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2. GRank: a middleware search engine for ranking genes by relevance to given genes.

Author

Taha, Kamal, Homouz, Dirar, Muhairi, Hassan Al, and Mahmoud, Zaid Al

Subjects
*SEARCH engines, *COMPUTER software, *GENES
Abstract

Background: Biologists may need to know the set of genes that are semantically related to a given set of genes. For instance, a biologist may need to know the set of genes related to another set of genes known to be involved in a specific disease. Some works use the concept of gene clustering in order to identify semantically related genes. Others propose tools that return the set of genes that are semantically related to a given set of genes. Most of these gene similarity measures determine the semantic similarities among the genes based solely on the proximity to each other of the GO terms annotating the genes, while overlook the structural dependencies among these GO terms, which may lead to low recall and precision of results. Results: We propose in this paper a search engine called GRank, which overcomes the limitations of the current gene similarity measures outlined above as follows. It employs the concept of existence dependency to determine the structural dependencies among the GO terms annotating a given set of gene. After determining the set of genes that are semantically related to input genes, GRank would use microarray experiment to rank these genes based on their degree of relativity to the input genes. We evaluated GRank experimentally and compared it with a comparable gene prediction tool called DynGO, which retrieves the genes and gene products that are relatives of input genes. Results showed marked improvement. Conclusions: The experimental results demonstrated that GRank overcomes the limitations of current gene similarity measures. We attribute this performance to GRank's use of existence dependency concept for determining the semantic relationships among gene annotations. The recall and precision values for two benchmarking datasets showed that GRank outperforms DynGO tool, which does not employ the concept of existence dependency. The demo of GRank using 11000 KEGG yeast genes and a Gene Expression Omnibus (GEO) microarray file named "GSM34635.pad" is available at: http://ecesrvr.kustar.ac.ae:8080/ (click on the link labelled Gene Ontology 2). [ABSTRACT FROM AUTHOR]

Published
2013
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3. Are stone-age genes created out of whole cloth? Evaluating claims about the evolution of behavior.

Author

Nash, Alison

Subjects
GENES, EVOLUTIONARY psychology, HUMAN behavior, EPIGENETICS, METHODOLOGY
Abstract

This paper provides an overview of historical and current standard scientific practices for investigating the evolution of behavior. I argue that Evolutionary Psychology (EP) ignores its historical precedents-ethology and the instinct critics-and while acknowledging current perspectives-epigenetics and developmental systems theories-does so only in terms of lip service. In particular, EP does not investigate the dynamic interplay between genes and context that is essential for understanding the development and evolution of behavior. Thus, EP does not conform to the rigorous standards of biology or psychology, is often unresponsive to methodological critiques, skirts theoretical controversies, and is disconnected from a large body of scholarship on issues surrounding the evolution of behavior. [ABSTRACT FROM AUTHOR]

Published
2014
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4. The Suffering Gene (Book).

Author

Bright, Matthew

Subjects
GENES, NONFICTION
Abstract

Reviews the book "The Suffering Gene," by Roy Burdon.

Published
2004

5. DNA's golden jubilee.

Author

Stasiak, Andrzej

Subjects
GENES, NONFICTION
Abstract

Reviews the book "50 Years of DNA," written by Andrzej Stasiak and edited by Julie Clayton and Carina Dennis.

Published
2003
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6. Gene Environment Interactions: Nature and Nurture in the Twenty-first Century.

Author

Carlson, Elof Axel

Subjects
NATURE & nurture, TWENTY-first century, GENOTYPE-environment interaction, GENES, HUMAN genetics
Abstract

The author is a pediatric and medical geneticist who has compiled an encyclopedic collection of information on gene-environment interactions. Her tables of genes involved in major illnesses and systemic failures will be useful for genetic counselors and for those teaching human or medical genetics courses. [Extracted from the article]

Published
2021
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9. Book reviews.

Author

Mcqueen, Matthew J.

Subjects
GENES, NONFICTION
Abstract

Reviews the book 'The Meaning of the Gene,' Celeste Michelle Condit.

Published
2000
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10. The Gene: From Genetics to Postgenomics.

