| Year |
Citation |
Score |
| 2024 |
de Cesare M, Mwenda M, Jeffreys AE, Chirwa J, Drakeley C, Schneider K, Mambwe B, Glanz K, Ntalla C, Carrasquilla M, Portugal S, Verity RJ, Bailey JA, Ghinai I, Busby GB, et al. Flexible and cost-effective genomic surveillance of P. falciparum malaria with targeted nanopore sequencing. Nature Communications. 15: 1413. PMID 38360754 DOI: 10.1038/s41467-024-45688-z |
0.301 |
|
| 2023 |
Niaré K, Greenhouse B, Bailey JA. An optimized GATK4 pipeline for Plasmodium falciparum whole genome sequencing variant calling and analysis. Malaria Journal. 22: 207. PMID 37420214 DOI: 10.1186/s12936-023-04632-0 |
0.345 |
|
| 2020 |
Tessema SK, Hathaway NJ, Teyssier NB, Murphy M, Chen A, Aydemir O, Duarte EM, Simone W, Colborn J, Saute F, Crawford E, Aide P, Bailey JA, Greenhouse B. Sensitive, highly multiplexed sequencing of microhaplotypes from the Plasmodium falciparum heterozygome. The Journal of Infectious Diseases. PMID 32840625 DOI: 10.1093/Infdis/Jiaa527 |
0.472 |
|
| 2020 |
Kaymaz Y, Oduor CI, Aydemir O, Luftig MA, Otieno JA, Ong'echa JM, Bailey JA, Moormann AM. Epstein Barr virus genomes reveal population structure and type 1 association with endemic Burkitt lymphoma. Journal of Virology. PMID 32581102 DOI: 10.1128/Jvi.02007-19 |
0.389 |
|
| 2019 |
Chauhan G, McClure J, Hekman J, Marsh PW, Bailey JA, Daniels RF, Genereux DP, Karlsson EK. Combining Citizen Science and Genomics to Investigate Tick, Pathogen, and Commensal Microbiome at Single-Tick Resolution. Frontiers in Genetics. 10: 1322. PMID 32038704 DOI: 10.3389/Fgene.2019.01322 |
0.322 |
|
| 2019 |
Panea RI, Love CL, Shingleton JR, Reddy A, Bailey JA, Moormann AM, Otieno JA, Ong'echa JM, Oduor CI, Schroeder KMS, Masalu N, Chao NJ, Agajanian M, Major MB, Fedoriw Y, et al. The whole genome landscape of Burkitt lymphoma subtypes. Blood. PMID 31558468 DOI: 10.1182/Blood.2019001880 |
0.385 |
|
| 2019 |
Brazeau NF, Assefa A, Mohammed H, Seme H, Tsadik AG, Parr JB, Keeler C, Hathaway NJ, Meshnick SR, Bailey JA, Kassa M, Juliano JJ, Woyessa A. Pooled Deep Sequencing of Drug Resistance Loci from Parasites across Ethiopia. The American Journal of Tropical Medicine and Hygiene. PMID 31516103 DOI: 10.4269/Ajtmh.19-0142 |
0.308 |
|
| 2018 |
Wesolowski A, Taylor AR, Chang HH, Verity R, Tessema S, Bailey JA, Alex Perkins T, Neafsey DE, Greenhouse B, Buckee CO. Correction to: Mapping malaria by combining parasite genomic and epidemiologic data. Bmc Medicine. 16: 241. PMID 30591060 DOI: 10.1186/S12916-018-1232-2 |
0.3 |
|
| 2018 |
Boyce RM, Hathaway N, Fulton T, Reyes R, Matte M, Ntaro M, Mulogo E, Waltmann A, Bailey JA, Siedner MJ, Juliano JJ. Reuse of malaria rapid diagnostic tests for amplicon deep sequencing to estimate Plasmodium falciparum transmission intensity in western Uganda. Scientific Reports. 8: 10159. PMID 29977002 DOI: 10.1038/S41598-018-28534-3 |
0.352 |
|
| 2017 |
Miller RH, Hathaway NJ, Kharabora O, Mwandagalirwa K, Tshefu A, Meshnick SR, Taylor SM, Juliano JJ, Stewart VA, Bailey JA. A deep sequencing approach to estimate Plasmodium falciparum complexity of infection (COI) and explore apical membrane antigen 1 diversity. Malaria Journal. 16: 490. PMID 29246158 DOI: 10.1186/S12936-017-2137-9 |
0.308 |
|
| 2017 |
Hathaway NJ, Parobek CM, Juliano JJ, Bailey JA. SeekDeep: single-base resolution de novo clustering for amplicon deep sequencing. Nucleic Acids Research. PMID 29202193 DOI: 10.1093/Nar/Gkx1201 |
0.365 |
|
| 2017 |
