ALFRED
      The ALlele FREquency Database   

A resource of gene frequency data on human populations

supported by the U. S. National Science Foundation.

Articles and Textbooks citing ALFRED

ALFRED Publications from KiddLab

ALFRED Presentations

Articles citing ALFRED excluding those author by Kidd Lab and ALFRED personnel

Textbooks citing ALFRED

ALFRED Publications from KiddLab

1. Cheung KH, Miller PL, Kidd JR, Kidd KK, Osier MV, Pakstis AJ. "ALFRED: a Web-accessible allele frequency database".Pac Symp Biocomput 2000.:639-50. pdf file of article

2. Cheung KH, Osier MV, Kidd JR, Pakstis AJ, Miller PL, Kidd KK. "ALFRED: an allele frequency database for diverse populations and DNA polymorphisms.".Nucleic Acids Res. 28(1):361-3. (2000) pdf file of article

3. Osier MV, Cheung KH, Kidd JR, Pakstis AJ, Miller PL, Kidd KK. "ALFRED: an allele frequency database for diverse populations and DNA polymorphisms--an update." Nucleic Acids Res. 29(1):317-9. (2001) pdf file of article

4. Osier MV, Cheung KH, Kidd JR, Pakstis AJ, Miller PL, Kidd KK. "Expansion of ALFRED, the ALlele FREquency Database." Am J Phys Anthropol. Annual Meeting Issue: Supplement 34:94. (2002)

5. Osier MV, Cheung KH, Kidd JR, Pakstis AJ, Miller PL, Kidd KK. "ALFRED: an allele frequency database for Anthropology." Am J Phys Anthropol. 119:77-83. (2002) pdf file of article

6. Osier MV, Cheung KH, Rajeevan H, Pakstis AJ, Kidd JR, Miller PL, Kidd KK. "ALFRED(ALlele FREquency Database): A Resource for genetic anthropology and human population genetics." Human Origins & Disease . CSHL Meeting Abstracts of Papers. 43. (2002)

7. Rajeevan H, Osier MV, Cheung KH, Deng H, Druskin L, Heinzen R, Kidd JR, Stein S, Pakstis AJ, Tosches NP, Yeh CC, Miller PL, Kidd KK. "ALFRED – the ALlele FREquency Database – update." Nucleic Acids Research..31(1):270-271.(2003) pdf file of article

8. Kidd KK, Rajeevan H, Osier MV, Cheung KH, Deng H, Druskin L, Heinzen R, Kidd JR, Stein S, Pakstis AJ, Tosches NP, Yeh CC, Miller PL. "ALFRED – the ALlele FREquency Database – update." Am J Phys Anthropol. Annual Meeting Issue: Supplement S36:128. (2003)

9. Rajeevan H, Cheung KH, Gadagkar R, Stein S, Soundararajan U, Kidd JR, Pakstis AJ, Miller P, Kidd KK. "ALFRED: An allele frequency database for Microevolutionary Studies." Evolutionary Bioinformatics Online.2005:1 (2005) pdf file of article

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ALFRED Presentations (PowerPoint)

1. The American Association of Physical Anthropologists (AAPA) 2003 .

2. The American Society of Human Genetics (ASHG) 2003 .

3. The Pacific Symposium on Biocomputing (PSB) 2004 .

4. The American Society of Human Genetics (ASHG) 2004 .

5. The American Society of Human Genetics (ASHG) 2005 .

6. The Pacific Symposium on Biocomputing (PSB) 2006 .

7. The Pacific Symposium on Biocomputing (PSB) 2007 .



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Articles citing ALFRED excluding those authored by Kidd Lab and ALFRED personnel

2000  2001  2002  2003  2004  2005  2006

2007

Arcos-Burgos M & Acosta MT et.al., 2007. Tuning major gene variants conditioning human behavior: the anachronism of ADHD. Curr Opin Genet Dev. 17(3):234-8.

