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פותח על ידי קלירמאש פתרונות בע"מ -
Self-Custom-Made SFP Arrays for Nonmodel Organisms
Year:
2012
Source of publication :
Methods in Molecular Biology
Authors :
אופיר, רון
;
.
שרמן, עמיר
;
.
Volume :
815 (Functional genomics)
Co-Authors:
Facilitators :
From page:
39
To page:
47
(
Total pages:
9
)
Abstract:

Successful genetic mapping is dependent upon a high-density set of markers. Therefore, tools for high-throughput discovery of genetic variation are essential. The most abundant genetic marker is the single-nucleotide polymorphism (SNP). However, except for model organisms, genomic information is still limited. Although high-throughput genomic sequencing technologies are becoming relatively inexpensive, only low-throughput genetic markers are accessible (e.g., simple sequence repeats). The use of sequencing for the discovery and screening of high-density genetic variation in whole populations is still expensive. Alternatively, hybridization of genomic DNA (gDNA) on a reference (either genome or transcriptome) is an efficient approach for genetic screening without knowing the alleles in advance (Borevitz et al. Proc Natl Acad Sci USA 104:12057-12062). We describe a protocol for the design of probes for a high-throughput genetic-marker discovery microarray, termed single feature polymorphism (SFP) array. Starting with consensus cDNA sequences (UniGenes), we use OligoWiz to design T (m)-optimized 50-bp long oligonucleotide probes (Ophir et al. BMC Genomics 11:269, 2010). This design is similar to expression arrays and we point out the differences.

Note:

Link to the volume:

https://www.springer.com/gp/book/9781617794230

Related Files :
crop
Genetic mapping
Genetics
genomics
microarray
Probe design
single feature polymorphism
עוד תגיות
תוכן קשור
More details
DOI :
10.1007/978-1-61779-424-7_4
Article number:
0
Affiliations:
Database:
PubMed
Publication Type:
פרק מתוך ספר
;
.
Language:
אנגלית
Editors' remarks:
ID:
49507
Last updated date:
02/03/2022 17:27
Creation date:
03/09/2020 12:42
Scientific Publication
Self-Custom-Made SFP Arrays for Nonmodel Organisms
815 (Functional genomics)
Self-Custom-Made SFP Arrays for Nonmodel Organisms

Successful genetic mapping is dependent upon a high-density set of markers. Therefore, tools for high-throughput discovery of genetic variation are essential. The most abundant genetic marker is the single-nucleotide polymorphism (SNP). However, except for model organisms, genomic information is still limited. Although high-throughput genomic sequencing technologies are becoming relatively inexpensive, only low-throughput genetic markers are accessible (e.g., simple sequence repeats). The use of sequencing for the discovery and screening of high-density genetic variation in whole populations is still expensive. Alternatively, hybridization of genomic DNA (gDNA) on a reference (either genome or transcriptome) is an efficient approach for genetic screening without knowing the alleles in advance (Borevitz et al. Proc Natl Acad Sci USA 104:12057-12062). We describe a protocol for the design of probes for a high-throughput genetic-marker discovery microarray, termed single feature polymorphism (SFP) array. Starting with consensus cDNA sequences (UniGenes), we use OligoWiz to design T (m)-optimized 50-bp long oligonucleotide probes (Ophir et al. BMC Genomics 11:269, 2010). This design is similar to expression arrays and we point out the differences.

Link to the volume:

https://www.springer.com/gp/book/9781617794230

Scientific Publication
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