Citations¶
If you use this database, please cite our work.
Standage DS, Mitchell RN (2020) MicroHapDB: A Portable and Extensible Database of All Published Microhaplotype Marker and Frequency Data. Frontiers in Genetics 11:781, doi:10.3389/fgene.2020.00781.
MicroHapDB was created and is maintained by the Bioinformatics Group at the National Bioforensic Anaylsis Center (NBFAC). Contact: daniel.standage@st.dhs.gov.
Supporting software¶
[1]McKinney W (2010) Data structures for statistical computing in Python. Proceedings of the 9th Python in Science Conference, 51-56.
Ranking statistics¶
[2]Crow JF, Kimura M (1970) An Introduction to Population Genetics Theory. New York, Harper & Row.
[3]Rosenberg NA, Li LM, Ward R, Pritchard JK (2003) Informativeness of genetic markers for inference of ancestry. American Journal of Human Genetics, 73(6):1402–1422, doi:10.1086/380416.
[4]Weir B, Cockerham, C (1984) Estimating F-Statistics for the Analysis of Population Structure. Evolution 38(6):1358-1370, doi:10.2307/2408641.
Published marker collections and allele frequency data¶
[5]Rajeevan H, Soundararajan U, Kidd JR, Pakstis AJ, Kidd KK (2012) ALFRED: an allele frequency resource for research and teaching. Nucleic Acids Research, 40(D1): D1010-D1015, doi:10.1093/nar/gkr924.
[6]Kidd KK, Pakstis AJ, Speed WC, Lagace R, Wootton S, Chang J (2018) Selecting microhaplotypes optimized for different purposes. Electrophoresis, doi:10.1002/elps.201800092.
[7]Kidd KK, Rajeevan H (2018) ALFRED data download. The Allele Frequency Database, https://alfred.med.yale.edu/alfred/selectDownload/Microhap_alleleF_198.txt. Accessed December 7, 2018.
[8]van der Gaag KJ, de Leeuw RH, Laros JFJ, den Dunnen JT, de Knijff P (2018) Short hypervariable microhaplotypes: A novel set of very short high discriminating power loci without stutter artefacts. FSI: Genetics, 35:169-175, doi:10.1016/j.fsigen.2018.05.008.
[9]Staadig A, Tillmar A (2021) Evaluation of microhaplotypes in forensic kinship analysis from a Swedish population perspective. International Journal of Legal Medicine, 135:1151-1160, doi:10.1016/j.fsigen.2022.102729.
[10]Hiroaki N, Fujii K, Kitayama T, Sekiguchi K, Nakanishi H, Saito K (2015) Approaches for identifying multiple-SNP haplotype blocks for use in human identification. Legal Medicine, 17(5):415-420, doi:10.1016/j.legalmed.2015.06.003.
[11]Chen P, Deng C, Li Z, Pu Y, Yang J, Yu Y, Li K, Li D, Liang W, Zhang L, Chen F (2019) A microhaplotypes panel for massively parallel sequencing analysis of DNA mixtures. FSI: Genetics, 40:140-149, doi:10.1016/j.fsigen.2019.02.018.
[12]Voskoboinik L, Motro U, Darvasi A (2018) Facilitating complex DNA mixture interpretation by sequencing highly polymorphic haplotypes. FSI: Genetics, 35:136-140, doi:10.1016/j.fsigen.2018.05.001.
[13]de la Puente M, Phillips C, Xavier C, Amigo J, Carracedo A, Parson W, Lareu MV (2020) Building a custom large-scale panel of novel microhaplotypes for forensic identification using MiSeq and Ion S5 massively parallel sequencing systems. FSI: Genetics, 45:102213, doi:10.1016/j.fsigen.2019.102213.
[14]Auton A, Abecasis G, Altshuler D, et al. (2015) A global reference for human genetic variation. Nature 526:68–74, doi:10.1038/nature15393.
[15]Gandotra N, Speed WC, Qin W, Tang Y, Pakstis AJ, Kidd KK, Scharfe C (2020) Validation of novel forensic DNA markers using multiplex microhaplotype sequencing. FSI: Genetics, 47:102275, doi:10.1016/j.fsigen.2020.102275.
