Boosting EM for Radiation Hybrid and Genetic Mapping

Schiex, Thomas; Chabrier, Patrick; Bouchez, Martin; Milan, Denis

doi:10.1007/3-540-44696-6_4

Cited by 32 publications

(24 citation statements)

References 10 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The stepwise locus ordering strategy using the equal retention probability model was employed. This model combines minimization of the obligate number of breaks required to explain the observed retention patterns with maximum-likelihood analysis (Schiex et al, 2001).…”

Section: Rh Mappingmentioning

confidence: 99%

“…Then, in order to examine whether the arrangement of genes along the SSCq11 → q21 region is conserved in comparison with the HSA 19q13 region, the 49 genes, together with the first-generation markers in the swine chromosomal region, were ordered using the Carthagene software for RH mapping (Schiex et al, 2001). The most likely order of genes including framework markers of the IMpRH map was calculated (Fig.…”

Section: Comparative Map Between Swine and Human Chromosomesmentioning

confidence: 99%

See 1 more Smart Citation

Construction of a high-resolution comparative gene map between swine chromosome region 6q11→q21 and human chromosome 19 q-arm by RH mapping of 51 genes

Bosak

Faraut²,

Mikawa³

et al. 2003

Cytogenet Genome Res

View full text Add to dashboard Cite

A comprehensive and comparative map was constructed for the porcine chromosome (SSC) 6q11→q21 region, where the gene(s) responsible for the maldevelopment of embryos are localized using swine populations of the National Institute of Animal Industry, Japan (NIAI). Since the chromosomal region corresponds to a region of human chromosome (HSA) 19q13.1→q13.3 based on bi-directional chromosome painting, primer pairs were designed from porcine cDNA sequences identified, on a sequence comparison basis, as being transcripts from genes orthologous to those in the HSA region. Fifty-one genes were successfully assigned to a swine radiation hybrid (RH) map with LOD scores greater than 6. ERF and PSMD8 genes were assigned to SSC4 and SSC1, respectively. The remaining 49 genes were assigned to SSC6, demonstrating that the synteny between the SSC6 and HSA19 chromosomal regions is essentially conserved, therefore confirming, the results of bi-directional chromosome painting. However, when examined precisely, rearrangements have apparently occurred within the region of conserved synteny. For the ERF and PSMD8 genes assigned to SSCs other than SSC6, additional mapping using somatic cell hybrid (SCH) panels was performed to confirm the results of RH-mapping.

show abstract

Section: Rh Mappingmentioning

confidence: 99%

Section: Comparative Map Between Swine and Human Chromosomesmentioning

confidence: 99%

Construction of a high-resolution comparative gene map between swine chromosome region 6q11→q21 and human chromosome 19 q-arm by RH mapping of 51 genes

Bosak

Faraut²,

Mikawa³

et al. 2003

Cytogenet Genome Res

View full text Add to dashboard Cite

show abstract

“…inra.fr/). This initial map is already a valuable resource for medium-resolution mapping in pigs and to date, framework maps are being constructed in our laboratory by analyzing the data entered in the IMpRH database (around 4,000 markers) with the Carthagene software (Schiex et al, 2001).…”

mentioning

confidence: 99%

Generation and characterization of a 12,000-rad radiation hybrid panel for fine mapping in pig

Yerle¹,

Pinton²,

Delcros³

et al. 2002

Cytogenet Genome Res

View full text Add to dashboard Cite

We have constructed a 12,000-rad porcine whole-genome radiation hybrid panel to complement the first generation 7,000-rad panel (IMpRH) and allow higher resolution mapping studies both in specific areas of interest and on the whole genome. We analyzed 243 hybrid clones on the basis of their marker retention frequency to produce a final panel of 90 hybrid clones with an average retention frequency of 35.4%. The resolution of this 12,000-rad panel (IMNpRH2) was compared to the resolution of the 7,000-rad panel (IMpRH) by constructing framework maps in the 2.4-Mb region of porcine chromosome 15 containing the acid meat RN gene. In this region, two-point analysis was used to estimate RH distances and demonstrates their reliability with the estimation of physical distances. This study demonstrates that the 12,000-rad panel constitutes a powerful tool for constructing high-resolution maps. Indeed, the resolution of IMNpRH2 (12–14 kb/cR_12,000) is two to three times more than that of IMpRH (35–37 kb/cR_7,000). As expected, the increase in the radiation dose allows an increase of the mapping resolution in terms of kb/cR with the same suppleness of use for mapping experiments. In addition the RH map constructed in the region investigated proved to be more homogeneous on IMNpRH2 than on IMpRH.

show abstract

“…Primers and PCR conditions for radiation hybrid mapping were the same as those used for screening the BAC library. The Carthagene software (Schiex et al, 2002) was used to perform twopoint and multipoint analyses of the radiation hybrid data and to provide a map of the region where the MGLL gene is located (Fig. 2).…”

Section: Radiation Hybrid (Rh) Mappingmentioning

confidence: 99%

Assignment of monoglyceride lipase (MGLL) gene to bovine chromosome 22q24 by in situ hybridization and confirmation by radiation hybrid mapping

Roy

Gautier²,

Hayes³

et al. 2003

Cytogenet Genome Res

View full text Add to dashboard Cite

Boosting EM for Radiation Hybrid and Genetic Mapping

Cited by 32 publications

References 10 publications

Construction of a high-resolution comparative gene map between swine chromosome region 6q11→q21 and human chromosome 19 q-arm by RH mapping of 51 genes

Construction of a high-resolution comparative gene map between swine chromosome region 6q11→q21 and human chromosome 19 q-arm by RH mapping of 51 genes

Generation and characterization of a 12,000-rad radiation hybrid panel for fine mapping in pig

Assignment of monoglyceride lipase (MGLL) gene to bovine chromosome 22q24 by in situ hybridization and confirmation by radiation hybrid mapping

Contact Info

Product

Resources

About