100 results on '"Raleigh, J"'
Search Results
2. Correction to: When Older Males Sire More Offspring—Increased Attractiveness or Higher Fertility?
- Author
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Lifjeld, Jan T., Kleven, Oddmund, Fossøy, Frode, Jacobsen, Frode, Laskemoen, Terje, Rudolfsen, Geir, and Robertson, Raleigh J.
- Published
- 2022
- Full Text
- View/download PDF
3. When Older Males Sire More Offspring—Increased Attractiveness or Higher Fertility?
- Author
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Lifjeld, Jan T., Kleven, Oddmund, Fossøy, Frode, Jacobsen, Frode, Laskemoen, Terje, Rudolfsen, Geir, and Robertson, Raleigh J.
- Published
- 2022
- Full Text
- View/download PDF
4. Rainy springs linked to poor nestling growth in a declining avian aerial insectivore ( Tachycineta bicolor )
- Author
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Cox, Amelia R., Robertson, Raleigh J., Lendvai, Ádám Z., Everitt, Kennedy, and Bonier, Frances
- Published
- 2019
5. Shoreline Birds
- Author
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Robertson, Raleigh J., primary
- Published
- 2021
- Full Text
- View/download PDF
6. Prediction and monitoring of relapse in stage III melanoma using circulating tumor DNA
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Tan, L., Sandhu, S., Lee, R.J., Li, J., Callahan, J., Ftouni, S., Dhomen, N., Middlehurst, P., Wallace, A., Raleigh, J., Hatzimihalis, A., Henderson, M.A., Shackleton, M., Haydon, A., Mar, V., Gyorki, D.E., Oudit, D., Dawson, M.A., Hicks, R.J., Lorigan, P., McArthur, G.A., Marais, R., Wong, S.Q., and Dawson, S.-J.
- Published
- 2019
- Full Text
- View/download PDF
7. Acute limb ischemia registry, the forgotten emergency
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Bluro, I, primary, Garagoli, F, additional, Chiabrando, J, additional, Chas, J, additional, Valle Raleigh, J, additional, Gonzalez, N, additional, Fernandez Villar, G, additional, Iroulart, J, additional, Pellegrini, M N, additional, Herzkovich, N, additional, Fernandez Recalde, M L, additional, Izaguirre, A, additional, Rojas Matas, C, additional, Kotowicz, V, additional, and Pizarro, R, additional
- Published
- 2023
- Full Text
- View/download PDF
8. Demographic drivers of local population decline in Tree Swallows ( Tachycineta bicolor ) in Ontario, Canada
- Author
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Cox, Amelia R., Robertson, Raleigh J., Fedy, Bradley C., Rendell, Wallace B., and Bonier, Frances
- Published
- 2018
9. DOES WHITE TAIL PATCH SIZE INDICATE QUALITY IN MALE CERULEAN WARBLERS (SETOPHAGA CERULEA)?
- Author
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PURVES, ELISABETH F., CONBOY, MARK A., ROBERTSON, RALEIGH J., and MARTIN, PAUL R.
- Published
- 2016
10. Linguistic variations of Blaan in Soccsksargen Region: A variationist sociolinguistic study.
- Author
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Ojanola, Raleigh J. and Tarusan, Mary Ann E.
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SOCIOLINGUISTICS , *VARIATION in language , *FRAMES (Linguistics) , *SEMANTICS , *PHONEME (Linguistics) - Abstract
Understanding language variations opens a wider perspective to language enthusiasts in boosting sociolinguistic awareness as regards to the different ways of using the language in different language contexts. It provides people from different geographical locations of Blaan to understand the language and its use. The study aimed to describe the linguistic variations of Blaan language in the four (4) sociolinguistic contexts of Blaan in Soccsksargen Region, Mindanao, Philippines such as Sarangani Blaan (SBL) of Sarangani Province, Koronadal Blaan (KBL) of South Cotabato Province, Columbio Blaan (CBL) of Sultan Kudarat Province, and Tulunan Blaan (TBL) of Cotabato Province in terms of phonological variations, morphological variations, semantic variations, and syntactic variations. Labov's (1966) variationist sociolinguistic framework was employed in describing the linguistic variations of Blaan which was qualitative in nature. The study was participated by purposively selected sixteen (16) research participants who were composed of Blaan elders and Blaan teachers. The findings of the study reveal ample linguistic variations in SBL, KBL, CBL, and TBL in terms of sound, word formation, meaning, and sentence structure. The phonological variations include the number of vowel phoneme production for/a/,/e/,/é/,/i/,/o/and/u/, the use of accent marks on vowel phonemes, the number of accented and unaccented vowel phonemes, phonetic and phonological change, and phoneme addition. The morphological variations include differences on tense markers, degrees of comparison markers, and other morphological features of the lexical categories of Blaan. The semantic variations include words that have positive meanings in one context but have offensive meanings as compared to the other context. The syntactic variations include forming of yes-no questions in Blaan and the placement of question markers. The study concludes that variations of language, in the perspective of sociolinguistics, prove that language is indeed changing, evolving, and adapting to the sociolinguistic contexts of different language communities. [ABSTRACT FROM AUTHOR]
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- 2023
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11. Multiplex immunohistochemistry accurately defines the immune context of metastatic melanoma
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Halse, H., Colebatch, A. J., Petrone, P., Henderson, M. A., Mills, J. K., Snow, H., Westwood, J. A., Sandhu, S., Raleigh, J. M., Behren, A., Cebon, J., Darcy, P. K., Kershaw, M. H., McArthur, G. A., Gyorki, D. E., and Neeson, P. J.
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- 2018
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12. Correction to: When Older Males Sire More Offspring—Increased Attractiveness or Higher Fertility?
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Jan T. Lifjeld, Oddmund Kleven, Frode Fossøy, Frode Jacobsen, Terje Laskemoen, Geir Rudolfsen, and Raleigh J. Robertson
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Animal Science and Zoology ,Ecology, Evolution, Behavior and Systematics - Published
- 2022
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- View/download PDF
13. When Older Males Sire More Offspring—Increased Attractiveness or Higher Fertility?
- Author
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Jan T. Lifjeld, Oddmund Kleven, Frode Fossøy, Frode Jacobsen, Terje Laskemoen, Geir Rudolfsen, and Raleigh J. Robertson
- Subjects
VDP::Matematikk og naturvitenskap: 400::Zoologiske og botaniske fag: 480 ,VDP::Mathematics and natural scienses: 400::Zoology and botany: 480 ,Animal Science and Zoology ,Ecology, Evolution, Behavior and Systematics - Abstract
Abstract In birds with extrapair mating, older males usually have higher fertilization success than younger males. Two hypotheses can potentially explain this pattern: 1) females prefer older, and often more ornamented males, or 2) older males invest more in reproduction and fertility than younger males. Here we studied factors associated with age-related male fertilization success in a population of barn swallows Hirundo rustica in Canada. We document that male fertilization success increased gradually up to a minimum age of four-year old. The age effect was especially strong for the number of extrapair offspring obtained and the occurrence of a second brood. The higher fertilization success of older males was also associated with an early start of breeding in spring. The length of the elongated outermost tail feathers, a postulated male ornament preferred by females, also increased with age (in both sexes), but it was not a significant predictor of male fertilization success within age classes. Male fertility traits, especially testis size, but also sperm motility and sperm velocity, increased significantly across age groups. Our results suggest that the higher fertilization success by older males is due to their higher reproductive investments and that their longer tails are an adaptation to early arrival on the breeding grounds. Significance statement The barn swallow is a socially monogamous passerine with extensive extrapair mating. We found that males become more successful in siring both withinpair and extrapair offspring as they become older. Their increased fertilization success was associated with a higher reproductive effort as indicated by larger testes, more motile sperm, and an earlier start of breeding in spring. The length of the outer tail feathers increased with age in both sexes, but long tails did not enhance male fertilization success among males of the same age. Long tails are probably an adaptation to rapid migration and earlier arrival on the breeding grounds. Our findings suggest that the commonly observed age-related increase in male fertilization success in passerine birds is better explained by life history theory than by sexual selection theory.
