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Locus Reference Genomic information


Locus Reference Genomic (LRG)[1][2] is a DNA sequence format that was developed to aid in curating locus specific databases (LSDBs) that record DNA sequence variation which can result in inherited diseases. LRGs have fixed sequences that are independent of the genome so that they provide a stable framework for reporting variants. The LRG format uses extensible markup language (XML) to provide highly structured single records containing the genomic DNA sequence for individual genes along with the mRNAs and proteins encoded by these genes. LRG records are recommended in the Human Genome Variation Society Nomenclature guidelines as reference sequences to report sequence variants in LSDBs and the literature.

The LRG concept was developed by the GEN2PHEN project in conjunction with the European Bioinformatics Institute (EBI) and the National Center for Biotechnology Information (NCBI).

The LRG homepage provides access to existing LRG sequences and allows the submission of requests for the creation of new LRGs. This page also has a frequently asked questions (FAQs) section.

  1. ^ Paper in Genome Medicine describing LRGs
  2. ^ Editorial in Nature Genetics about LRGs

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Locus Reference Genomic

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Locus Reference Genomic (LRG) is a DNA sequence format that was developed to aid in curating locus specific databases (LSDBs) that record DNA sequence...

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Mutalyzer

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transcript and protein feature annotation as a reference. Mutalyzer 2 accepts GenBank and Locus Reference Genomic (LRG) records. The annotation is also used...

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Genomic imprinting

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Genomic imprinting is an epigenetic phenomenon that causes genes to be expressed or not, depending on whether they are inherited from the female or male...

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Reference genome

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the most recent human reference genomes, assembly GRCh38/hg38, is derived from >60 genomic clone libraries. There are reference genomes for multiple species...

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Comparative genomic hybridization

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compared to a reference sample, without the need for culturing cells. The aim of this technique is to quickly and efficiently compare two genomic DNA samples...

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Selfish genetic element

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as selfish genes, ultra-selfish genes, selfish DNA, parasitic DNA and genomic outlaws) are genetic segments that can enhance their own transmission at...

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LRG

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LRG may refer to: Locus Reference Genomic, DNA sequence format Luminous red galaxy in the Sloan Digital Sky Survey LRG University of Applied Sciences...

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Comparative genomics

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Comparative genomics is a branch of biological research that examines genome sequences across a spectrum of species, spanning from humans and mice to a...

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Overdominance

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can also be described as heterozygote advantage regulated by a single genomic locus, wherein heterozygous individuals have a higher fitness than homozygous...

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Allele

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is a variant of the sequence of nucleotides at a particular location, or locus, on a DNA molecule. Alleles can differ at a single position through single...

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GEN2PHEN

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more effectively. GWAS Central Leiden Open Variation Database Locus Reference Genomic (LRG) University of Leicester, UK European Molecular Biology Laboratory...

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Molecular cytogenetics

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Comparative genomic hybridization (CGH), derived from FISH, is used to compare variations in copy number between a biological sample and a reference. CGH was...

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Expression quantitative trait loci

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Expression quantitative trait loci (eQTLs) are genomic loci that explain variation in expression levels of mRNAs. An expression quantitative trait is...

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Genotyping

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polymorphism identification (RFLPI) of genomic DNA, random amplified polymorphic detection (RAPD) of genomic DNA, amplified fragment length polymorphism...

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Multilocus sequence typing

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different allelic profiles, and a strain with the most common allele at each locus would only be expected to occur by chance approximately once in 10,000 isolates...

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Genome sequencing of endangered species

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management of endangered wildlife. In the context of conservation biology, genomic technologies such as the production of large-scale sequencing data sets...

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Human leukocyte antigen

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other non-genomic data known about it. Thus, a completely described allele may be up to 9 digits long, not including the HLA-prefix and locus notation...

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Dog coat genetics

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one, or a small number of alleles exist for each gene. In any one gene locus a dog will either be homozygous where the gene is made of two identical...

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Notch 4

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Neurogenic locus notch homolog 4 (Notch 4) is a protein that in humans is encoded by the NOTCH4 gene located on chromosome 6. An alternative splice variant...

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Public health genomics

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Public health genomics is the use of genomics information to benefit public health. This is visualized as more effective preventive care and disease treatments...

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Pleiotropy

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Genome-wide association studies (GWAS) and machine learning analysis of large genomic datasets have led to the construction of SNP based polygenic predictors...

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Epigenetics

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histone modification status of a particular genomic region. More typically, the term is used in reference to systematic efforts to measure specific, relevant...

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Hh blood group

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duplication of a common gene ancestor. The H locus contains four exons that span more than 8 kb of genomic DNA. Both the Bombay and para-Bombay phenotypes...

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Random amplification of polymorphic DNA

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(10–12 nucleotides), then proceeds with the PCR using a large template of genomic DNA, hoping that fragments will amplify. By resolving the resulting patterns...

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Haplotype

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(such as SNPs) on the same chromosome. Assume the first locus has alleles A or T and the second locus G or C. Both loci, then, have three possible genotypes:...

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Microsatellite

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"satellite" DNA refers to the early observation that centrifugation of genomic DNA in a test tube separates a prominent layer of bulk DNA from accompanying...

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Copy number variation

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gene numbers, again, implying that there is minimal spatial bias of the genomic location of copy number variations. Copy number variation was initially...

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