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The Astonishing General: The Life and Legacy of Sir Isaac Brock by Wesley B. Turner
2012
Ontario History
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Clements Library, University of Michigan I n his 1999 study British Generals of the War of 1812, historian Wesley Turner explored the reasons why Major-General Isaac Brock, who held responsibility for ...
Turner explains that in preparing this biography he has "something different to say" (p. 9) about this subject. ...
doi:10.7202/1065399ar
fatcat:ssl4cz5tfbcfbctgbkfxycye5i
Hereditary Prostate Cancer
[chapter]
2003
Prostate Cancer
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However, as mentioned above, an examination of a large number of prostate cancer families for other cancers by Isaacs et al. ...
Work from a large number of laboratories has identified a number of commonly occurring alterations in prostate cancer DNA (reviewed in Isaacs and Bova [38] ). ...
doi:10.1016/b978-012286981-5/50018-5
fatcat:kec3f2jw2rhctgnh74rdu7auji
Integrating long-range connectivity information into de Bruijn graphs
[article]
2017
bioRxiv
pre-print
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Motivation: The de Bruijn graph is a simple and efficient data structure that is used in many areas of sequence analysis including genome assembly, read error correction and variant calling. The data structure has a single parameter k, is straightforward to implement and is tractable for large genomes with high sequencing depth. It also enables representation of multiple samples simultaneously to facilitate comparison. However, unlike the string graph, a de Bruijn graph does not retain long
doi:10.1101/147777
fatcat:pd5gmzelkfbu5oiqdd4upkftve
more »
... e information that is inherent in the read data. For this reason, applications that rely on de Bruijn graphs can produce sub-optimal results given their input. Results: We present a novel assembly graph data structure: the Linked de Bruijn Graph (LdBG). Constructed by adding annotations on top of a de Bruijn graph, it stores long range connectivity information through the graph. We show that with error-free data it is possible to losslessly store and recover sequence from a Linked de Bruijn graph. With assembly simulations we demonstrate that the LdBG data structure outperforms both the de Bruijn graph and the String Graph Assembler (SGA). Finally we apply the LdBG to Klebsiella pneumoniae short read data to make large (12 kbp) variant calls, which we validate using PacBio sequencing data, and to characterise the genomic context of drug-resistance genes. Availability: Linked de Bruijn Graphs and associated algorithms are implemented as part of McCortex, available under the MIT license at https://github.com/mcveanlab/mccortex.
Associations between hOGG1 sequence variants and prostate cancer susceptibility
2002
Cancer Research
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8-Hydroxyguanine is a mutagenic base lesion produced by reactive oxygen species. The hOGG1 gene encodes a DNA glycosylase/AP lyase that can suppress the mutagenic effects of 8-hydroxyguanine by catalyzing its removal from oxidized DNA. A population-based (245 cases and 222 controls) and family-based (159 hereditary prostate cancer families) association study was performed to test the hypothesis that sequence variants of hOGG1 increase susceptibility to prostate cancer. We found that the
pmid:11956079
fatcat:kj3kl7grebderbchhcwx46tkjy
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... frequency of two sequence variants (11657A/G and Ser326Cys) was significantly different between cases and controls. The association with 11657A/G is confirmed and strengthened by our family-based association study. These results suggest that sequence variants in this gene are associated with prostate cancer risk, presumably through defective DNA repair function of hOGG1.
High Frequency and Prevalence of Community-Based Asymptomatic SARS-CoV-2 Infection
[article]
2020
medRxiv
pre-print
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Approximately 20-40% of SARS-CoV-2 infection is asymptomatic; however, data are limited on drivers of such infection. Among over 730,000 SARS-CoV-2 test results in Los Angeles between August-October, 2020, we found heterogenous frequencies of asymptomatic infection among various sup-populations. Further research is needed to delineate drivers of asymptomatic SARS-CoV-2 infection.