Author

Campos, Luis

Subjects
GENETICS, DNA structure, DEVELOPMENTAL genetics, BIOCHEMICAL genetics, GENES, HEREDITY, EMBRYOLOGY
Abstract

But it is just such an earthy history of the gene from genetics to postgenomics that is the focus of Hans-Jörg Rheinberger and Staffan Müller-Wille's new work. As cytological studies were paired with approaches based in chemical genetics to hone in on resolving the gene in terms of its molecular dimensions, the gene became a unit of function in more mathematical models, demonstrating the further "ramifications of the gene concept" that had begun to emerge (55). Rather than being "prime movers", genes can now be seen as "resources" for organisms (93) or even as higher-order genomic structures, complex developmental networks that "are not determined by the genes and their products alone" (97). [Extracted from the article]

Published
2020
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13. Gene Genie.

Author

JURIS, CAROLYN

Subjects
GENES, NONFICTION
Published
2016

15. GENES FROM THE WILD (Book).

Author

Pearce, David

Subjects
GENES, NONFICTION
Abstract

Reviews the book 'Genes From the Wild: Using Wild Genetic Resources for Food and Raw Materials,' by R. & C. Prescott-Allen.

Published
1984

20. What Genes Can't Do.

Author

Love, Alan C.

Subjects
GENES, NONFICTION
Abstract

This article reviews the book "What Genes Can't Do," by Lenny Moss.

Published
2006
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21. Book reviews.

Author

Desalle, Rob

Subjects
GENES, NONFICTION
Abstract

Reviews the book 'Adaptive Evolution of Genes and Genomes,' by Austin L. Hughes.

Published
2000

23. Mitochondrial Genes (Book).

Author

Chayen, J.

Subjects
GENES, NONFICTION
Abstract

Reviews the book "Mitochondrial Genes," edited by P. Slonimski, P. Borst and G. Attardi.

Published
1983

24. TRANSPOSABLE ELEMENTS.

Author

Setlow, Jane K.

Subjects
GENES, NONFICTION
Abstract

Reviews the book "Genes, Cells and Organisms," edited by John Moore.

Published
1988
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25. A VIEW OF H. J. MULLER.

Author

Abrahamson, Seymour

Subjects
GENES, NONFICTION
Abstract

The article reviews the book "Genes, Radiation and Society: The Life and Work of H. J. Muller," by Elof Axel Carlson.

Published
1983
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28. DarWin-Win.

Author

Belden, David

Subjects
GENES, NONFICTION
Abstract

The article reviews the book "The Genial Gene: Deconstructuring Darwinian Selfishness," by Joan Roughgarden.

Published
2009
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31. The Century of the Gene.

Author

SANKARAN, NEERAJA

Subjects
GENES, NONFICTION
Abstract

The article reviews the book "The Century of the Gene," by Evelyn Fox Keller.

Published
2002
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33. GENES AND GENDER (Book).

Author

Wittig, Michele Andrisin

Subjects
GENES
Abstract

Reviews the book 'Genes and Gender,' edited by Ethel Tobach and Betty Rosoff.

Published
1980
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34. Chromosomal localization of genes for carotenoid pigments using addition lines of <em>Hordeum chilense</em> in wheat (Book).

Author

Alvarez, J. B., Martín, L. M., and Martín, A.

Subjects
HORDEUM, CAROTENOIDS, GRASSES, BIOLOGICAL pigments, GENES, PLANT breeding
Abstract

× Tritordeum sp. (Ascherson et Graebner) is the amphiploid obtained after chromosome doubling of hybrids between Hordeum chilense (Roem. et Schult.) and diploid, tetraploid or hexaploid wheats. Tritordeums have consistently higher carotenoid pigment contents than durum or bread wheat. Two distinct H. chilense accessions (used for the synthesis of tritordeum) were analysed for this trait. The chromosomal localization of the genes coding the ability of H. chilense to increase the carotene content of wheat were carried out using two sets of wheat-H. chilense addition lines. The α arm of chromosome 7Hch is proposed to be responsible for the high carotene content in tritordeum. The implication of this finding in wheat breeding is discussed. [ABSTRACT FROM AUTHOR]

Published
1998
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37. Book review.

Author

HAWKS, JOHN

Subjects
GENES, NONFICTION
Abstract

The article reviews the book "Not a Chimp: The Hunt to Find the Genes That Make Us Human," edited by Jeremy Taylor.

Published
2011
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46. FOUNDING FATHERS.

Author

Doyle, Robert J.

Subjects
GENES, NONFICTION
Abstract

Reviews the book "The Transforming Principle: The Discovery That Genes Are Made of DNA," Maclyn McCarty.

Published
1987
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