- Published
- 2022
- Full Text
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14. Clinical validation and implementation of droplet digital PCR for the detection of BRAF mutations from cell-free DNA
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Arnolda, R, Howlett, K, Chan, T, Raleigh, J, Hatzimihalis, A, Bell, A, Fellowes, A, Sandhu, S, Mcarthur, GA, Fox, SB, Dawson, S-J, Hewitt, C, Jones, K, Wong, SQ, Arnolda, R, Howlett, K, Chan, T, Raleigh, J, Hatzimihalis, A, Bell, A, Fellowes, A, Sandhu, S, Mcarthur, GA, Fox, SB, Dawson, S-J, Hewitt, C, Jones, K, and Wong, SQ
- Abstract
Droplet digital PCR (ddPCR) has been demonstrated in many research studies to be a sensitive method in the analysis of circulating tumour DNA (ctDNA) for identifying mutations and tracking disease. The transition of ddPCR into the diagnostic setting requires a number of critical steps including the assessment of accuracy and precision and ultimately implementation into clinical use. Here we present the clinical validation of ddPCR for the detection of BRAF mutations (V600E and V600K) from plasma. We describe the performance characteristics assessed including the limit of blank, limit of detection, ruggedness, accuracy, precision and the effect of the matrix. Overall, each assay could achieve a limit of detection of 0.5% variant allele fraction and was highly accurate, with 100% concordance of results obtained from routine diagnostic testing of formalin fixed tumour samples or reference controls (n=36 for BRAF V600E and n=30 for BRAF V600K). Inter-laboratory reproducibility across 12 plasma samples for each assay was also assessed and results were 100% concordant. Overall, we report the successful validation and translation of a ddPCR assay into clinical routine practice.
- Published
- 2022
15. Population decline in tree swallows (Tachycineta bicolor) linked to climate change and inclement weather on the breeding ground
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Raleigh J. Robertson, Frances Bonier, Wallace B. Rendell, and Amelia R. Cox
- Subjects
0106 biological sciences ,education.field_of_study ,Extinction ,biology ,Ecology ,010604 marine biology & hydrobiology ,Population ,Fledge ,Climate change ,15. Life on land ,biology.organism_classification ,010603 evolutionary biology ,01 natural sciences ,Predation ,Population decline ,13. Climate action ,Tachycineta bicolor ,Juvenile ,education ,Ecology, Evolution, Behavior and Systematics - Abstract
Population decline and the threat of extinction are realities currently facing many species. Yet, in most cases, the detailed demographic data necessary to identify causes of population decline are unavailable. Using 43 years (1975−2017) of data from a box-nesting population of tree swallows (Tachycineta bicolor), we identified reduced survival of offspring as a probable demographic cause of population decline. Poor fledging success was associated with increased predation and poor weather conditions during early nestling development. Low juvenile survival and subsequent recruitment was linked to poor weather conditions during the post-fledging period and may also be linked to conditions on the wintering grounds. Regional weather conditions during critical stages of breeding (early nestling and post-fledging) have become progressively worse over the 43-year study period. None of the other factors linked to offspring survival have similarly deteriorated. Overall, our results suggest tree swallows should be added to the growing list of species challenged by climate change, and that other species of aerial insect specialists may face similar impacts of climate change.
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- 2020
- Full Text
- View/download PDF
16. Shoreline Birds
- Author
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Raleigh J. Robertson
- Published
- 2021
- Full Text
- View/download PDF
17. Detection of cell-free microbial DNA using a contaminant-controlled analysis framework
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Zozaya-Valdes, E, Wong, SQ, Raleigh, J, Hatzimihalis, A, Ftouni, S, Papenfuss, AT, Sandhu, S, Dawson, MA, Dawson, S-J, Zozaya-Valdes, E, Wong, SQ, Raleigh, J, Hatzimihalis, A, Ftouni, S, Papenfuss, AT, Sandhu, S, Dawson, MA, and Dawson, S-J
- Abstract
BACKGROUND: The human microbiome plays an important role in cancer. Accumulating evidence indicates that commensal microbiome-derived DNA may be represented in minute quantities in the cell-free DNA of human blood and could possibly be harnessed as a new cancer biomarker. However, there has been limited use of rigorous experimental controls to account for contamination, which invariably affects low-biomass microbiome studies. RESULTS: We apply a combination of 16S-rRNA-gene sequencing and droplet digital PCR to determine if the specific detection of cell-free microbial DNA (cfmDNA) is possible in metastatic melanoma patients. Compared to matched stool and saliva samples, the absolute concentration of cfmDNA is low but significantly above the levels detected from negative controls. The microbial community of plasma is strongly influenced by laboratory and reagent contaminants introduced during the DNA extraction and sequencing processes. Through the application of an in silico decontamination strategy including the filtering of amplicon sequence variants (ASVs) with batch dependent abundances and those with a higher prevalence in negative controls, we identify known gut commensal bacteria, such as Faecalibacterium, Bacteroides and Ruminococcus, and also other uncharacterised ASVs. We analyse additional plasma samples, highlighting the potential of this framework to identify differences in cfmDNA between healthy and cancer patients. CONCLUSIONS: Together, these observations indicate that plasma can harbour a low yet detectable level of cfmDNA. The results highlight the importance of accounting for contamination and provide an analytical decontamination framework to allow the accurate detection of cfmDNA for future biomarker studies in cancer and other diseases.