doi:10.1101/2020.12.09.20246249
fatcat:c4xgdf325bc7fmpmpmqmh3wdzu
Integrating long-range connectivity information into de Bruijn graphs
2018
Bioinformatics
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Motivation: The de Bruijn graph is a simple and efficient data structure that is used in many areas of sequence analysis including genome assembly, read error correction and variant calling. The data structure has a single parameter k, is straightforward to implement and is tractable for large genomes with high sequencing depth. It also enables representation of multiple samples simultaneously to facilitate comparison. However, unlike the string graph, a de Bruijn graph does not retain long
doi:10.1093/bioinformatics/bty157
pmid:29554215
pmcid:PMC6061703
fatcat:7ksbpf6i7nfofajzazgezy5ohe
more »
... e information that is inherent in the read data. For this reason, applications that rely on de Bruijn graphs can produce sub-optimal results given their input. Results: We present a novel assembly graph data structure: the Linked de Bruijn Graph (LdBG). Constructed by adding annotations on top of a de Bruijn graph, it stores long range connectivity information through the graph. We show that with error-free data it is possible to losslessly store and recover sequence from a Linked de Bruijn graph. With assembly simulations we demonstrate that the LdBG data structure outperforms both the de Bruijn graph and the String Graph Assembler (SGA). Finally we apply the LdBG to Klebsiella pneumoniae short read data to make large (12 kbp) variant calls, which we validate using PacBio sequencing data, and to characterise the genomic context of drug-resistance genes. Availability: Linked de Bruijn Graphs and associated algorithms are implemented as part of McCortex, available under the MIT license at https://github.com/mcveanlab/
The neprilysin (NEP) family of zinc metalloendopeptidases: Genomics and function
2001
Bioessays
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The tortuous route to the subsequent isolation and cloning of the physiologically relevant ECE is reviewed in Turner and Murphy. ...
Turner, School of Biochemistry and Molecular Biology, University of Leeds, Leeds LS2 9JT, UK. E-mail: a.j.turner@leeds.ac.uk 1
2 ...
doi:10.1002/1521-1878(200103)23:3<261::aid-bies1036>3.0.co;2-k
pmid:11223883
fatcat:bck633tppbfwhc2r27n5u4k2hu
Biomarkers and Stimulation Algorithms for Adaptive Brain Stimulation
2017
Frontiers in Neuroscience
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., 2006; Patil and Turner, 2008) . The update time for BMI systems is typically on the order of ∼20 Hz (i.e., ∼50 ms for updating the next prediction) (Hanson et al., 2012) . ...
doi:10.3389/fnins.2017.00564
pmid:29066947
pmcid:PMC5641319
fatcat:5xzkghr3cngodkfthmrj4lphka
A Polymorphism in theCDKN1BGene Is Associated with Increased Risk of Hereditary Prostate Cancer
2004
Cancer Research
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The loss of cell cycle control is believed to be an important mechanism in the promotion of carcinogenesis. CDKN1B (p27) belongs to the Cip/Kip family and functions as an important cell cycle gatekeeper. Several lines of evidence from clinical studies and laboratory experiments demonstrate that CDKN1B is an important tumor suppressor gene in prostate cancer etiology. In addition, a case-control study has shown that the 326T/G (V109G) polymorphism in CDKN1B is associated with advanced prostate
doi:10.1158/0008-5472.can-03-2340
pmid:15026335
fatcat:hbfn4kzcg5gbbdi3arh2rvblay
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... ncer. In light of the evidence for linkage between the chromosomal location of the CDKN1B gene (12p13) and prostate cancer susceptibility in several hereditary prostate cancer (HPC) populations, we hypothesized that sequence variants of CDKN1B play a role in HPC. To test this hypothesis, we first resequenced this gene in 96 HPC probands to identify germ-line mutations and sequence variants. We then genotyped the identified sequence variants among all family members of 188 HPC families and tested for their cosegregation with prostate cancer. In total, 10 sequence variants were identified, including three nonsynonymous changes. A family-based test, which is free from the effects of population stratification, revealed a significant association between single nucleotide polymorphism (SNP) -79C/T and prostate cancer (with a nominal P of 0.0005). The C allele of -79C/T was overtransmitted from parents to their affected offspring. Evidence for this association was primarily contributed by affected offspring whose age at diagnosis was <65 years. Together with the previous association study in a sporadic prostate cancer population, our new findings additionally suggest that germ-line variants of this gene play a role in prostate cancer susceptibility.
