2024
CYP2C gene polymorphisms in North African populations
Messaoudi M, Pakstis A, Boussetta S, Ben Ammar Elgaaied A, Kidd K, Cherni L. CYP2C gene polymorphisms in North African populations. Molecular Biology Reports 2024, 51: 1145. PMID: 39532754, DOI: 10.1007/s11033-024-10093-8.Peer-Reviewed Original ResearchConceptsNorth African populationsCYP2C genesHuman CYP2C genesSuperfamily of genesAfrican populationsRegulatory regionsIntronic SNPGenetic variationHaplotype frequenciesChromosome 10Pharmacogenetic markersFunctional consequencesGenesResponse to medical treatmentSNPsTunisian populationCYP2C9Drug metabolismForeign chemicalsCYP2C19North AfricansBackgroundCytochrome P450Clinically useful drugsGene polymorphismsPrincipal component analysis
2022
State of the Art for Microhaplotypes
Kidd KK, Pakstis AJ. State of the Art for Microhaplotypes. Genes 2022, 13: 1322. PMID: 35893059, PMCID: PMC9329722, DOI: 10.3390/genes13081322.Peer-Reviewed Original ResearchDNAGene FrequencyHaplotypesHigh-Throughput Nucleotide SequencingHumansPolymorphism, Single NucleotideA multipurpose panel of microhaplotypes for use with STR markers in casework
Kidd KK, Pakstis AJ, Gandotra N, Scharfe C, Podini D. A multipurpose panel of microhaplotypes for use with STR markers in casework. Forensic Science International Genetics 2022, 60: 102729. PMID: 35696960, PMCID: PMC11071123, DOI: 10.1016/j.fsigen.2022.102729.Peer-Reviewed Original ResearchAllelesDNA FingerprintingHigh-Throughput Nucleotide SequencingHumansMicrosatellite RepeatsPolymorphism, Single NucleotideSequence Analysis, DNANew Insight into the human genetic diversity in North African populations by genotyping of SNPs in DRD3, CSMD1 and NRG1 genes
Mestiri S, Boussetta S, Pakstis AJ, Kamel S, Gaaied A, Kidd KK, Cherni L. New Insight into the human genetic diversity in North African populations by genotyping of SNPs in DRD3, CSMD1 and NRG1 genes. Molecular Genetics & Genomic Medicine 2022, 10: e1871. PMID: 35128830, PMCID: PMC8922960, DOI: 10.1002/mgg3.1871.Peer-Reviewed Original ResearchMeSH KeywordsBlack PeopleGenotypeHaplotypesHumansMembrane ProteinsNeuregulin-1Polymorphism, Single NucleotideReceptors, Dopamine D3Tumor Suppressor ProteinsUnited StatesConceptsNorth African populationsSingle nucleotide polymorphismsGenetic diversityGenetic variabilitySignificant gene flowHuman genetic diversityLowest average heterozygosityAfrican populationsGene flowEvolutionary forcesGenetic structureAverage heterozygosityAdmixed AmericansChromosome 3NRG1 geneChromosome 8Genetic relationshipsGenesDomain 1Nucleotide polymorphismsSushi multiple domains 1CSMD1 geneHaplotypic analysisWorldwide populationNew insights
2021
The population genetics characteristics of a 90 locus panel of microhaplotypes
Pakstis AJ, Gandotra N, Speed WC, Murtha M, Scharfe C, Kidd KK. The population genetics characteristics of a 90 locus panel of microhaplotypes. Human Genetics 2021, 140: 1753-1773. PMID: 34643790, PMCID: PMC8553733, DOI: 10.1007/s00439-021-02382-0.Peer-Reviewed Original ResearchForensic GeneticsGenetic MarkersGenetics, PopulationHaplotypesHumansPolymorphism, Single NucleotideSequence Analysis, DNASTAT3 polymorphisms in North Africa and its implication in breast cancer