- Published
- 2021
18. Evolution of late-stage metastatic melanoma is dominated by aneuploidy and whole genome doubling
- Author
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Vergara, IA, Mintoff, CP, Sandhu, S, McIntosh, L, Young, RJ, Wong, SQ, Colebatch, A, Cameron, DL, Kwon, JL, Wolfe, R, Peng, A, Ellul, J, Dou, X, Fedele, C, Boyle, S, Arnau, GM, Raleigh, J, Hatzimihalis, A, Szeto, P, Mooi, J, Widmer, DS, Cheng, PF, Amann, V, Dummer, R, Hayward, N, Wilmott, J, Scolyer, RA, Cho, RJ, Bowtell, D, Thorne, H, Alsop, K, Cordner, S, Woodford, N, Leditschke, J, O'Brien, P, Dawson, S-J, McArthur, GA, Mann, GJ, Levesque, MP, Papenfuss, AT, Shackleton, M, Vergara, IA, Mintoff, CP, Sandhu, S, McIntosh, L, Young, RJ, Wong, SQ, Colebatch, A, Cameron, DL, Kwon, JL, Wolfe, R, Peng, A, Ellul, J, Dou, X, Fedele, C, Boyle, S, Arnau, GM, Raleigh, J, Hatzimihalis, A, Szeto, P, Mooi, J, Widmer, DS, Cheng, PF, Amann, V, Dummer, R, Hayward, N, Wilmott, J, Scolyer, RA, Cho, RJ, Bowtell, D, Thorne, H, Alsop, K, Cordner, S, Woodford, N, Leditschke, J, O'Brien, P, Dawson, S-J, McArthur, GA, Mann, GJ, Levesque, MP, Papenfuss, AT, and Shackleton, M
- Abstract
Although melanoma is initiated by acquisition of point mutations and limited focal copy number alterations in melanocytes-of-origin, the nature of genetic changes that characterise lethal metastatic disease is poorly understood. Here, we analyze the evolution of human melanoma progressing from early to late disease in 13 patients by sampling their tumours at multiple sites and times. Whole exome and genome sequencing data from 88 tumour samples reveals only limited gain of point mutations generally, with net mutational loss in some metastases. In contrast, melanoma evolution is dominated by whole genome doubling and large-scale aneuploidy, in which widespread loss of heterozygosity sculpts the burden of point mutations, neoantigens and structural variants even in treatment-naïve and primary cutaneous melanomas in some patients. These results imply that dysregulation of genomic integrity is a key driver of selective clonal advantage during melanoma progression.
- Published
- 2021
19. Demographic drivers of local population decline in Tree Swallows (Tachycineta bicolor) in Ontario, Canada
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Bradley C. Fedy, Frances Bonier, Raleigh J. Robertson, Wallace B. Rendell, and Amelia R. Cox
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0106 biological sciences ,Avian clutch size ,education.field_of_study ,biology ,Population ,biology.organism_classification ,010603 evolutionary biology ,01 natural sciences ,010605 ornithology ,Population decline ,Tachycineta bicolor ,Population projection ,Threatened species ,Population growth ,Animal Science and Zoology ,Vital rates ,education ,Ecology, Evolution, Behavior and Systematics ,Demography - Abstract
Bird species around the world are threatened with extinction. In North America, aerial insectivores are experiencing particularly severe population declines. To conserve these species, we need to know which life stages have the largest influence on population growth. We monitored a box-nesting population of Tree Swallows (Tachycineta bicolor) from 1975 to 2017. From this long-term dataset, we derived estimates of 9 vital rates: clutch size, reproductive attempts, and overwinter return for 2 age classes of adult females, and hatching, fledging, and juvenile recruitment rates. We conducted a life-stage simulation analysis on this population based on a 3-stage, female-based population projection matrix to determine which of these vital rates had the greatest influence on overall population growth rate. We determined each vital rate's sensitivity (i.e. the effect of a small change in each vital rate on population growth), elasticity (i.e. the effect of a proportional change in each vital rate on popu...
- Published
- 2018
- Full Text
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20. Clinical, FDG-PET and molecular markers of immune checkpoint inhibitor response in patients with metastatic Merkel cell carcinoma
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Weppler, AM, Pattison, A, Bhave, P, De Ieso, P, Raleigh, J, Hatzimihalis, A, Gill, AJ, Balachander, S, Callahan, J, Chua, M, Au-Yeung, G, McArthur, GA, Hicks, RJ, Tothill, RW, Sandhu, S, Weppler, AM, Pattison, A, Bhave, P, De Ieso, P, Raleigh, J, Hatzimihalis, A, Gill, AJ, Balachander, S, Callahan, J, Chua, M, Au-Yeung, G, McArthur, GA, Hicks, RJ, Tothill, RW, and Sandhu, S
- Abstract
BACKGROUND: Metastatic Merkel cell carcinoma (mMCC) is an aggressive neuroendocrine malignancy of the skin with a poor prognosis. Immune checkpoint inhibitors (ICIs) have shown substantial efficacy and favorable safety in clinical trials. METHODS: Medical records of patients (pts) with mMCC treated with ICIs from August 2015 to December 2018 at Peter MacCallum Cancer Centre in Australia were analyzed. Response was assessed with serial imaging, the majority with FDG-PET/CT scans. RNA sequencing and immunohistochemistry for PD-L1, CD3 and Merkel cell polyomavirus (MCPyV) on tumor samples was performed. RESULTS: 23 pts with mMCC were treated with ICIs. A median of 8 cycles (range 1 to 47) were administered, with treatment ongoing in 6 pts. Objective responses (OR) were observed in 14 pts (61%): 10 (44%) complete responses (CR) and 4 (17%) partial responses (PR). Median time to response was 8 weeks (range 6 to 12) and 12-month progression-free survival rate was 39%. Increased OR were seen in pts aged less than 75 (OR 80% vs 46%), no prior history of chemotherapy (OR 64% vs 50%), patients with an immune-related adverse event (OR 100% vs 43%) and in MCPyV-negative tumors (OR 69% vs 43%). Pts with a CR had lower mean metabolic tumor volume on baseline FDG-PET/CT scan (CR: 35.7 mL, no CR: 187.8 mL, p=0.05). There was no correlation between PD-L1 positivity and MCPyV status (p=0.764) or OR (p=0.245). 10 pts received radiation therapy (RT) during ICI: 4 pts started RT concurrently (OR 75%, CR 50%), 3 pts had isolated ICI-resistant lesions successfully treated with RT and 3 pts with multisite progression continued to progress despite RT. Overall, 6 pts (26%) had grade 1-2 immune-related adverse events. CONCLUSION: ICIs showed efficacy and safety in mMCC consistent with trial data. Clinical and imaging predictors of response were identified.
- Published
- 2020
21. Education linguistic model in teaching English as a second language: a discourse analysis.
- Author
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Ojanola, Raleigh J.