Stable recombination hotspots in birds
[article]
2015
biorxiv/medrxiv
pre-print
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Although the DNA-binding protein PRDM9 plays a critical role in the specification of meiotic recombination hotspots in mice and apes, it appears to be absent from many vertebrate species, including birds. To learn about the determinants of fine-scale recombination rates and their evolution in natural populations lacking PRDM9, we inferred fine-scale recombination maps from population resequencing data for two bird species, the zebra finchTaeniopygia guttata, and the long-tailed finch,Poephila
doi:10.1101/023101
fatcat:zpn7musj6jghxkt3h3wpar5b2u
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... uticauda, whose divergence is on par with that between human and chimpanzee. We find that both bird species have hotspots, and these are enriched near CpG islands and transcription start sites. In sharp contrast to what is seen in mice and apes, the hotspots are largely shared between the two species, with indirect evidence of conservation extending across bird species tens of millions of years diverged. These observations link the evolution of hotspots to their genetic architecture, suggesting that in the absence of PRDM9 binding specificity, accessibility of the genome to the cellular recombination machinery, particularly around functional genomic elements, both enables increased recombination and constrains its evolution.
Molecular residual disease and adjuvant trials design in solid tumors
2019
Clinical Cancer Research
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Turner reports receiving commercial research grants from AstraZeneca, Bio-Rad, Pfizer, Roche/Genentech, Clovis, and Guardant Health, and is a consultant/advisory board member for AstraZeneca, Bristol-Myers ...
doi:10.1158/1078-0432.ccr-19-0152
pmid:31088829
fatcat:6hqpcq7hx5hmvj5h3j26pvhxva
Determination of HER2 Amplification Status on Tumour DNA by Digital PCR
2013
PLoS ONE
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Citation: Garcia-Murillas I, Lambros M, Turner NC (2013) Determination of HER2 Amplification Status on Tumour DNA by Digital PCR. PLoS ONE 8(12): e83409. ...
doi:10.1371/journal.pone.0083409
pmid:24386193
pmcid:PMC3873285
fatcat:c7paaz5wjvgi7hayrgygtoffz4
Polymorphisms in the CYP1B1 gene are associated with increased risk of prostate cancer
2003
British Journal of Cancer
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Managing the pediatric patient with celiac disease: a multidisciplinary approach
2016
Journal of Multidisciplinary Healthcare
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celiac disease CD patients may face the additional management complexity of being affected by associated health conditions, such as type 1 diabetes mellitus, autoimmune hypothyroidism, Down syndrome, and Turner ...
45% to 60%, many of which are likely overestimates. 3, [7] [8] [9] [10] Adolescents have been identified as a subgroup with a particularly high rate of noncompliance. 11
Dovepress
Dovepress
530 Isaac ...
doi:10.2147/jmdh.s95323
pmid:27785047
pmcid:PMC5067051
fatcat:nwvl5rtxwza35analv4rsm5mna
Chylothorax and Chylopericardium: A Complication of Long-Term Central Venous Catheter Use
2019
Case Reports in Pulmonology
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The development of chylothorax and chylopericardium is an uncommon complication of the long-term use of central venous catheters. We describe a unique case of an end stage renal disease patient on hemodialysis with a left jugular tunneled catheter who developed superior vena cava syndrome. Our patient presented with both a large pleural and pericardial effusion that despite drainage continued to reaccumulate. Further imaging with CT scan of the thorax revealed stenosis of the superior vena cava
doi:10.1155/2019/4908259
pmid:31380138
pmcid:PMC6657625
fatcat:4dqfgi3wrjcbfkgiekorwdxo6e
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... leading to recurrent chylothorax and chylopericardium.
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