Ziadi W, Boussetta S, Elkamel S, Pakstis AJ, Kidd KK, Medimegh I, Elgaaied A, Cherni L. STAT3 polymorphisms in North Africa and its implication in breast cancer. Molecular Genetics & Genomic Medicine 2021, 9: e1744. PMID: 34251094, PMCID: PMC8404238, DOI: 10.1002/mgg3.1744.Peer-Reviewed Original ResearchMeSH KeywordsBreast NeoplasmsFemaleHaplotypesHumansPolymorphism, Single NucleotideSTAT3 Transcription FactorTunisiaConceptsNorth African populationsAfrican populationsSTAT3 regionSingle nucleotide polymorphismsRare haplotypesHsa-mirMiR databaseMajor haplotypesGenesNucleotide polymorphismsHaplotypesSNPsSTAT3Allele frequenciesRs7211777Tunisian populationPolymorphismPopulationDiversityNorth AfricaAllelesSignificant frequencyRecombinationAssaysCancerGenetic relationships of Southwest Asian and Mediterranean populations
Kidd KK, Bulbul O, Gurkan C, Dogan M, Dogan S, Neophytou PI, Cherni L, Gurwitz D, Speed WC, Murtha M, Kidd JR, Pakstis AJ. Genetic relationships of Southwest Asian and Mediterranean populations. Forensic Science International Genetics 2021, 53: 102528. PMID: 34020230, DOI: 10.1016/j.fsigen.2021.102528.Peer-Reviewed Original ResearchMeSH KeywordsAsiaEthnicityGenetics, PopulationHaplotypesHumansMediterranean RegionPolymorphism, Single NucleotidePrincipal Component AnalysisRacial GroupsGenetic diversity of the North African population revealed by the typing of SNPs in the DRD2/ANKK1 genomic region
Mestiri S, Boussetta S, Pakstis AJ, Elkamel S, Elgaaied ABA, Kidd KK, Cherni L. Genetic diversity of the North African population revealed by the typing of SNPs in the DRD2/ANKK1 genomic region. Gene 2021, 777: 145466. PMID: 33524518, DOI: 10.1016/j.gene.2021.145466.Peer-Reviewed Original ResearchMeSH KeywordsAdultAfrica, NorthernAllelesBlack PeopleEthnicityFemaleGene FrequencyGenetic Predisposition to DiseaseGenetic VariationGenomicsGenotypeGenotyping TechniquesHaplotypesHeterozygoteHuman MigrationHumansLinkage DisequilibriumMaleMiddle AgedPolymorphism, Single NucleotideProtein Serine-Threonine KinasesReceptors, Dopamine D2ConceptsNorth African populationsGenetic diversitySingle nucleotide polymorphismsGenetic structureAncestral gene poolPeculiar genetic structureLowest average heterozygosityNorth African onesAfrican populationsHigh linkage disequilibriumGenetic driftGenomic regionsAverage heterozygosityGene poolSame locusLinkage disequilibriumDisequilibrium analysisGenetic componentGenesNucleotide polymorphismsLociReceptor geneDiversityHuman populationEuropean populations
2020
Population genetic data of 74 microhaplotypes in four major U.S. population groups
Oldoni F, Yoon L, Wootton SC, Lagacé R, Kidd KK, Podini D. Population genetic data of 74 microhaplotypes in four major U.S. population groups. Forensic Science International Genetics 2020, 49: 102398. PMID: 33045522, DOI: 10.1016/j.fsigen.2020.102398.Peer-Reviewed Original ResearchThe distinctive geographic patterns of common pigmentation variants at the OCA2 gene