Kaymaz Y, Oduor CI, Yu H, Otieno JA, Ong'echa JM, Moormann AM, Bailey JA. Comprehensive Transcriptome and Mutational Profiling of Endemic Burkitt Lymphoma Reveals EBV Type-Specific Differences. Molecular Cancer Research : McR. 15: 563-576. PMID 28465297 DOI: 10.1158/1541-7786.Mcr-16-0305 |
0.315 |
|
| 2016 |
Lemieux JE, Tran AD, Freimark L, Schaffner SF, Goethert H, Andersen KG, Bazner S, Li A, McGrath G, Sloan L, Vannier E, Milner D, Pritt B, Rosenberg E, Telford S, ... Bailey JA, et al. A global map of genetic diversity in Babesia microti reveals strong population structure and identifies variants associated with clinical relapse. Nature Microbiology. 1: 16079. PMID 27572973 DOI: 10.1038/Nmicrobiol.2016.79 |
0.373 |
|
| 2015 |
Lin JT, Hathaway NJ, Saunders DL, Lon C, Balasubramanian S, Kharabora O, Gosi P, Sriwichai S, Kartchner L, Chuor CM, Satharath P, Lanteri C, Bailey JA, Juliano JJ. Using Amplicon Deep Sequencing to Detect Genetic Signatures of Plasmodium vivax Relapse. The Journal of Infectious Diseases. PMID 25748326 DOI: 10.1093/Infdis/Jiv142 |
0.38 |
|
| 2015 |
Lemieux J, Tran A, Freimark L, Goethert H, Bazner S, McGrath G, Rosenberg E, Telford S, Bailey J, Sabeti P. Whole-Genome Sequencing of Babesia microti From Patients Reveals Recent Origin, Extensive Population Structure, and Recent Expansion of Zoonotic Strains Open Forum Infectious Diseases. 2. DOI: 10.1093/Ofid/Ofv131.34 |
0.406 |
|
| 2014 |
Parobek CM, Bailey JA, Hathaway NJ, Socheat D, Rogers WO, Juliano JJ. Differing patterns of selection and geospatial genetic diversity within two leading Plasmodium vivax candidate vaccine antigens. Plos Neglected Tropical Diseases. 8: e2796. PMID 24743266 DOI: 10.1371/Journal.Pntd.0002796 |
0.305 |
|
| 2013 |
Johnson ME, Rowsey RA, Shirley S, Vandevoort C, Bailey J, Hassold T. A specific family of interspersed repeats (SINEs) facilitates meiotic synapsis in mammals. Molecular Cytogenetics. 6: 1. PMID 23276256 DOI: 10.1186/1755-8166-6-1 |
0.458 |
|
| 2010 |
Sharakhova MV, George P, Brusentsova IV, Leman SC, Bailey JA, Smith CD, Sharakhov IV. Genome mapping and characterization of the Anopheles gambiae heterochromatin. Bmc Genomics. 11: 459. PMID 20684766 DOI: 10.1186/1471-2164-11-459 |
0.479 |
|
| 2010 |
Xia A, Sharakhova MV, Leman SC, Tu Z, Bailey JA, Smith CD, Sharakhov IV. Genome landscape and evolutionary plasticity of chromosomes in malaria mosquitoes. Plos One. 5: e10592. PMID 20485676 DOI: 10.1371/Journal.Pone.0010592 |
0.441 |
|
| 2008 |
Bailey JA, Kidd JM, Eichler EE. Human copy number polymorphic genes. Cytogenetic and Genome Research. 123: 234-43. PMID 19287160 DOI: 10.1159/000184713 |
0.712 |
|
| 2006 |
Bailey JA, Eichler EE. Primate segmental duplications: crucibles of evolution, diversity and disease. Nature Reviews. Genetics. 7: 552-64. PMID 16770338 DOI: 10.1038/Nrg1895 |
0.607 |
|
| 2005 |
Alkan C, Tüzün E, Buard J, Lethiec F, Eichler EE, Bailey JA, Sahinalp SC. Manipulating multiple sequence alignments via MaM and WebMaM. Nucleic Acids Research. 33: W295-8. PMID 15980474 DOI: 10.1093/Nar/Gki406 |
0.708 |
|
| 2005 |
Sharp AJ, Locke DP, McGrath SD, Cheng Z, Bailey JA, Vallente RU, Pertz LM, Clark RA, Schwartz S, Segraves R, Oseroff VV, Albertson DG, Pinkel D, Eichler EE. Segmental duplications and copy-number variation in the human genome. American Journal of Human Genetics. 77: 78-88. PMID 15918152 DOI: 10.1086/431652 |
0.796 |
|
| 2005 |