- Subjects
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LINGUISTICS , *ENGLISH as a foreign language , *SELF-monitoring (Psychology) , *CLASSROOM environment , *DISCOURSE analysis - Abstract
This paper aimed to describe the use of Education Linguistic Model in teaching English as a Second Language using discourse analysis. The study focused to the four (4) ESL teachers' process in teaching English as a second language to the different groups of ESL learners in Koronadal National Comprehensive High School for the school year 2017-2018. The participants were selected based from the inclusion criteria formulated by the researcher: a) A participant must be a graduate of Bachelor in Secondary Education major in English; b) A participant must have an at least fifteen (15) years of experience in teaching English as a second language; and c) A participant must be one of the top ten (10) performing teachers as based from the Individual Performance Commitment and Review Form (IPCRF). Furthermore, classroom observation method was used to record classroom proceedings through field notes and voice recorder. Also, qualitative discourse analysis was employed to interpret and understand on how the four (4) ESL teachers utilize the seven (7) ELM categories which are building rapport, acknowledging success, modelling, addressing challenging behaviors, scaffolding the learning, responding to the individual learner and self-monitoring the teaching. The findings entail that the manifestations of ELM categories are evident in the process of teaching as a second language as reflected by the four (4) ESL teachers, but the process of exhibiting the ELM categories is unique and different compared among the ESL teachers. However, some of the categories are not consistently used in every class proceeding. Thus, modelling is not manifested by Teacher C and scaffolding the learning is not manifested by Teacher D. Moreover, both Teacher C and Teacher D do not manifest self-monitoring the teaching. Therefore, the study suggests that selfmonitoring the teaching should be observed by the ESL teachers to enhance the process of teaching English as a second language in an ESL classroom. [ABSTRACT FROM AUTHOR]
- Published
- 2022
- Full Text
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22. 304 Comparing Conventional Autopsy to Post-Mortem MR and CT in Determining the Cause of Sudden and/or Unexpected Death
- Author
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Femia, G., primary, Lanlois, N., additional, Raleigh, J., additional, Gray, B., additional, Othman, F., additional, Perumal, S., additional, Semsarian, C., additional, and Puranik, R., additional
- Published
- 2020
- Full Text
- View/download PDF
23. Population decline in tree swallows (Tachycineta bicolor) linked to climate change and inclement weather on the breeding ground
- Author
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Amelia R, Cox, Raleigh J, Robertson, Wallace B, Rendell, and Frances, Bonier
- Subjects
Swallows ,Climate Change ,Animals ,Breeding ,Weather ,Trees - Abstract
Population decline and the threat of extinction are realities currently facing many species. Yet, in most cases, the detailed demographic data necessary to identify causes of population decline are unavailable. Using 43 years (1975-2017) of data from a box-nesting population of tree swallows (Tachycineta bicolor), we identified reduced survival of offspring as a probable demographic cause of population decline. Poor fledging success was associated with increased predation and poor weather conditions during early nestling development. Low juvenile survival and subsequent recruitment was linked to poor weather conditions during the post-fledging period and may also be linked to conditions on the wintering grounds. Regional weather conditions during critical stages of breeding (early nestling and post-fledging) have become progressively worse over the 43-year study period. None of the other factors linked to offspring survival have similarly deteriorated. Overall, our results suggest tree swallows should be added to the growing list of species challenged by climate change, and that other species of aerial insect specialists may face similar impacts of climate change.
- Published
- 2019
24. Figure S1 from Rainy springs linked to poor nestling growth in a declining avian aerial insectivore (Tachycineta bicolor)
- Author
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Cox, Amelia R., Robertson, Raleigh J., Lendvai, Ádám Z., Everitt, Kennedy, and Bonier, Frances
- Abstract
Nestlings gain body mass as they age. Note that the variation in nestling body mass increases with age.
- Published
- 2019
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- View/download PDF
25. Does white tail patch size indicate quality in male Cerulean Warblers (Setophaga cerulea)?
- Author
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Mark A. Conboy, Paul R. Martin, Elisabeth F. Purves, and Raleigh J. Robertson
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0106 biological sciences ,0301 basic medicine ,Wing ,Ecology ,Cerulean ,Setophaga cerulea ,Zoology ,Biology ,biology.organism_classification ,010603 evolutionary biology ,01 natural sciences ,White (mutation) ,03 medical and health sciences ,030104 developmental biology ,Plumage ,Feather ,visual_art ,visual_art.visual_art_medium ,Queen (butterfly) ,Animal Science and Zoology ,Blood parasites ,Ecology, Evolution, Behavior and Systematics - Abstract
Within species of birds, variation in plumage may allow potential mates or competitive rivals to quickly assess the quality of an individual. Little is known about the role of white tail feather patches (“tail white”) in male Cerulean Warblers (Setophaga cerulea) and whether variation in patch size could serve as a signal. We hypothesized that the size of tail white patches in males acts as an honest signal of quality, with larger white patches indicating high quality males. We measured and compared the area of tail white to four estimates of quality (age, structural size, body mass, and blood parasite load) in 71 male Cerulean Warblers at the Queen’s University Biological Station in eastern Ontario. We found that males 2 years old or older had significantly larger tail white patches than 1 year old males, and that structurally larger males (estimated by wing length) had significantly larger tail white patches than smaller males. Our best-performing statistical model suggested that heavier indivi...
- Published
- 2016
- Full Text
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26. Clinical and FDG-PET markers of immune checkpoint inhibitor (ICI) response in patients with metastatic Merkel cell carcinoma (mMCC)
- Author
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Weppler, A.M., primary, Bhave, P., additional, De Ieso, P., additional, Chua, M., additional, Raleigh, J., additional, Hatzimihalis, A., additional, Gill, A., additional, Balachander, S., additional, Callahan, J., additional, Pattison, A., additional, Caneborg, A., additional, Au Yeung, G., additional, McArthur, G., additional, Hicks, R.J., additional, Tothill, R., additional, and Sandhu, S.K., additional
- Published
- 2019
- Full Text
- View/download PDF
27. Rainy springs linked to poor nestling growth in a declining avian aerial insectivore ( Tachycineta bicolor )
- Author
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Kennedy Everitt, Ádám Z. Lendvai, Frances Bonier, Amelia R. Cox, and Raleigh J. Robertson
- Subjects
Male ,0106 biological sciences ,Rain ,Population Dynamics ,Climate change ,Economic shortage ,010603 evolutionary biology ,01 natural sciences ,General Biochemistry, Genetics and Molecular Biology ,03 medical and health sciences ,Animals ,Parental investment ,Weather ,030304 developmental biology ,General Environmental Science ,Ontario ,2. Zero hunger ,0303 health sciences ,Global Change and Conservation ,General Immunology and Microbiology ,biology ,Ecology ,Phenology ,Reproduction ,Insectivore ,General Medicine ,15. Life on land ,biology.organism_classification ,Life stage ,Swallows ,13. Climate action ,Tachycineta bicolor ,Female ,Seasons ,General Agricultural and Biological Sciences ,Body condition - Abstract
As species shift their ranges and phenology to cope with climate change, many are left without a ready supply of their preferred food source during critical life stages. Food shortages are often assumed to be driven by reduced total food abundance, but here we propose that climate change may cause short-term food shortages for foraging specialists without affecting overall food availability. We frame this hypothesis around the special case of birds that forage on flying insects for whom effects mediated by their shared food resource have been proposed to cause avian aerial insectivores' decline worldwide. Flying insects are inactive during cold, wet or windy conditions, effectively reducing food availability to zero even if insect abundance remains otherwise unchanged. Using long-term monitoring data from a declining population of tree swallows ( Tachycineta bicolor ), we show that nestlings’ body mass declined substantially from 1977 to 2017. In 2017, nestlings had lower body mass if it rained during the preceding 3 days, though females increased provisioning rates, potentially in an attempt to compensate. Adult body mass, particularly that of the males, has also declined over the long-term study. Mean rainfall during the nestling period has increased by 9.3 ± 0.3 mm decade −1 , potentially explaining declining nestling body mass and population declines. Therefore, we suggest that reduced food availability, distinct from food abundance, may be an important and previously overlooked consequence of climate change, which could be affecting populations of species that specialize on foraging on flying insects.
