Academic Journal
Piecewise polynomial representations of genomic tracks.
| Τίτλος: | Piecewise polynomial representations of genomic tracks. |
|---|---|
| Συγγραφείς: | Tarabichi, Maxime, Detours, Vincent, Konopka, Tomasz |
| Πηγή: | PloS one, 7 (11 |
| Έτος έκδοσης: | 2012 |
| Συλλογή: | DI-fusion : dépôt institutionnel de l'Université libre de Bruxelles (ULB) |
| Θεματικοί όροι: | Sciences biomédicales, Biotechnologie, Biologie, Base Sequence -- genetics, Chromosome Mapping -- methods, Exons -- genetics, Genome -- genetics, Microarray Analysis -- methods, Models, Genetic, Statistical, Sequence Alignment -- methods, Sequence Analysis, DNA -- methods, Software |
| Περιγραφή: | Genomic data from micro-array and sequencing projects consist of associations of measured values to chromosomal coordinates. These associations can be thought of as functions in one dimension and can thus be stored, analyzed, and interpreted as piecewise-polynomial curves. We present a general framework for building piecewise polynomial representations of genome-scale signals and illustrate some of its applications via examples. We show that piecewise constant segmentation, a typical step in copy-number analyses, can be carried out within this framework for both array and (DNA) sequencing data offering advantages over existing methods in each case. Higher-order polynomial curves can be used, for example, to detect trends and/or discontinuities in transcription levels from RNA-seq data. We give a concrete application of piecewise linear functions to diagnose and quantify alignment quality at exon borders (splice sites). Our software (source and object code) for building piecewise polynomial models is available at http://sourceforge.net/projects/locsmoc/. ; Journal Article ; SCOPUS: ar.j ; info:eu-repo/semantics/published |
| Τύπος εγγράφου: | article in journal/newspaper |
| Περιγραφή αρχείου: | 1 full-text file(s): application/pdf |
| Γλώσσα: | English |
| Relation: | uri/info:doi/10.1371/journal.pone.0048941; uri/info:pmid/23166601; uri/info:scp/84869215614; uri/info:pmcid/PMC3499510; https://dipot.ulb.ac.be/dspace/bitstream/2013/133346/4/doi_115707.pdf |
| Διαθεσιμότητα: | https://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/133346 https://dipot.ulb.ac.be/dspace/bitstream/2013/133346/4/doi_115707.pdf |
| Αριθμός Καταχώρησης: | edsbas.8AA9D2C9 |
| Βάση Δεδομένων: | BASE |
| Η περιγραφή δεν είναι διαθέσιμη |