Altman RB, 2007. PharmGKB: a logical home for knowledge relating genotype to drug response phenotype. Nat Genet. 39(4):426.

Belle EMS. & Barbujani G , 2007. Worldwide analysis of multiple microsatellites: language diversity has a detectable influence on DNA diversity. Am J Phys Anthropol. 133(4):1137-46.

Birley AJ et.al., 2008. Association of the gastric alcohol dehydrogenase gene ADH7 with variation in alcohol metabolism. Hum Mol Genet. 17(2):179-89.

Dediu D & Ladd DR , 2007. Linguistic tone is related to the population frequency of the adaptive haplogroups of two brain size genes, ASPM and Microcephalin. Proc Natl Acad Sci U S A. 104(26):10944-9.

Egea R et.al., 2007. MamPol: a database of nucleotide polymorphism in the Mammalia class. Nucleic Acids Res. 35(Database issue):D624-9.

Eisenberg DTA et.al., 2007. Season of birth and dopamine receptor gene associations with impulsivity, sensation seeking and reproductive behaviors. PLoS ONE. 2(11):e1216.

Gardner M et.al., 2007. Extreme individual marker F(ST )values do not imply population-specific selection in humans: the NRG1 example. Hum Genet. 121(6):759-62.

Griseri P et.al., 2007. A common variant located in the 3'UTR of the RET gene is associated with protection from Hirschsprung disease. Hum Mutat. 28(2):168-76.

Hall DA et.al., 2007. Haplotype analysis at the alcohol dehydrogenase gene region in New Zealand Maori. J Hum Genet. 52(2):191-4.

Handley LJ et.al., 2007. Going the distance: human population genetics in a clinal world. Trends Genet. 23(9):432-9.

Kulikova MA et.al., 2007. Polymorphisms of the main Genes of Neurotransmitter Systems: I. The Dopaminergic System. Human Physiology. 33(6):752-758.

Lubomirov et.al., 2007. ADME pathway approach for pharmacogenetic studies of anti-HIV therapy. Pharmacogenomics. 8(6):623-33.

Marussin AV et.al., 2007. Association Analysis of Alcohol Metabolizing Enzymes ADH1B, ADH7, CYP2E1 Gene Polymorphism with Risk for Coronary Atherosclerosis. Russian Journal of Genetics. 43(3): 323-329.

Niemann S et.al., 2007. Motoneuron-specific NR3B gene. No association with ALS and evidence for a common null allele. Neurology. Aug 15 [Epub ahead of print]

Penke L et.al., 2007. The evolutionary genetics of personality. European Hournal of Personality 21(5):549-587.

Prasad P & Thelma BK , 2007. Normative genetic profiles of RAAS pathway gene polymorphisms in North Indian and South Indian populations. Hum Biol. 79(2):241-54.

Reddington F et.al., 2007. The UK National Cancer Research Institute (NCRI) Informatics Initiative: promoting partnership in cancer research. Hum Mutat. 28(12):1151-5.

Single RM et.al., 2007. Global diversity and evidence for coevolution of KIR and HLA. Nat Genet. 39(9):1114-9.

Stojilkovic et.al., 2007. Mutations in the PAH Gene: A Tool For Population Genetics Study. Arch. Biol. Sci. 59(3):161-167.

Vandenbergh DJ et.al., 2007. Dopamine receptor genes (DRD2, DRD3 and DRD4) and gene-gene interactions associated with smoking-related behaviors. Addict Biol. 12(1):106-16.

van den Oord E et.al., 2007. Genetics and diagnostic refinement. Behav Genet. 37(3):535-45.

Zhang FF et.al., 2007. Genetic polymorphisms in alcohol metabolism, alcohol intake and the risk of stomach cancer in Warsaw, Poland. Int.J. cancer. 121:2060-2064

2006

Edenberg HJ et.al., 2006. Association of alcohol dehydrogenase genes with alcohol dependence: a comprehensive analysis. Hum Mol Genet. 15(9):1539-49.