- Published
- 2019
- Full Text
- View/download PDF
28. The survivorship experience of patients with metastatic melanoma on long-term immune checkpoint inhibitors
- Author
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Lai-Kwon, J.E., primary, Khoo, C., additional, Lo, S., additional, Milne, D., additional, Mohamed, M., additional, Raleigh, J., additional, Smith, K., additional, Lisy, K., additional, Sandhu, S.K., additional, and Jefford, M., additional
- Published
- 2018
- Full Text
- View/download PDF
29. Circulating tumour DNA analysis predicts relapse following resection in stage II and III melanoma
- Author
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Tan, L., primary, Sandhu, S.K., additional, Lee, R., additional, Li, J., additional, Callahan, J., additional, Raleigh, J., additional, Hatzimihalis, A., additional, Middlehurst, P., additional, Henderson, M., additional, Shackleton, M., additional, Haydon, A., additional, Gyorki, D., additional, Oudit, D., additional, Hicks, R.J., additional, Lorigan, P., additional, McArthur, G.A., additional, Marais, R., additional, Wong, S.Q., additional, and Dawson, S.-J., additional
- Published
- 2018
- Full Text
- View/download PDF
30. Utility of Postmortem CT and MR in the Diagnosis of Unexpected Death
- Author
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Othman, F., primary, Raleigh, J., additional, Femia, J., additional, Semsarian, C., additional, Gray, B., additional, Langlois, N., additional, and Puranik, R., additional
- Published
- 2018
- Full Text
- View/download PDF
31. 341O - Clinical and FDG-PET markers of immune checkpoint inhibitor (ICI) response in patients with metastatic Merkel cell carcinoma (mMCC)
- Author
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Weppler, A.M., Bhave, P., De Ieso, P., Chua, M., Raleigh, J., Hatzimihalis, A., Gill, A., Balachander, S., Callahan, J., Pattison, A., Caneborg, A., Au Yeung, G., McArthur, G., Hicks, R.J., Tothill, R., and Sandhu, S.K.
- Published
- 2019
- Full Text
- View/download PDF
32. 345O - The survivorship experience of patients with metastatic melanoma on long-term immune checkpoint inhibitors
- Author
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Lai-Kwon, J.E., Khoo, C., Lo, S., Milne, D., Mohamed, M., Raleigh, J., Smith, K., Lisy, K., Sandhu, S.K., and Jefford, M.
- Published
- 2018
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33. 52O - Circulating tumour DNA analysis predicts relapse following resection in stage II and III melanoma
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Tan, L., Sandhu, S.K., Lee, R., Li, J., Callahan, J., Raleigh, J., Hatzimihalis, A., Middlehurst, P., Henderson, M., Shackleton, M., Haydon, A., Gyorki, D., Oudit, D., Hicks, R.J., Lorigan, P., McArthur, G.A., Marais, R., Wong, S.Q., and Dawson, S.-J.
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- 2018
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34. Lower serum fibroblast activation protein shows promise in the exclusion of clinically significant liver fibrosis due to non-alcoholic fatty liver disease in diabetes and obesity
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Williams, K.H., primary, Viera de Ribeiro, A.J., additional, Prakoso, E., additional, Veillard, A.S., additional, Shackel, N.A., additional, Bu, Y., additional, Brooks, B., additional, Cavanagh, E., additional, Raleigh, J., additional, McLennan, S.V., additional, McCaughan, G.W., additional, Bachovchin, W.W., additional, Keane, F.M., additional, Zekry, A., additional, Twigg, S.M., additional, and Gorrell, M.D., additional
- Published
- 2015
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35. Literature as Opera by Gary Schmidgall (review)
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Raleigh, John Henry
- Published
- 2018
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36. Matthew Arnold and American Culture
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RALEIGH, JOHN HENRY and RALEIGH, JOHN HENRY
- Published
- 2023
37. Acurate neo2 is associated with a reduced inflammatory response in patients with severe aortic stenosis undergoing transcatheter aortic valve implantation.
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Chiabrando JG, Damonte JI, Piñel S, Garmendia CM, Medina DE Chazal H, Denicolai M, Corna G, Valle Raleigh J, Seropian IM, and Agatiello CR
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- Humans, Male, Female, Retrospective Studies, Aged, 80 and over, Aged, Prosthesis Design, Treatment Outcome, Transcatheter Aortic Valve Replacement adverse effects, Aortic Valve Stenosis surgery, Inflammation etiology, C-Reactive Protein analysis, C-Reactive Protein metabolism, Severity of Illness Index, Heart Valve Prosthesis adverse effects
- Abstract
Background: Inflammation following transcatheter aortic valve implantation (TAVI) is associated with an increased risk of adverse outcomes. The aim of this study was to compare the inflammatory response between low radial force valves (Acurate neo2, Boston Scientific) and high radial force valves (Evolut R/Pro, Medtronic; SAPIEN Edwards Lifesciences; and Myval, Meril valves)., Methods: We conducted a retrospective study of patients with severe aortic stenosis treated with TAVI between 2021 and 2022. The primary endpoint was the difference in the inflammatory response between low radial force valves and high radial force valves, measured as the difference between post-procedural and pre-procedural high-sensitivity C-reactive protein levels (hsCRP delta)., Results: A total of 114 patients were included, of which 65 patients (57%) received a low radial force valve. The hsCRP delta was lower in the low radial force valve group compared to the high radial force valve group (8.7 [2.1-15.6] mg/L vs. 18.8 mg/dL [6.4-19] mg/L; P=0.003), due to a lower post-implantation hsCRP (8.9 [5.45-19.6] mg/L vs. 15.8 [9.8-27.3] mg/L; P=0.013). The incidence of new left bundle branch block (LBBB) after TAVI was lower in the low radial force valve group compared to the high radial force valve group (11 [17%] vs. 18 [37%]; P=0.020)., Conclusions: Low radial force TAVI prostheses were associated with a lower inflammatory response, and a lower incidence of new LBBB compared to the radial force valve group, suggesting that inflammation may contribute to the increased risk of conduction disturbances.
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- 2024
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38. Clinical validation and implementation of droplet digital PCR for the detection of BRAF mutations from cell-free DNA.
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Arnolda R, Howlett K, Chan T, Raleigh J, Hatzimihalis A, Bell A, Fellowes A, Sandhu S, McArthur GA, Fox SB, Dawson SJ, Hewitt C, Jones K, and Wong SQ
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- DNA Mutational Analysis methods, Formaldehyde, Humans, Mutation, Polymerase Chain Reaction methods, Proto-Oncogene Proteins B-raf genetics, Reproducibility of Results, Cell-Free Nucleic Acids, Circulating Tumor DNA genetics
- Abstract
Droplet digital PCR (ddPCR) has been demonstrated in many research studies to be a sensitive method in the analysis of circulating tumour DNA (ctDNA) for identifying mutations and tracking disease. The transition of ddPCR into the diagnostic setting requires a number of critical steps including the assessment of accuracy and precision and ultimately implementation into clinical use. Here we present the clinical validation of ddPCR for the detection of BRAF mutations (V600E and V600K) from plasma. We describe the performance characteristics assessed including the limit of blank, limit of detection, ruggedness, accuracy, precision and the effect of the matrix. Overall, each assay could achieve a limit of detection of 0.5% variant allele fraction and was highly accurate, with 100% concordance of results obtained from routine diagnostic testing of formalin fixed tumour samples or reference controls (n=36 for BRAF V600E and n=30 for BRAF V600K). Inter-laboratory reproducibility across 12 plasma samples for each assay was also assessed and results were 100% concordant. Overall, we report the successful validation and translation of a ddPCR assay into clinical routine practice., (Copyright © 2022 Royal College of Pathologists of Australasia. Published by Elsevier B.V. All rights reserved.)
