In the framework of large-scale genotypic studies (describing the distribution of allele frequencies inside human genome) we characterize the Linkage Disequilibrium (LD) matrix as a network of relationships between alleles. We propose a suitable matrix discretization threshold, after a characterization of the distribution of noisy values inside LD matrix. We compare the main network parameters of a real LD matrix with two null models (Erdos-Renyi random network and a rewiring of the original network), in order to highlight the peculiar features of the LD network. We conclude stating the need of adequate computing tools for handling the high-dimensional data coming from Genome-Wide genotyping datasets.

REMONDINI D. , VERONDINI E., LESCAI F., ZIRONI I., CASTELLANI G. (2009). Network approaches to Genome-Wide Association studies. NUOVO CIMENTO DELLA SOCIETÀ ITALIANA DI FISICA. C, GEOPHYSICS AND SPACE PHYSICS, 32(2), 19-22 [10.1393/ncc/i2009-10366-y].

Network approaches to Genome-Wide Association studies

REMONDINI, DANIEL;VERONDINI, ETTORE;LESCAI, FRANCESCO;ZIRONI, ISABELLA;CASTELLANI, GASTONE
2009

Abstract

In the framework of large-scale genotypic studies (describing the distribution of allele frequencies inside human genome) we characterize the Linkage Disequilibrium (LD) matrix as a network of relationships between alleles. We propose a suitable matrix discretization threshold, after a characterization of the distribution of noisy values inside LD matrix. We compare the main network parameters of a real LD matrix with two null models (Erdos-Renyi random network and a rewiring of the original network), in order to highlight the peculiar features of the LD network. We conclude stating the need of adequate computing tools for handling the high-dimensional data coming from Genome-Wide genotyping datasets.
2009
REMONDINI D. , VERONDINI E., LESCAI F., ZIRONI I., CASTELLANI G. (2009). Network approaches to Genome-Wide Association studies. NUOVO CIMENTO DELLA SOCIETÀ ITALIANA DI FISICA. C, GEOPHYSICS AND SPACE PHYSICS, 32(2), 19-22 [10.1393/ncc/i2009-10366-y].
REMONDINI D. ; VERONDINI E.; LESCAI F.; ZIRONI I.; CASTELLANI G.
File in questo prodotto:
Eventuali allegati, non sono esposti

I documenti in IRIS sono protetti da copyright e tutti i diritti sono riservati, salvo diversa indicazione.

Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/11585/78831
 Attenzione

Attenzione! I dati visualizzati non sono stati sottoposti a validazione da parte dell'ateneo

Citazioni
  • ???jsp.display-item.citation.pmc??? ND
  • Scopus 0
  • ???jsp.display-item.citation.isi??? 0
social impact