Fredman D et.al., 2006. Nonsynonymous SNPs: validation characteristics, derived allele frequency patterns, and suggestive evidence for natural selection. Hum Mutat. 27(2):173-86.

Koehle MS et.al., 2006. No association between variants in the ACE and angiotensin II receptor 1 genes and acute mountain sickness in Nepalese pilgrims to the Janai Purnima Festival at 4380 m. High Alt Med Biol. 7(4):281-9.

Brutsaert TD & Parra EJ, 2006. What makes a champion? Explaining variation in human athletic performance. Respir Physiol Neurobiol. 151(2-3):109-23.

Epstein MP et.al., 2006. Improved association analyses of disease subtypes in case-parent triads. Genet Epidemiol. 30(3):209-19.

Tang H et.al., 2006. Reconstructing genetic ancestry blocks in admixed individuals. Am J Hum Genet. 79(1):1-12.

Salzano FM & Callegari-Jacques SM , 2006. Amerindian and NonAmerindian autosome molecular variability--a test analysis. Genetica. 126(1-2):237-42.

Schulz LO et.al., 2006. Effects of traditional and western environments on prevalence of type 2 diabetes in Pima Indians in Mexico and the U.S. Diabetes Care. 29(8):1866-71

Witherspoon DJ et.al., 2006. Human population genetic structure and diversity inferred from polymorphic L1(LINE-1) and Alu insertions. Hum Hered. 62(1):30-46.

Abdolmaleky HM et.al., 2006. Hypomethylation of MB-COMT promoter is a major risk factor for schizophrenia and bipolar disorder. Hum Mol Genet. 15(21):3132-45.

Balanovsky O et.al., 2005. Is spatial distribution of the HIV-1-resistant CCR5Delta32 allele formed by ecological factors? J Physiol Anthropol Appl Human Sci. 24(4):375-82.

Chang LC et.al., 2006. Gene polymorphisms of fibrinolytic enzymes in coal workers' pneumoconiosis. Arch Environ Occup Health. 61(2):61-6.

2005

Maliarchuk BA & Czarny J , 2005. African DNA lineages in mitochondrial gene pool of Europeans. Mol. Biol. 39(5):703-709.

Xu H et.al., 2005. Mutation rate variation at human dinucleotide microsatellites. Genetics. 170(1):305-12.

Vyas H & Summers R , 2005. An information-driven approach to pharmacogenomics. Pharmacogenomics. 6(5):473-80.

Lee SJ et.al., 2005. Recombinant CYP3A4*17 is defective in metabolizing the hypertensive drug nifedipine, and the CYP3A4*17 allele may occur on the same chromosome as CYP3A5*3, representing a new putative defective CYP3A haplotype. J Pharmacol Exp Ther. 313(1):302-9.

Luo HR et.al., 2005. Evolution of the DRD2 gene haplotype and its association with alcoholism in Mexican Americans. Alcohol. 36(2):117-25.

Bracken MB, 2005. Genomic epidemiology of complex disease: the need for an electronic evidence-based approach to research synthesis. Am J Epidemiol. 162(4):297-301.

Thakkinstian A et.al., 2005. Systematic review and meta-analysis of the association between {beta}2-adrenoceptor polymorphisms and asthma: a HuGE review. Am J Epidemiol. 162(3):201-11.

Ma L et al., 2005. Polymorphism study of seven SNPs at AHD genes in 15 Chinese populations. Hereditas 142: 103-111.

WayStation to HUGOBase. 2005. Nat Genet. 37(8):783.(Editorial).

ALFRED (Review by Dr.Kevin Ahern) 2005. Genetic Engineering News 25(16).

Stefansson H et al., 2005. A common inversion under selection in Europeans. Nat Genet. 37(2):129-37.