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- 2022
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39. Additive prognosis of clinical presentation in revascularized peripheral arterial disease patients.
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Garagoli F, Chiabrando JG, Abraham Foscolo MM, Corna G, Fleitas MM, Valle Raleigh J, Medina DE Chazal H, Chas JG, Berrocal DH, Rabellino JM, and Bluro IM
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- Humans, Intermittent Claudication epidemiology, Intermittent Claudication surgery, Ischemia surgery, Prognosis, Retrospective Studies, Risk Factors, Peripheral Arterial Disease epidemiology, Peripheral Arterial Disease surgery
- Abstract
Background: Peripheral artery disease (PAD) is a frequent cause of morbidity and mortality. It may present with diverse clinical presentations. The aim of this study was to evaluate the prognosis of these clinical presentations., Methods: We performed a retrospective cohort study, in which symptomatic PAD patients were included from 2014 to 2020 at a university hospital in Argentina. We classified symptomatic PAD in intermittent claudication (IC), chronic limb-threatening ischemia (CLTI) and acute ischemia (AI). Our primary endpoint was to compare the composite of all-cause mortality and major amputation events between the three groups., Results: We included 309 patients, with a median follow up of 1.87 years (IQR 0.72-3.67). The primary endpoint was more prevalent in CLTI and AI patients (33% and 33.3%) compared to IC patients (8.1%), P<0.001. CLTI and AI were independently associated with the primary endpoint after adjusting for clinical variables of interest (OR 4.04 95%CI [1.86-9.07], P<0.001 and OR 5.40 95%CI [2.18-13.7], P<0.001, respectively). Mortality incidence rate (per 100 patients/year) was similar between AI and CLTI patients (14.2 95% CI [8.0-24.1] and 13.1 95%CI [8.8-19.7], respectively, P=0.67) but higher compared to IC (2.9 95%CI [1.6-5.1], P<0.01). Major amputation events were more prevalent in CLTI (16.5%) compared to AI (8.9%) and IC patients (1.2%), P<0.01., Conclusions: Those with CLTI and AI have a particular increased risk of all-cause death and major amputation events. Although mortality incidence was similar between AI and CLTI patients, the latter have an increased risk of major amputation events compared to AI and IC patients.
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- 2022
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40. Clinical impact of the infrapatellar location in symptomatic peripheral arterial disease patients.
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Chiabrando JG, Garagoli FD, Abraham Foscolo MM, Corna G, Fleitas MLM, Valle-Raleigh J, Medina de Chazal HA, Berrocal DH, Rabellino JM, and Bluro IM
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- Humans, Retrospective Studies, Ischemia etiology, Ischemia surgery, Risk Factors, Treatment Outcome, Peripheral Arterial Disease surgery, Myocardial Infarction etiology, Stroke etiology, Endovascular Procedures adverse effects
- Abstract
Background: Peripheral artery disease (PAD) frequently affects multiple segments of the limbs. Contradictory data have reported worse prognosis in aortoiliac lesions, nevertheless, diabetes and chronic limb ischemia frequently affects the infrapatellar territory. Our aim was to assess the impact of infrapatellar disease in cardiovascular outcomes., Methods: We performed a retrospective, observational cohort study at a university hospital in Argentina. Electronic health records were retrospectively reviewed including symptomatic PAD patients requiring revascularization. A multivariable regression model was performed to account for confounders. The primary endpoint was a composite of hospitalizations due to chronic limb threatening ischemia (CLTI) and major amputation events between infrapatellar and suprapatellar patients. Minor amputation events, all-cause death, myocardial infarction (MI), stroke, and major cardiovascular events (MACE) were secondary endpoints., Results: From January 2014 through July 2020, a total of 309 patients were included in the analysis. 151 patients had suprapatellar disease, and 158 had infrapatellar disease. The primary composite endpoint occurred in 35 patients (22.2%) in the infrapatellar patients and 18 patients (11.9%) in the suprapatellar patients (HR = 2.16; 95% confidence interval [CI]= [1.22-3.82]; p = 0.008). Both components of the primary outcomes occurred more frequently in infrapatellar patients.Minor amputation events were more prevalent in infrapatellar patients (HR = 5.09; 95% CI = [1.47-17.6]; p = 0.010). Death,MI, stroke, and MACE events were not different among groups (all p > 0.05)., Conclusion: Infrapatellar disease was anindependent factor for increased hospitalization of CLTI, major and minor amputations events, compared to suprapatellardisease in symptomatic revascularized PAD patients.
- Published
- 2022
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41. Neutrophil-to-lymphocyte ratio and platelet-to-lymphocyte ratio predict in-hospital mortality in symptomatic but unruptured abdominal aortic aneurysm patients.
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Garagoli F, Fiorini N, Pérez MN, Rabellino JM, Valle Raleigh J, Chas JG, DI Caro V, Pizarro R, and Bluro IM
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- Blood Platelets, Hospital Mortality, Humans, Lymphocytes, Neutrophils, Postoperative Complications, Prognosis, Retrospective Studies, Acute Kidney Injury, Aortic Aneurysm, Abdominal surgery
- Abstract
Background: Symptomatic but unruptured abdominal aortic aneurysm (AAA) is a potentially fatal disease since its etiopathogenesis, involving acute changes in the aortic wall, including inflammation, increasing the probability of impending rupture. The objective of the present study was to assess the prognostic value of the neutrophil-to-lymphocyte ratio (NLR) and the platelet-to-lymphocyte ratio (PLR) in patients undergoing urgent symptomatic AAA repair., Methods: This was a retrospective study including 29 patients with symptomatic AAA repaired between 2011 and 2020. Both NLR and PLR were calculated on hospital admission prior to the intervention. The primary end point was in-hospital mortality, and the secondary end point included length of hospital stay and postoperative complications., Results: In-hospital mortality rate was 10.3%. The discriminatory performance to predict the primary end point was very good both for PLR (area under the ROC curve [AUC]: 0.92 (95% confidence interval [CI]: 0.82-1.00; P=0.02) and NLR (AUC: 0.88 [95% CI: 0.75-1.00]; P=0.04). The best cutoff point to predict in-hospital mortality was 185 for PLR (100% sensitivity and 85% specificity) and 6.4 for NLR (100% sensitivity and 77% specificity). The most frequent postoperative complication was acute kidney failure (37.9%). Both elevated PLR as NLR were significantly associated with acute kidney failure and multiorgan failure in the immediate postoperative period (P<0.01). None of the two ratios was associated with length of hospital stay (P=NS)., Conclusions: Both PLR and NLR are low-cost inflammatory markers widely available in every emergency department, with excellent performance to predict in-hospital mortality in patients undergoing symptomatic AAA repair. Patients with a PLR≥185 and/or an NLR≥6.4 could benefit from a "surveyed waiting conduct" improving the preoperative clinical condition prior to the intervention, or even considering endovascular repair.