Kidd KK, Pakstis AJ, Donnelly MP, Bulbul O, Cherni L, Gurkan C, Kang L, Li H, Yun L, Paschou P, Meiklejohn KA, Haigh E, Speed WC. The distinctive geographic patterns of common pigmentation variants at the OCA2 gene. Scientific Reports 2020, 10: 15433. PMID: 32963319, PMCID: PMC7508881, DOI: 10.1038/s41598-020-72262-6.Peer-Reviewed Original ResearchMeSH KeywordsAllelesEuropeEye ColorGenotypeHumansIrisMembrane Transport ProteinsPigmentationPolymorphism, Single NucleotideConceptsOculocutaneous albinism type 2Genetic variationOCA2 genePopulation genetic variationGeographic patternsNormal pigmentation variationPigmentation variationSingle nucleotide polymorphismsPositive selectionHypomorphic proteinEnhancer variantsPigmentation variantsGenesNucleotide polymorphismsDistinctive geographic patternsEye colorStrong selection effectsVariant frequencyPigmentationVariantsProteinAllelesVariationDifferent patternsPolymorphismA sequence-based 74plex microhaplotype assay for analysis of forensic DNA mixtures
Oldoni F, Bader D, Fantinato C, Wootton SC, Lagacé R, Kidd KK, Podini D. A sequence-based 74plex microhaplotype assay for analysis of forensic DNA mixtures. Forensic Science International Genetics 2020, 49: 102367. PMID: 32919300, DOI: 10.1016/j.fsigen.2020.102367.Peer-Reviewed Original ResearchFrogAncestryCalc: A standalone batch likelihood computation tool for ancestry inference panels catalogued in FROG-kb
Rajeevan H, Soundararajan U, Pakstis AJ, Kidd KK. FrogAncestryCalc: A standalone batch likelihood computation tool for ancestry inference panels catalogued in FROG-kb. Forensic Science International Genetics 2020, 46: 102237. PMID: 31991337, DOI: 10.1016/j.fsigen.2020.102237.Peer-Reviewed Original ResearchMeSH KeywordsComputational BiologyDatabases, GeneticDNA FingerprintingForensic GeneticsGene FrequencyGenetics, PopulationGenotypeHumansLikelihood FunctionsPedigreePolymorphism, Single Nucleotide
2019
Population relationships based on 170 ancestry SNPs from the combined Kidd and Seldin panels
Pakstis AJ, Speed WC, Soundararajan U, Rajeevan H, Kidd JR, Li H, Kidd KK. Population relationships based on 170 ancestry SNPs from the combined Kidd and Seldin panels. Scientific Reports 2019, 9: 18874. PMID: 31827153, PMCID: PMC6906462, DOI: 10.1038/s41598-019-55175-x.Peer-Reviewed Original ResearchMeSH KeywordsDatabases, GeneticGene FrequencyGenetic VariationGenetics, PopulationGenotypeHigh-Throughput Nucleotide SequencingHumansPolymorphism, Single NucleotideConceptsGenetic diversityPopulation relationshipsHuman populationAncestry informative SNP panelsInformative SNP panelsMajor continental regionsHuman reference populationsSNP panelIndividual populationsGenotype dataReference populationNative American populationsDiverse collectionAISNPsAllele frequency databasesWorldwide populationDiversityFrequency databaseAmerican populationReference population dataPopulationSNPsPrincipal component analysisCombined panelCluster patternsGenetic relationships of European, Mediterranean, and SW Asian populations using a panel of 55 AISNPs
Pakstis AJ, Gurkan C, Dogan M, Balkaya HE, Dogan S, Neophytou PI, Cherni L, Boussetta S, Khodjet-El-Khil H, Ben Ammar ElGaaied A, Salvo NM, Janssen K, Olsen GH, Hadi S, Almohammed EK, Pereira V, Truelsen DM, Bulbul O, Soundararajan U, Rajeevan H, Kidd JR, Kidd KK. Genetic relationships of European, Mediterranean, and SW Asian populations using a panel of 55 AISNPs. European Journal Of Human Genetics 2019, 27: 1885-1893. PMID: 31285530, PMCID: PMC6871633, DOI: 10.1038/s41431-019-0466-6.Peer-Reviewed Original ResearchMeSH KeywordsAsian PeopleEthnicityEuropeFemaleGene FrequencyGenetics, PopulationGenotypeHumansMaleMediterranean RegionPolymorphism, Single NucleotideRacial GroupsMAPlex - A massively parallel sequencing ancestry analysis multiplex for Asia-Pacific populations
