Gene/Protein Nomenclature Guidelines and Requirements for BOR Authors

http://www.ssr.org/NomenBullets.html

Gene/Protein Nomenclature Guidelines and Requirements for BOR Authors:

1. General Guidelines
ALWAYS use approved gene/protein names and symbols in your paper (see below) ALWAYS check out every single gene/protein name and symbol in your paper (even if you have seen it published previously and think you know what it is) Sometimes the approved gene/protein name or symbol is no longer valid. In these cases, on first mention of the gene/protein, first use the approved designation and then add in parenthesis (previously known as xxx). For example, "... we used antibodies against the POU5F1 protein (previously known as OCT-4)...". Thereafter, use the correct symbol and not the previous designation.

2. Guidelines for Specific Species

Mouse/Rat/Chicken Websites for nomenclature rules and finding gene (and mutant allele) symbols: (mouse, rat, and chicken) http://www.informatics.jax.org/ (dedicated to rat) http://rgd.mcw.edu/ General nomenclature rules (applicable to mouse, rat, and chicken): Full gene names are not in italics and Greek symbols are NEVER used eg: insulin-like growth factor 1 Gene symbols Greek symbols are never used hyphens are almost never used gene symbols are italicized, first letter upper case all the rest lower case eg: Igf1 (italicized) Proteins designations same as the gene symbol, but not italicized and all upper case eg: IGF1 mRNA and cDNA use the gene symbol and formatting conventions eg: "... levels of Igf1 (italicized) mRNA increased when..." Mutant alleles should be defined when first mentioned eg: Igf1 /Igf1 (italicized) is one of several knockout alleles of Igf1 (italicized) All letters and numbers are italicized and the allelic designation (tm1Arge) is a superscript After initial specification, the homozygous KO can be indicated as Igf1 italics and -/- as superscript); the heterozygote is Igf1 For more details on these nomenclature conventions, see: MGI Nomenclature page: http://www.informatics.jax.org/mgihome/nomen/index.shtml MGI Quick Guide for Genes: http://www.informatics.jax.org/mgihome/nomen /short_gene.shtml Human/Non-human primates/Domestic species/and default for everything that
+/-/tm1Arge tm1Arge

(all in

etc.

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Gene/Protein Nomenclature Guidelines and Requirements for BOR Authors

http://www.ssr.org/NomenBullets.html

is not a mouse, rat, fish, worm, or fly Website for nomenclature rules and finding gene (and mutant allele) symbols: http://www.genenames.org General rules: Full gene names are not italicized and Greek symbols are NEVER used eg: insulin-like growth factor 1 Gene symbols Greek symbols are never used hyphens are almost never used gene symbols are italicized, all letters are in upper case eg: IGF1 (in italics) Proteins designations same as the gene symbol, but not italicized and all upper case eg: IGF1 mRNA and cDNA use the gene symbol and formatting conventions eg: "... levels of IGF1 (in italics) mRNA increased when..." Fish (use for all fish) Website for nomenclature rules and gene (and mutant allele) symbols http://zfin.org/cgi-bin/webdriver?MIval=aa-ZDB_home.apg General rules: Full gene names are italicized, all lower case, NEVER use Greek symbols eg: cyclops (in italics) Gene symbols are italicized, all lower case eg: cyc (in italics) Protein designations are the same as the gene symbol, but first letter only upper case and not italicized eg: Cyc Other useful websites: The ExPASy (Expert Protein Analysis System) proteomics server of the Swiss Institute of Bioinformatics (SIB) dedicated to the analysis of protein sequences and structures as well as 2-D PAGE: (http://au.expasy.org/) OMIM Online inheritance in Man: (http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=OMIM) NCBI Entrez Gene: provides a unified query environment for genes defined by sequence and/or in NCBI's Map Viewer. You can query on names, symbols, accessions, publications, GO terms, chromosome numbers, E.C. numbers, and many other attributes associated with genes and the products they encode. (http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene) Contact for help in nomenclature, registering gene names, symbols, and alleles: Lois J Maltais: ljm@informatics.jax.org Sr. Scientific Curator Member of International Committee on Standardized Genetic Nomenclature for Mice and the Mouse Genomic Nomenclature Committee (MGNC)

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Gene/Protein Nomenclature Guidelines and Requirements for BOR Authors

http://www.ssr.org/NomenBullets.html

Mouse Genome Informatics (MGI) Resource The Jackson Laboratory 600 Main St Bar Harbor, ME 04609 207-288-6429 (Ph), 207-288-6131 (Fax)

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