- Published
- 2022
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42. Chronic treatment with serelaxin mitigates adverse remodeling in a murine model of ischemic heart failure and modulates bioactive sphingolipid signaling.
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Devarakonda T, Valle Raleigh J, Mauro AG, Lambert JM, Cowart LA, and Salloum FN
- Subjects
- Animals, Disease Models, Animal, Fibrosis, Mice, Myocytes, Cardiac drug effects, Myocytes, Cardiac metabolism, Recombinant Proteins metabolism, Recombinant Proteins pharmacology, Signal Transduction, Sphingolipids metabolism, Heart Failure drug therapy, Heart Failure metabolism, Myocardial Ischemia drug therapy, Myocardial Ischemia metabolism, Relaxin metabolism, Relaxin pharmacology
- Abstract
Relaxin is a pleiotropic hormone demonstrated to confer cardioprotection in animal models of myocardial infarction and ischemic heart failure by modulating inflammation, fibrosis and arrhythmogenesis. Several of these pathways in the ischemic myocardium are intricately tied with the downstream signaling of bioactive sphingolipids, which play an active role during post-infarction remodeling. In this current study, we examined the effects of relaxin on sphingosine 1-phosphate (S1P), and the potential benefits of relaxin treatment on cardiac health in a rodent model of ischemic heart failure. Acute (30 min) and sub-acute (24 h) treatment of primary cardiomyocytes with serelaxin (recombinant human relaxin-2) increased the cardiomyocyte content of S1P. In the rodent model, treatment with relaxin for 28 days following myocardial ischemia by way of permanent left coronary artery occlusion improved survival and cardiac function, reduced fibrosis and apoptosis, and mitigated the expression of several pro-inflammatory and pro-fibrotic markers. The expression of beclin-1 (autophagy marker) was also reduced. The expression of S1P was significantly higher in cardiac tissue and plasma samples extracted from serelaxin-treated mice at day 28. In conclusion, our studies show a significant protection from relaxin in ischemic heart disease, and demonstrate the association between relaxin signaling and S1P generation., (© 2022. The Author(s).)
- Published
- 2022
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43. Novel Common Femoral Artery Lesion Classification in Patients Undergoing Endovascular Revascularization.
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Rabellino M, Valle Raleigh J, Chiabrando JG, Di Caro V, Chas J, Garagoli F, and Bluro I
- Subjects
- Humans, Iliac Artery diagnostic imaging, Retrospective Studies, Treatment Outcome, Endovascular Procedures, Femoral Artery diagnostic imaging
- Abstract
Purpose: Common femoral artery (CFA) is a critical segment of the lower-limb arterial tree. We sought to propose an extensive classification in order to appraise a diagnostic and therapeutic approach., Methods: A retrospective cohort of CFA lesions with endovascular therapy was evaluated. We appraised the extension, the degree of stenosis and the calcium burden. A new group "IV" included lesions that started at the external iliac artery or common iliac artery extending into the CFA and affecting its bifurcation. The primary outcome was the need for a retrograde bailout access after failed anterograde access and the procedural time., Results: From 2012 to 2020, a total of 58 lower limbs in patients with CFA lesions were included. New proposed group IV compromised 36% of lesions. Additionally, procedural time was significantly longer in group IV lesions compared with the rest (76.9 ± 32.23 min vs 47.67 ± 17.93 min, p < 0.01), as was the requirement of retrograde bailout access (23.8 vs 2.6%, p = 0.03). Occlusive lesions were associated with longer procedural times and bailout retrograde access compared to stenotic lesions (74.7 ± 33.6 min vs 48.29 ± 16 min, p < 0.001 and 26.1 vs 0%, p = 0.006, respectively), as well as heavy calcification compared to mild or moderate calcification (73.18 ± 28.15 vs 51.86 ± 25.1, p = 0.06 and 29.4 vs 2.4%, p = 0.009, respectively). Secondary clinical outcomes and target lesion revascularization did not differ among groups., Conclusions: Our classification includes a new group of extensive and frequent lesions, which did not fit in previous classifications., (© 2021. Springer Science+Business Media, LLC, part of Springer Nature and the Cardiovascular and Interventional Radiological Society of Europe (CIRSE).)
- Published
- 2022
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44. Anterograde and Retrograde Approach With Through-and-Through Wiring Technique to Treat a Ruptured and Extremely Tortuous Giant Popoliteal Artery Aneurism.
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Valle Raleigh J, Chas J, Bluro I, and Rabellino M
- Subjects
- Aged, 80 and over, Aneurysm, Ruptured diagnostic imaging, Humans, Male, Treatment Outcome, Vascular Access Devices, Aneurysm, Ruptured therapy, Catheterization, Peripheral instrumentation, Endovascular Procedures instrumentation, Popliteal Artery diagnostic imaging
- Abstract
Purpose: This technical note aims to show a challenging endovascular treatment approach of a giant and tortuous ruptured popliteal artery aneurism., Materials and Methods: An 86-year-old male patient was admitted for acute lower right limb ischemia. Angio-MSCT showed highly calcified superficial femoral artery, with a 180° bend in distal portion, followed by a large popliteal aneurism (63 × 61 mm) with a large extent hematoma (142 × 112 × 104 mm). Endovascular approach was chosen due to high morbidity., Results: Anterior puncture of right superficial femoral artery was performed under ultrasound guidance. Despite various intents, the 0.035 hydrophilic coated wire could not be crossed distally through the aneurism. Retrograde access was performed via tibio-peroneal trunk under fluoroscopic guidance with a micropuncture set. A stiff 0.035″ Glidewire® was successfully advanced into the proximal portion of the aneurism through a 5F vertebral catheter externalized with a snare from the femoral sheath obtaining a "through-and-through wire" technique. Tightening of both ends of the wire helped gain support and straightened curves. Two stent grafts were implanted with no residual leak at 1 month follow-up., Conclusion: Anterograde and retrograde approach was useful to perform a through-and-through wire technique in a challenging case of a tortuous ruptured popliteal artery aneurism.
- Published
- 2021
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45. Balloon aortic valvuloplasty through the novel transradial technique.