Phillips C, McNevin D, Kidd K, Lagacé R, Wootton S, de la Puente M, Freire-Aradas A, Mosquera-Miguel A, Eduardoff M, Gross T, Dagostino L, Power D, Olson S, Hashiyada M, Oz C, Parson W, Schneider P, Lareu M, Daniel R. MAPlex - A massively parallel sequencing ancestry analysis multiplex for Asia-Pacific populations. Forensic Science International Genetics 2019, 42: 213-226. PMID: 31377479, DOI: 10.1016/j.fsigen.2019.06.022.Peer-Reviewed Original ResearchUsefulness of COMT gene polymorphisms in North African populations
Boussetta S, Cherni L, Pakstis AJ, Ben Salem N, Elkamel S, Khodjet-El-Khil H, Kidd KK, Elgaaied ABA. Usefulness of COMT gene polymorphisms in North African populations. Gene 2019, 696: 186-196. PMID: 30790653, DOI: 10.1016/j.gene.2019.02.021.Peer-Reviewed Original ResearchMixture deconvolution by massively parallel sequencing of microhaplotypes
Bennett L, Oldoni F, Long K, Cisana S, Madella K, Wootton S, Chang J, Hasegawa R, Lagacé R, Kidd KK, Podini D. Mixture deconvolution by massively parallel sequencing of microhaplotypes. International Journal Of Legal Medicine 2019, 133: 719-729. PMID: 30758713, DOI: 10.1007/s00414-019-02010-7.Peer-Reviewed Original Research
2018
Microhaplotypes in forensic genetics
Oldoni F, Kidd KK, Podini D. Microhaplotypes in forensic genetics. Forensic Science International Genetics 2018, 38: 54-69. PMID: 30347322, DOI: 10.1016/j.fsigen.2018.09.009.Peer-Reviewed Original Research
2017
Increasing the reference populations for the 55 AISNP panel: the need and benefits
Pakstis AJ, Kang L, Liu L, Zhang Z, Jin T, Grigorenko EL, Wendt FR, Budowle B, Hadi S, Al Qahtani MS, Morling N, Mogensen HS, Themudo GE, Soundararajan U, Rajeevan H, Kidd JR, Kidd KK. Increasing the reference populations for the 55 AISNP panel: the need and benefits. International Journal Of Legal Medicine 2017, 131: 913-917. PMID: 28070634, PMCID: PMC5491587, DOI: 10.1007/s00414-016-1524-z.Peer-Reviewed Original ResearchMeSH KeywordsDatabases, GeneticEthnicityGene FrequencyGenetics, PopulationGenotypeHigh-Throughput Nucleotide SequencingHumansPolymorphism, Single NucleotideRacial Groups
2016
Proposed nomenclature for microhaplotypes
Kidd KK. Proposed nomenclature for microhaplotypes. Human Genomics 2016, 10: 16. PMID: 27316555, PMCID: PMC4912715, DOI: 10.1186/s40246-016-0078-y.Peer-Reviewed Original ResearchMeSH KeywordsGene FrequencyGenetic Association StudiesHaplotypesHumansPolymorphism, Single NucleotideTerminology as TopicConceptsSingle nucleotide polymorphismsHUGO Gene Nomenclature CommitteeGene Nomenclature CommitteeGroup of genesGene familyPopulation geneticsChromosome numberChromosome 1Related genesGenetic markersNucleotide polymorphismsNomenclature CommitteeGenesMicrohaplotypesRootsChromosomesFamilyLociUnique characterStandardized nomenclatureGeneticsNomenclatureSequencePolymorphism