[16]Sun S, Liu Y, Li J, Yang Z, Wen D, Liang W, Yan Y, Yu H, Cai J, Zha L (2020) Development and application of a nonbinary SNP-based microhaplotype panel for paternity testing involving close relatives. FSI: Genetics, 46:102255, doi:10.1016/j.fsigen.2020.102255.
[17]Kureshi A, Li J, Wen D, Sun S, Yang Z, Zha L (2020) Construction and forensic application of 20 highly polymorphic microhaplotypes. Royal Society Open Science, 7(5):191937, doi:10.1098/rsos.191937.
[18]Jin XY, Cui W, Chen C, Guo YX, Zhang XR, Xing GH, Lan JW, Zhu BF (2020) Developing and population analysis of a new multiplex panel of 18 microhaplotypes and compound markers using next generation sequencing and its application in the Shaanxi Han population. Electrophoresis, 41(13-14):1230-1237, doi:10.1002/elps.201900451.
[19]Wu R, Li H, Li R, Peng D, Wang N, Shen X, Sun H (2021) Identification and sequencing of 59 highly polymorphic microhaplotypes for analysis of DNA mixtures. International Journal of Legal Medicine, 135:1137-1149, doi:10.1007/s00414-020-02483-x.
[20]Fan H, Xie Q, Wang L, Ru K, Tan X, Ding J, Wang X, Huang J, Wang Z, Li Y, Wang X, He Y, Gu C, Liu M, Ma S, Wen S, Qiu P (2022) Microhaplotype and Y-SNP/STR (MY): A novel MPS-based system for genotype pattern recognition in two-person DNA mixtures. FSI: Genetics, 59:102705, doi:10.1016/j.fsigen.2022.102705.
[21]Pakstis AJ, Gandotra N, Speed WC, Murtha M, Scharfe C, Kidd KK (2021) The population genetics characteristics of a 90 locus panel of microhaplotypes. Human Genetics, 140:1753-1773, doi:10.1007/s00439-021-02382-0.
[22]Kidd KK, Pakstis AJ, Gandotra N, Scharfe C, Podini D (2022) A multipurpose panel of microhaplotypes for use with STR markers in casework. FSI: Genetics, 60:102729, doi:10.1016/j.fsigen.2022.102729.
[23]Turchi C, Melchionda F, Pesaresi M, Tagliabracci A (2019) Evaluation of a microhaplotypes panel for forensic genetics using massive parallel sequencing technology. FSI: Genetics 41:120-127, doi:10.1016/j.fsigen.2019.04.009.
[24]Zou X, Guanglin H, Liu J, Jiang L, Wang Mengge, Chen P, Hou Y, Wang Z (2022) Screening and selection of 21 novel microhaplotype markers for ancestry inference in ten Chinese subpopulations. FSI: Genetics, 58:102687, doi:10.1016/j.fsigen.2022.102687.
[25]Yu WS, Feng YS, Kang KL, Zhang C, Ji AQ, Ye J, Wang L (2022) Screening of highly discriminative microhaplotype markers for individual identification and mixture deconvolution in East Asian populations. FSI: Genetics, 59:102720, doi:10.1016/j.fsigen.2022.102720.
[26]Zhu Q, Wang H, Cao Y, Huang Y, Wei Y, Hu Y, Dai X, Shan T, Wang Y, Zhang J (2023) Evaluation of large-scale highly polymorphic microhaplotypes in complex DNA mixtures analysis using RMNE method. FSI: Genetics 65:102874, doi:10.1016/j.fsigen.2023.102874.
[27]Zhang R, Xue J, Tan M, Chen D, Xiao Y, Liu G, Zheng Y, Wu Q, Liao M, Lv M, Qu S, Liang W (2023) An MPS-Based 50plex Microhaplotype Assay for Forensic DNA Analysis. Genes 14:865, doi:10.3390/genes14040865.
[28]Du Q, Ma G, Lu C, Wang Q, Fu L, Cong B, Li S (2023) Development and evaluation of a novel panel containing 188 microhaplotypes for 2nd-degree kinship testing in the Hebei Han population. FSI: Genetics 65, doi:10.1016/j.fsigen.2023.102855.
[29]Byrska-Bishop M, Evani US, Zhao X, et al. (2022) High-coverage whole-genome sequencing of the expanded 1000 Genomes Project cohort including 602 trios. Cell 185:18, doi:10.1016/j.cell.2022.08.004.