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perlegen snp database  (Perlegen Sciences)

 
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    Perlegen Sciences perlegen snp database
    Perlegen Snp Database, supplied by Perlegen Sciences, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/perlegen+snp+database/perlegen+snp+database/pm37978084-81-4-3
    Average 90 stars, based on 1 article reviews
    perlegen snp database - by Bioz Stars, 2026-09
    90/100 stars

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    other:

    Article Title: Haplotype Association Mapping Identifies a Candidate Gene Region in Mice Infected With Staphylococcus aureus
    Article Snippet: Briefly, genotype data were obtained from the Perlegen SNP database ( http://phenome.jax.org/db/q?rtn=projects/projdet&reqprojid=198 ) for the 13 inbred mouse strains for which phenotype data were collected.

    Article Title: Signatures of positive selection in genes associated with human skin pigmentation as revealed from analyses of single nucleotide polymorphisms.
    Article Snippet: Signatures of Positive Selection in Genes Associated with Human Skin Pigmentation as Revealed from Analyses of Single Nucleotide Polymorphisms O. Lao1,2, J. M. de Gruijter1,2, K. van Duijn1,2, A. Navarro3 and M. Kayser1∗ 1Department of Forensic Molecular Biology, Erasmus University Medical Centre Rotterdam, The Netherlands 2Departments of Biology, Netherlands Forensic Institute, The Hague, The Netherlands 3Institucio Catalana de Reserca i Estudis Avancats (ICREA), and Unitat de Biologia Evolutiva, Departament de Ciencies de la vida i de la salut, Universitat Pompeu Fabra, Barcelona, Catalonia, Spain

    Article Title: Strain screen and haplotype association mapping of wheel running in inbred mouse strains.
    Article Snippet: In fact, we had initially designed the study to reach the 40-mouse strain minimum, but with the release of the second phase of the Perlegen SNP database, which did not include the BALB/cJ, C3Heb/FeJ, and C57BL/10J strains, we did not have the full 40-strain cohort and other inbred strains were not readily available.

    Article Title: Cell-type based analysis of microRNA profiles in the mouse brain
    Article Snippet: None of the inferred A-to-I editing sites was found to correspond to known SNPs by checking in the Perlegen SNP database and dbSNP.

    Sequencing:

    Article Title: Glucose tolerance female-specific QTL mapped in collaborative cross mice.
    Article Snippet: .. We used the Perlegen SNP database to test sequence variants globally and the Sanger SNP database for individual genes. ..

    Article Title: Mapping novel QTL and fine mapping of previously identified QTL associated with glucose tolerance using the collaborative cross mice.
    Article Snippet: .. We use the Perlegen SNP database (http:// mouse. perle gen. com/mouse/download.html) to test sequence variants globally and the Sanger mouse genomes database (http:// www. sanger. ac. uk/ resources/mouse/genomes/) for individual genes. ..

    Article Title: Genetic mapping of novel modifiers for Apc Min induced intestinal polyps’ development using the genetic architecture power of the collaborative cross mice
    Article Snippet: .. We use the Perlegen SNP database ( http://mouse.perlegen.com/mouse/download.html ) to test sequence variants globally and the Sanger mouse genomes database ( http://www.sanger.ac.uk/resources/mouse/genomes/ ) for individual genes. ..



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    snp genotype information in the perlegen mouse snp database  (Perlegen Sciences)
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    (A) Allele counts for Perlegen <t>SNP</t> NES08901860, NES08901861, NES08901863 and NES08901864. The blue bars (from left to right) represent the Illumina read counts from the paternal allele in PWD x AKR and AKR x PWD F1s respectively <t>(maternal</t> <t>genotype</t> listed first). The red bars represent the maternal allele Illumina read counts. (B) Sanger sequencing verification for Perlegen SNP NES08901861. We discovered an adjacent SNP position before NES08901861. The target sequence is GCCCT(AC/GA)ATCT. (C), Pyrosequencing verification for Perlegen SNP NES08901861. The target sequence is GCCCT(AC/GA)ATCT.
    Snp Genotype Information In The Perlegen Mouse Snp Database, supplied by Perlegen Sciences, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    (A) Allele counts for Perlegen SNP NES08901860, NES08901861, NES08901863 and NES08901864. The blue bars (from left to right) represent the Illumina read counts from the paternal allele in PWD x AKR and AKR x PWD F1s respectively (maternal genotype listed first). The red bars represent the maternal allele Illumina read counts. (B) Sanger sequencing verification for Perlegen SNP NES08901861. We discovered an adjacent SNP position before NES08901861. The target sequence is GCCCT(AC/GA)ATCT. (C), Pyrosequencing verification for Perlegen SNP NES08901861. The target sequence is GCCCT(AC/GA)ATCT.

