Algorithms for a location database

The algorithms that drive the Idb location database are described. The program captures data on genetic and physical maps and combines information from different sources into a summary map. To assure portability it was developed in Fortran on a SUN SPARCStation under Unix. The algorithms, which combine rule‐based seriation with a minimum deviance bootstrap, allow investigators and chromosome committees to produce a composite location in Mb that integrates partial maps. The program and manual are now available from the authors.

[1]  C R Cantor,et al.  Pulsed-field gel electrophoresis of very large DNA molecules. , 1988, Annual review of biophysics and biophysical chemistry.

[2]  A. Chapelle The 1985 human gene map and human gene mapping in 1985. , 1985 .

[3]  H. Cann,et al.  Centre d'etude du polymorphisme humain (CEPH): collaborative genetic mapping of the human genome. , 1990, Genomics.

[4]  D. Cox,et al.  Radiation hybrid mapping. , 1992, Cytogenetics and cell genetics.

[5]  Iscn International System for Human Cytogenetic Nomenclature , 1978 .

[6]  Stanley Letovsky,et al.  CPROP: a rule-based program for constructing genetic maps. , 1992, Genomics.

[7]  N E Morton,et al.  Parameters of the human genome. , 1991, Proceedings of the National Academy of Sciences of the United States of America.

[8]  N. Morton,et al.  Report of the committee on the genetic-constitution of chromosomes 1 and 2. , 1987, Cytogenetics and cell genetics.

[9]  H. Willard,et al.  Report of the Committee on Human Gene Mapping by Recombinant DNA Techniques (Part 1 of 5) , 1985 .

[10]  P L Pearson,et al.  The human genome initiative--do databases reflect current progress? , 1991, Science.

[11]  N E Morton,et al.  Integration of gene maps: chromosome 21. , 1992, Proceedings of the National Academy of Sciences of the United States of America.

[12]  H. Willard,et al.  Guidelines for human gene nomenclature. An international system for human gene nomenclature (ISGN, 1987). , 1987, Cytogenetics and cell genetics.

[13]  M. Skolnick,et al.  Report of the committee on human gene mapping by recombinant DNA techniques. , 1982, Birth defects original article series.

[14]  N. Morton,et al.  Standard maps of chromosome 10 , 1990, Annals of human genetics.

[15]  A. de la Chapelle The 1985 human gene map and human gene mapping in 1985. , 1985, Cytogenetics and cell genetics.

[16]  N. Morton,et al.  Guidelines for human linkage maps An International System for Human Linkage Maps (ISLM, 1990) , 1991, Annals of human genetics.

[17]  N E Morton,et al.  MAP, an expert system for multiple pairwise linkage analysis , 1989, Annals of human genetics.

[18]  N E Morton,et al.  Gene maps and location databases , 1991, Annals of human genetics.

[19]  N E Morton,et al.  Integration of gene maps: chromosome 1. , 1992, Proceedings of the National Academy of Sciences of the United States of America.

[20]  D. Cox Radiation hybrid mapping. , 1991, Cytogenetics and cell genetics.

[21]  S Letovsky,et al.  CPROP: a rule-based program for constructing genetic maps. , 1992, Genomics.

[22]  A. Tanigami,et al.  Mapping of 262 DNA markers into 24 intervals on human chromosome 11. , 1992, American journal of human genetics.