Bazin E et al., 2005. Polymorphix: a sequence polymorphism database. Nucleic Acids Res. 1;33(Database issue).

2004

Purcell S & Sham P , 2004. Properties of structured association approaches to detecting population stratification. Hum Hered. 58(2):93-107.

Zhu X et.al., 2004. Linkage analysis of a complex disease through use of admixed populations. Am J Hum Genet. 74(6):1136-53.

Tofanelli S et.al., 2004. Genetic history of the population of Corsica (western Mediterranean) as inferred from autosomal STR analysis. Hum Biol. 76(2):229-51.

Mansoor A et.al., 2004. Investigation of the Greek ancestry of populations from northern Pakistan. Hum Genet. 114(5):484-90.

Maca-Meyer N et.al., 2004. A tale of aborigines, conquerors and slaves: Alu insertion polymorphisms and the peopling of Canary Islands. Ann Hum Genet. 68(Pt 6):600-5.

D’Souza UM et.al., 2004. Functional effects of a tandem duplication polymorphism in the 5'flanking region of the DRD4 gene. Biol Psychiatry. 56(9):691-7. Bonilla C et al., 2004. Admixture in the Hispanics of the San Luis Valley, Colorado, and its implications for complex trait gene mapping. Annals of Human Genetics 68:139-153.

McMahon R , 2004. Genes and languages. Community Genet. 7(1):2-13.

Heiman GA et.al., 2004. Effect of population stratification on case-control association studies. I. Elevation in false positive rates and comparison to confounding risk ratios (a simulation study). Hum Hered. 58(1):30-9

Gorroochurn P et.al., 2004. Effect of population stratification on case-control association studies. II. False-positive rates and their limiting behavior as number of subpopulations increases. Hum Hered. 58(1):40-8.

Aldea A et.al., 2004. The west side story: MEFV haplotype in Spanish FMF patients and controls, and evidence of high LD and a recombination "hot-spot" at the MEFV locus. Hum Mutat. 23(4):399.

Goodman N, 2004. The great SNP flood. Genome Technology No. 44, p 21.

Nguyen TH et al., 2004. Frequency Finder: a multi-source web application for collection of public allele frequencies of SNP markers. Bioinformatics 20:439-443.

Yankovsky NK, et al., 2004. Filaria as possible factor of positive selection for spreading of a variant of alcohol dehydrogenase gene (ADH1b*47His allele) causative for alcohol-sensitivity. HGM2004 Poster Abstract. Poster 387.

Riva A and Kohane IS, 2004. A SNP-centric database for the investigation of the human genome. BMC Bioinformatics 5:Art.No.33 March 26.

Xu HY and Fu YX, 2004. Estimating effective population size or mutation rate with microsatellites. Genetics 166:555-563.

2003

Scriver CR et.al., 2003. PAHdb 2003: what a locus-specific knowledgebase can do. Hum Mutat. 21(4):333-44.

Kittles RA & Weiss KM , 2003. Race, Ancestry and Genes: Implications for Defining Disease Risk. Annu. Rev. Genomics Hum. Genet. 4:33-67

Skipper M, 2003. WEB WATCH Allele Frequency Database. Nature Reviews Genetics 4:674.

Caglia A et al., 2003. A study of Y-chromosome microsatellite variation in sub-Saharan Africa: A comparison between F-ST and R-ST genetic distances. Human Biology 75:313-330.

Chen HS et al., 2003. Qualitative semi-parametric test for genetic associations in case-control designs under structured populations. Annals of Human Genetics 67:250-264.

Ponomarenko JV et al., 2003. rSNP Guide, a database system for analysis of transcription factor binding to DNA with variations: application to genome annotation. Nucleic Acids Research 31:118-121.