Tuzun E, Sharp AJ, Bailey JA, Kaul R, Morrison VA, Pertz LM, Haugen E, Hayden H, Albertson D, Pinkel D, Olson MV, Eichler EE. Fine-scale structural variation of the human genome. Nature Genetics. 37: 727-32. PMID 15895083 DOI: 10.1038/Ng1562 |
0.697 |
|
| 2004 |
Alkan C, Eichler EE, Bailey JA, Sahinalp SC, Tüzün E. The role of unequal crossover in alpha-satellite DNA evolution: a computational analysis. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 11: 933-44. PMID 15700410 DOI: 10.1089/Cmb.2004.11.933 |
0.662 |
|
| 2004 |
She X, Horvath JE, Jiang Z, Liu G, Furey TS, Christ L, Clark R, Graves T, Gulden CL, Alkan C, Bailey JA, Sahinalp C, Rocchi M, Haussler D, Wilson RK, et al. The structure and evolution of centromeric transition regions within the human genome. Nature. 430: 857-64. PMID 15318213 DOI: 10.1038/Nature02806 |
0.789 |
|
| 2004 |
Bailey JA, Church DM, Ventura M, Rocchi M, Eichler EE. Analysis of segmental duplications and genome assembly in the mouse. Genome Research. 14: 789-801. PMID 15123579 DOI: 10.1101/Gr.2238404 |
0.621 |
|
| 2004 |
Tuzun E, Bailey JA, Eichler EE. Recent segmental duplications in the working draft assembly of the brown Norway rat. Genome Research. 14: 493-506. PMID 15059990 DOI: 10.1101/Gr.1907504 |
0.633 |
|
| 2004 |
Bailey JA, Baertsch R, Kent WJ, Haussler D, Eichler EE. Hotspots of mammalian chromosomal evolution. Genome Biology. 5: R23. PMID 15059256 DOI: 10.1186/Gb-2004-5-4-R23 |
0.641 |
|
| 2004 |
Gibbs RA, Weinstock GM, Metzker ML, Muzny DM, Sodergren EJ, Scherer S, Scott G, Steffen D, Worley KC, Burch PE, Okwuonu G, Hines S, Lewis L, DeRamo C, Delgado O, ... ... Bailey JA, et al. Genome sequence of the Brown Norway rat yields insights into mammalian evolution. Nature. 428: 493-521. PMID 15057822 DOI: 10.1038/Nature02426 |
0.69 |
|
| 2003 |
Bailey JA, Eichler EE. Genome-wide detection and analysis of recent segmental duplications within mammalian organisms. Cold Spring Harbor Symposia On Quantitative Biology. 68: 115-24. PMID 15338609 DOI: 10.1101/Sqb.2003.68.115 |
0.561 |
|
| 2003 |
Bailey JA, Liu G, Eichler EE. An Alu transposition model for the origin and expansion of human segmental duplications. American Journal of Human Genetics. 73: 823-34. PMID 14505274 DOI: 10.1086/378594 |
0.704 |
|
| 2003 |
Hillier LW, Fulton RS, Fulton LA, Graves TA, Pepin KH, Wagner-McPherson C, Layman D, Maas J, Jaeger S, Walker R, Wylie K, Sekhon M, Becker MC, O'Laughlin MD, Schaller ME, ... ... Bailey JA, et al. The DNA sequence of human chromosome 7. Nature. 424: 157-64. PMID 12853948 DOI: 10.1038/Nature01782 |
0.608 |
|
| 2003 |
Horvath JE, Gulden CL, Bailey JA, Yohn C, McPherson JD, Prescott A, Roe BA, de Jong PJ, Ventura M, Misceo D, Archidiacono N, Zhao S, Schwartz S, Rocchi M, Eichler EE. Using a pericentromeric interspersed repeat to recapitulate the phylogeny and expansion of human centromeric segmental duplications. Molecular Biology and Evolution. 20: 1463-79. PMID 12777517 DOI: 10.1093/Molbev/Msg158 |
0.745 |
|
| 2003 |
Liu G, Zhao S, Bailey JA, Sahinalp SC, Alkan C, Tuzun E, Green ED, Eichler EE. Analysis of primate genomic variation reveals a repeat-driven expansion of the human genome. Genome Research. 13: 358-68. PMID 12618366 DOI: 10.1101/Gr.923303 |
0.755 |
|
| 2003 |
Guy J, Hearn T, Crosier M, Mudge J, Viggiano L, Koczan D, Thiesen HJ, Bailey JA, Horvath JE, Eichler EE, Earthrowl ME, Deloukas P, French L, Rogers J, Bentley D, et al. Genomic sequence and transcriptional profile of the boundary between pericentromeric satellites and genes on human chromosome arm 10p. Genome Research. 13: 159-72. PMID 12566394 DOI: 10.1101/Gr.644503 |
