how transcriptional fidelity and processivity influence (noisy) gene expression and participate in bistability. To study this question, we will use both ...
Programme: SysMO
Public web page: http://www.sysmo.net/index.php?index=163
WT 110901_SN865_B_L006_R1_GQC-28- ATCACG.fastq.gz 100 19.624.852 1,29
llumina fastq format 4 lines for each sequence: 1- Unique identifier, with the following format: @::::#/ 2- Sequence (A, T, C ,G or N (undetermined) only) 3- Orientation (always forward without mapping) 4- Quality value for each base, corresponding to a Phred-like score encoded in ASCII format, with an offset of of 33 (e.g. “J” gives a value of 41) and is in accordance with sanger FASTQ format. The sequence file is compressed ...
Creator: Jan-Willem Veening
Submitter: Jan-Willem Veening