Tofanelli S et al., 2003. Variation at 16 STR loci in Rwandans (Hutu) and implications on profile frequency estimation in Bantu-speakers. International Journal of Legal Medicine 117:121-126.

van den Oord EJCG, et al., 2003. Identification of a high-risk haplotype for the dystrobrevin binding protein 1 (DTNBP1) gene in the Irish study of high-density schizophrenia families. Molecular Psychiatry 8:499-510.

Zhang SL et al., 2003. On a semiparametric test to detect associations between quantitative traits and candidate genes using unrelated individuals. Genetic Epidemiology 24:44-56.

Basu A et al., 2003. Ethnic India: a genomic view, with special reference to peopling and structure. Genome Research 13:2277-2290.

2002

Chakrabarti CS et.al., 2002. Genetic relationships among some tribal groups inhabiting the north-eastern, eastern and sub-Himalayan regions of India. Ann Hum Genet. 66(Pt 5-6):361-8.

Weber JL et al., 2002. Human diallelic insertion/deletion polymorphisms. American Journal of Human Genetics 71:854-862.

Fullerton SM et al., 2002. Geographic and haplotype structure of candidate type 2 diabetes-susceptibility variants at the Calpain-10 locus. American Journal of Human Genetics 70:1096-1106.

Aaerts J et al., 2002. Data mining of public SNP databases for the selection of intragenic SNPs. Human Mutation 20:162-173.

Mateu E, et al., 2002. PKLR- GBA region shows almost complete linkage disequilibrium over 70 kb in a set of worldwide populations. Hum Genet. 110(6):532-44.

Mateu E, et al., 2002. Can a place of origin of the main cystic fibrosis mutations be identified? American Journal of Human Genetics 70:257-264.

Schlotterer C, 2002. A microsatellite-based multilocus screen for the identification of local selective sweeps. Genetics 160:753-768.

Lewis R, 2002. SNPs as windows on evolution. Scientist 16:16-18.

Ponomarenko JV et al., 2002. rSNP Guide: An integrated database-tools system for studying SNPs and site-directed mutations in transcription factor binding sites. Human Mutation 20:239-248.

Shastry BS, 2002. SNP alleles in human disease and evolution. Journal of Human Genetics 47:561-566.

Zhu XF et al., 2002. Association mapping, using a mixture model for complex traits. Genetic Epidemiology 23:181-196.

2001

Ponomarenko JV et al., 2001. rSNP guide, a database system for analysis of transcription factor binding to target sequences: application to SNPs and site-directed mutations. Nucleic Acids Research 29:312-316.

van den Oord EJCG et al., 2001. A step in another direction : Looking for maternal genetic and environmental effects on racial differences in birth weight. Demography 38:573-576.

Zhang SL and Zhao HY, 2001. Quantitative similarity-based association tests using population samples. American Journal of Human Genetics 69:601-614.

Liberles DA , 2001. SNPing variation from genomes. Genome Biology 3(1):repotrts4001.1-4001.4

2000

Miller PL , 2000. Opportunities at the intersection of bioinformatics and health informatics: a case study. J Am Med Inform Assoc. 7(5):431-8.

Top of page  2007

Textbooks citing ALFRED

1. Bioinformatics: A Practical Guide to the Analysis of Genes and Proteins, Third Edition, 2004 by Andreas D.Baxevanis and B.F.Francis Ouellette.

2. Human Evolutionary Genetics: Origins, Peoples & Disease, 2004 by Jobling MA, Hurles ME and Tyler-Smith C.

3. Catalyzing Inquiry at the Interface of Computing and Biology, 2005 by Wooley JC and Lin HS.

4. Statistical Methods for the Analysis of Genetic Marker and Microarray Data, 2004 by Yu X.
(Dissertation submitted under the direction of Dr. Bruce S Weir, North Carolina State University, Raleigh)

© 2008 Kenneth K Kidd, Yale University. All rights reserved. The full Copyright Notification is also available.
Originally prototyped by Michael Osier with the aid of Kei Cheung
Upgrades since 2002 and maintenance by Haseena Rajeevan