| dc.creator |
Nieto-Díaz, Manuel |
|
| dc.creator |
Pita-Thomas, Daniel W. |
|
| dc.creator |
Nieto-Sampedro, Manuel |
|
| dc.date |
2008-04-02T12:26:59Z |
|
| dc.date |
2008-04-02T12:26:59Z |
|
| dc.date |
2007-04-03 |
|
| dc.date.accessioned |
2017-01-31T01:01:26Z |
|
| dc.date.available |
2017-01-31T01:01:26Z |
|
| dc.identifier |
BMC Genomics. 2007; 8: 89 |
|
| dc.identifier |
1471-2164 |
|
| dc.identifier |
http://hdl.handle.net/10261/3421 |
|
| dc.identifier |
10.1186/1471-2164-8-89 |
|
| dc.identifier.uri |
http://dspace.mediu.edu.my:8181/xmlui/handle/10261/3421 |
|
| dc.description |
This article is available from: http://www.biomedcentral.com/1471-2164/8/89 |
|
| dc.description |
[Background] Gene expression profiles of non-model mammals may provide valuable data for biomedical
and evolutionary studies. However, due to lack of sequences compared. The results show that crossspecies
hybridization affected neither the distribution of the hybridization reproducibility information of other species, DNA
microarrays are currently restricted to humans and a few model species. This limitation may be overcome
by using arrays developed for a given species to analyse gene expression in a related one, an approach
known as "cross-species analysis". In spite of its potential usefulness, the accuracy and reproducibility of
the gene expression measures obtained in this way are still open to doubt. The present study examines
whether or not hybridization values from cross-species analyses are as reproducible as those from samespecies
analyses when using Affymetrix oligonucleotide microarrays. |
|
| dc.description |
[Results] The reproducibility of the probe data obtained hybridizing deer, Old-World primates, and human
RNA samples to Affymetrix human GeneChip® U133 Plus 2.0 was compared. The results show that crossspecies
hybridization affected neither the distribution of the hybridization reproducibility among different
categories, nor the reproducibility values of the individual probes. Our analyses also show that a 0.5% of
the probes analysed in the U133 plus 2.0 GeneChip are significantly associated to un-reproducible
hybridizations. Such probes-called in the text un-reproducible probe sequences- do not increase in
number in cross-species analyses. |
|
| dc.description |
[Conclusion] Our study demonstrates that cross-species analyses do not significantly affect hybridization
reproducibility of GeneChips, at least within the range of the mammal species analysed here. The
differences in reproducibility between same-species and cross-species analyses observed in previous
studies were probably caused by the analytical methods used to calculate the gene expression measures.
Together with previous observations on the accuracy of GeneChips for cross-species analysis, our
analyses demonstrate that cross-species hybridizations may provide useful gene expression data.
However, the reproducibility and accuracy of these measures largely depends on the use of appropriated
algorithms to derive the gene expression data from the probe data. Also, the identification of probes
associated to un-reproducible hybridizations-useless for gene expression analyses- in the studied
GeneChip, stress the need of a re-evaluation of the probes' performance. |
|
| dc.description |
W.P.-T. was supported by a Predoctoral Fellowship from the
Spanish Ministry of Science and Education (FPI Program). This work was supported by the Spanish Ministry of Science and Education (grant
SAF2002-04016). |
|
| dc.description |
Peer reviewed |
|
| dc.format |
4412416 bytes |
|
| dc.format |
84992 bytes |
|
| dc.format |
30208 bytes |
|
| dc.format |
40960 bytes |
|
| dc.format |
476051 bytes |
|
| dc.format |
5016014 bytes |
|
| dc.format |
43520 bytes |
|
| dc.format |
3577344 bytes |
|
| dc.format |
76288 bytes |
|
| dc.format |
349184 bytes |
|
| dc.format |
application/vnd.ms-excel |
|
| dc.format |
application/vnd.ms-excel |
|
| dc.format |
application/vnd.ms-excel |
|
| dc.format |
application/vnd.ms-excel |
|
| dc.format |
application/pdf |
|
| dc.format |
text/plain |
|
| dc.format |
application/vnd.ms-excel |
|
| dc.format |
application/vnd.ms-excel |
|
| dc.format |
application/vnd.ms-excel |
|
| dc.format |
application/vnd.ms-excel |
|
| dc.language |
eng |
|
| dc.publisher |
BioMed Central |
|
| dc.relation |
Publisher’s version |
|
| dc.rights |
openAccess |
|
| dc.title |
Cross-species analysis of gene expression in non-model mammals: reproducibility of hybridization on high density oligonucleotide microarrays |
|
| dc.type |
Artículo |
|