    Journal: PLoS ONE

    Article Title: Transcriptome-Wide Identification of Novel Imprinted Genes in Neonatal Mouse Brain

    doi: 10.1371/journal.pone.0003839

    Figure Lengend Snippet: (A) Allele counts for Perlegen SNP NES08901860, NES08901861, NES08901863 and NES08901864. The blue bars (from left to right) represent the Illumina read counts from the paternal allele in PWD x AKR and AKR x PWD F1s respectively (maternal genotype listed first). The red bars represent the maternal allele Illumina read counts. (B) Sanger sequencing verification for Perlegen SNP NES08901861. We discovered an adjacent SNP position before NES08901861. The target sequence is GCCCT(AC/GA)ATCT. (C), Pyrosequencing verification for Perlegen SNP NES08901861. The target sequence is GCCCT(AC/GA)ATCT.

    Article Snippet: To identify the SNP positions in the mouse RefSeq database, we used the SNP genotype and information in the Perlegen mouse SNP database ( http://mouse.perlegen.com ).

    Techniques: Sequencing

    (A) Allele counts for the 4 new SNPs discovered by assembling the Solexa reads. The blue bars (from left to right) stand for the counts from the paternal allele in PWD x AKR and AKR x PWD F1s respectively. The red bars represent the maternal allele counts. Four novel SNPs were discovered in one Gtl2 transcript (XR_035484), consistent with monoallelic expression from the maternal allele in both reciprocal crosses and confirmed by Pyrosequencing. Another splicing variant of Gtl2 , NM_144513, previously was found by us to be imprinted using a custom Agilent allele-specific microarray (unpublished), with an 1,847-fold difference in probe intensity in PWD x AKR cross and 793-fold in the reciprocal cross. A Perlegen SNP (NES17649478) in NM_144513 but not XR_035484 was verified by Pyrosequencing. We conclude that both XR_035484 and NM_144513 are imprinted in the neonatal brain. (B) Pyrosequencing verification for novel SNP1 in Gtl2 . The target sequence is TGT(A/G)GAGGGA. (C) Pyrosequencing verification for Perlegen SNP NES17649478. The target sequence is GA(A/G)GATAG.

    Journal: PLoS ONE

    Article Title: Transcriptome-Wide Identification of Novel Imprinted Genes in Neonatal Mouse Brain

    doi: 10.1371/journal.pone.0003839

    Figure Lengend Snippet: (A) Allele counts for the 4 new SNPs discovered by assembling the Solexa reads. The blue bars (from left to right) stand for the counts from the paternal allele in PWD x AKR and AKR x PWD F1s respectively. The red bars represent the maternal allele counts. Four novel SNPs were discovered in one Gtl2 transcript (XR_035484), consistent with monoallelic expression from the maternal allele in both reciprocal crosses and confirmed by Pyrosequencing. Another splicing variant of Gtl2 , NM_144513, previously was found by us to be imprinted using a custom Agilent allele-specific microarray (unpublished), with an 1,847-fold difference in probe intensity in PWD x AKR cross and 793-fold in the reciprocal cross. A Perlegen SNP (NES17649478) in NM_144513 but not XR_035484 was verified by Pyrosequencing. We conclude that both XR_035484 and NM_144513 are imprinted in the neonatal brain. (B) Pyrosequencing verification for novel SNP1 in Gtl2 . The target sequence is TGT(A/G)GAGGGA. (C) Pyrosequencing verification for Perlegen SNP NES17649478. The target sequence is GA(A/G)GATAG.

    Article Snippet: To identify the SNP positions in the mouse RefSeq database, we used the SNP genotype and information in the Perlegen mouse SNP database ( http://mouse.perlegen.com ).

    Techniques: Expressing, Variant Assay, Microarray, Sequencing