0.721 |
|
| 2002 |
Alkan C, Bailey JA, Eichler EE, Sahinalp SC, Tuzun E. An algorithmic analysis of the role of unequal crossover in alpha-satellite DNA evolution. Genome Informatics. International Conference On Genome Informatics. 13: 93-102. PMID 14571378 DOI: 10.11234/Gi1990.13.93 |
0.655 |
|
| 2002 |
Bailey JA, Gu Z, Clark RA, Reinert K, Samonte RV, Schwartz S, Adams MD, Myers EW, Li PW, Eichler EE. Recent segmental duplications in the human genome. Science (New York, N.Y.). 297: 1003-7. PMID 12169732 DOI: 10.1126/Science.1072047 |
0.812 |
|
| 2002 |
Bailey JA, Yavor AM, Viggiano L, Misceo D, Horvath JE, Archidiacono N, Schwartz S, Rocchi M, Eichler EE. Human-specific duplication and mosaic transcripts: the recent paralogous structure of chromosome 22. American Journal of Human Genetics. 70: 83-100. PMID 11731936 DOI: 10.1086/338458 |
0.716 |
|
| 2001 |
Horvath JE, Bailey JA, Locke DP, Eichler EE. Lessons from the human genome: transitions between euchromatin and heterochromatin. Human Molecular Genetics. 10: 2215-23. PMID 11673404 DOI: 10.1093/Hmg/10.20.2215 |
0.81 |
|
| 2001 |
Johnson ME, Viggiano L, Bailey JA, Abdul-Rauf M, Goodwin G, Rocchi M, Eichler EE. Positive selection of a gene family during the emergence of humans and African apes. Nature. 413: 514-9. PMID 11586358 DOI: 10.1038/35097067 |
0.606 |
|
| 2001 |
Bailey JA, Yavor AM, Massa HF, Trask BJ, Eichler EE. Segmental duplications: organization and impact within the current human genome project assembly. Genome Research. 11: 1005-17. PMID 11381028 DOI: 10.1101/Gr.187101 |
0.655 |
|
| 2001 |
Cheung VG, Nowak N, Jang W, Kirsch IR, Zhao S, Chen XN, Furey TS, Kim UJ, Kuo WL, Olivier M, Conroy J, Kasprzyk A, Massa H, Yonescu R, Sait S, ... ... Bailey JA, et al. Integration of cytogenetic landmarks into the draft sequence of the human genome. Nature. 409: 953-8. PMID 11237021 DOI: 10.1038/35057192 |
0.639 |
|
| 2001 |
Lander ES, Linton LM, Birren B, Nusbaum C, Zody MC, Baldwin J, Devon K, Dewar K, Doyle M, FitzHugh W, Funke R, Gage D, Harris K, Heaford A, Howland J, ... ... Bailey JA, et al. Initial sequencing and analysis of the human genome. Nature. 409: 860-921. PMID 11237011 DOI: 10.1038/35057062 |
0.658 |
|
| 2001 |
Lander ES, Linton LM, Birren B, Nusbaum C, Zody MC, Baldwin J, Devon K, Dewar K, Doyle M, Fitzhugh W, Funke R, Gage D, Harris K, Heaford A, Howland J, ... ... Bailey JA, et al. Erratum: Initial sequencing and analysis of the human genome: International Human Genome Sequencing Consortium (Nature (2001) 409 (860-921)) Nature. 412: 565-566. DOI: 10.1038/35087627 |
0.499 |
|
| 2000 |
Lynn A, Kashuk C, Petersen MB, Bailey JA, Cox DR, Antonarakis SE, Chakravarti A. Patterns of meiotic recombination on the long arm of human chromosome 21 Genome Research. 10: 1319-1332. PMID 10984450 DOI: 10.1101/Gr.138100 |
0.323 |
|
| 2000 |
Bailey JA, Carrel L, Chakravarti A, Eichler EE. Molecular evidence for a relationship between LINE-1 elements and X chromosome inactivation: the Lyon repeat hypothesis. Proceedings of the National Academy of Sciences of the United States of America. 97: 6634-9. PMID 10841562 DOI: 10.1073/Pnas.97.12.6634 |
0.502 |
|
| 1999 |
Halushka MK, Mathews DJ, Bailey JA, Chakravarti A. GIST: A web tool for collecting gene information. Physiological Genomics. 1: 75-81. PMID 11015564 DOI: 10.1152/Physiolgenomics.1999.1.2.75 |
0.401 |
|
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