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Medina DE Chazal HA, Seropian IM, Romeo F, Chiabrando JG, Valle Raleigh J, Berrocal DH, and Agatiello CR
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- Female, Humans, Male, Reproducibility of Results, Retrospective Studies, Treatment Outcome, Aortic Valve Stenosis surgery, Balloon Valvuloplasty adverse effects
- Abstract
Background: Balloon aortic valvuloplasty (BAV) has been typically performed through a femoral approach thus increasing the risk of bleeding and access site-related vascular complications. The aim of this study was to describe the safety and efficacy of transradial aortic valve valvuloplasty (TRBAV)., Methods: The present research is a retrospective, single-center study including patients undergoing TRBAV (October 2019-July 2020). BAV was performed using 18-25 mm balloons through an 8-10 French (F) radial sheath. Successful BAV was defined as ≥50% reduction in peak-to-peak gradient (efficacy endpoint). Procedural complications, including radial artery occlusion (RAO) at follow-up were evaluated (safety endpoint)., Results: Twenty-four patients underwent TRBAV were included, aged 81 (73-85) years, 70% males, EuroScoreII 3.1 (2.1-5.5). Aortic valve gradient was significantly reduced (pre-50±24 vs. 18.7±13 mmHg post, P<0.001), and 91% had successful BAV. Mean gradient drop was 31.4±16.8 mmHg. One patient (4%) required cross-over to femoral access for severe vasospasm and was excluded from the analysis. Most used sheaths were 8F (46%) and 9F (37%), mostly for 20 mm (50%) and 23 mm (38%) balloons. There were neither major procedural complications (neither balloon entrapment nor compartmental syndrome) nor minor complications (any access-site bleeding). RAO was observed in 2 patients (8%), both asymptomatic., Conclusions: TRBAV was safe, feasible, and efficacious with a small rate of conversion and RAO, suggesting reproducibility of this novel technique. TRBAV may represent an alternative to femoral access in selected patients although larger studies are warranted.
- Published
- 2021
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46. Detection of cell-free microbial DNA using a contaminant-controlled analysis framework.
- Author
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Zozaya-Valdés E, Wong SQ, Raleigh J, Hatzimihalis A, Ftouni S, Papenfuss AT, Sandhu S, Dawson MA, and Dawson SJ
- Subjects
- Bacteroides classification, Bacteroides genetics, Bacteroides isolation & purification, Cell-Free Nucleic Acids blood, DNA Contamination, DNA, Bacterial blood, Faecalibacterium classification, Faecalibacterium genetics, Faecalibacterium isolation & purification, Feces microbiology, Humans, Melanoma diagnosis, Melanoma pathology, Neoplasm Metastasis, Neoplasm Staging, Polymerase Chain Reaction methods, RNA, Ribosomal, 16S genetics, Ruminococcus classification, Ruminococcus genetics, Ruminococcus isolation & purification, Saliva microbiology, Skin Neoplasms diagnosis, Skin Neoplasms pathology, Symbiosis physiology, Cell-Free Nucleic Acids genetics, DNA, Bacterial genetics, Melanoma microbiology, Microbiota genetics, Skin Neoplasms microbiology
- Abstract
Background: The human microbiome plays an important role in cancer. Accumulating evidence indicates that commensal microbiome-derived DNA may be represented in minute quantities in the cell-free DNA of human blood and could possibly be harnessed as a new cancer biomarker. However, there has been limited use of rigorous experimental controls to account for contamination, which invariably affects low-biomass microbiome studies., Results: We apply a combination of 16S-rRNA-gene sequencing and droplet digital PCR to determine if the specific detection of cell-free microbial DNA (cfmDNA) is possible in metastatic melanoma patients. Compared to matched stool and saliva samples, the absolute concentration of cfmDNA is low but significantly above the levels detected from negative controls. The microbial community of plasma is strongly influenced by laboratory and reagent contaminants introduced during the DNA extraction and sequencing processes. Through the application of an in silico decontamination strategy including the filtering of amplicon sequence variants (ASVs) with batch dependent abundances and those with a higher prevalence in negative controls, we identify known gut commensal bacteria, such as Faecalibacterium, Bacteroides and Ruminococcus, and also other uncharacterised ASVs. We analyse additional plasma samples, highlighting the potential of this framework to identify differences in cfmDNA between healthy and cancer patients., Conclusions: Together, these observations indicate that plasma can harbour a low yet detectable level of cfmDNA. The results highlight the importance of accounting for contamination and provide an analytical decontamination framework to allow the accurate detection of cfmDNA for future biomarker studies in cancer and other diseases.
- Published
- 2021
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47. γδ T Cells in Merkel Cell Carcinomas Have a Proinflammatory Profile Prognostic of Patient Survival.
- Author
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Gherardin NA, Waldeck K, Caneborg A, Martelotto LG, Balachander S, Zethoven M, Petrone PM, Pattison A, Wilmott JS, Quiñones-Parra SM, Rossello F, Posner A, Wong A, Weppler AM, Shannon KF, Hong A, Ferguson PM, Jakrot V, Raleigh J, Hatzimihalis A, Neeson PJ, Deleso P, Johnston M, Chua M, Becker JC, Sandhu S, McArthur GA, Gill AJ, Scolyer RA, Hicks RJ, Godfrey DI, and Tothill RW
- Subjects
- Adult, Aged, Aged, 80 and over, Biomarkers, CD4-Positive T-Lymphocytes immunology, CD8-Positive T-Lymphocytes immunology, Carcinoma, Merkel Cell drug therapy, Carcinoma, Merkel Cell mortality, Cell Line, Computational Biology, Female, Humans, Immune Checkpoint Inhibitors therapeutic use, Male, Middle Aged, Prognosis, Skin Neoplasms drug therapy, Skin Neoplasms mortality, Survival Analysis, Carcinoma, Merkel Cell immunology, Receptors, Antigen, T-Cell, gamma-delta immunology, Skin Neoplasms immunology, T-Lymphocytes immunology
- Abstract
Merkel cell carcinomas (MCC) are immunogenic skin cancers associated with viral infection or UV mutagenesis. To study T-cell infiltrates in MCC, we analyzed 58 MCC lesions from 39 patients using multiplex-IHC/immunofluorescence (m-IHC/IF). CD4
+ or CD8+ T cells comprised the majority of infiltrating T lymphocytes in most tumors. However, almost half of the tumors harbored prominent CD4/CD8 double-negative (DN) T-cell infiltrates (>20% DN T cells), and in 12% of cases, DN T cells represented the majority of T cells. Flow cytometric analysis of single-cell suspensions from fresh tumors identified DN T cells as predominantly Vδ2- γδ T cells. In the context of γδ T-cell inflammation, these cells expressed PD-1 and LAG3, which is consistent with a suppressed or exhausted phenotype, and CD103, which indicates tissue residency. Furthermore, single-cell RNA sequencing (scRNA-seq) identified a transcriptional profile of γδ T cells suggestive of proinflammatory potential. T-cell receptor (TCR) analysis confirmed clonal expansion of Vδ1 and Vδ3 clonotypes, and functional studies using cloned γδ TCRs demonstrated restriction of these for CD1c and MR1 antigen-presenting molecules. On the basis of a 13-gene γδ T-cell signature derived from scRNA-seq analysis, gene-set enrichment on bulk RNA-seq data showed a positive correlation between enrichment scores and DN T-cell infiltrates. An improved disease-specific survival was evident for patients with high enrichment scores, and complete responses to anti-PD-1/PD-L1 treatment were observed in three of four cases with high enrichment scores. Thus, γδ T-cell infiltration may serve as a prognostic biomarker and should be explored for therapeutic interventions. See related Spotlight on p. 600 ., (©2021 American Association for Cancer Research.)- Published
- 2021
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48. Post-mortem cardiac magnetic resonance parameters in normal and diseased conditions.
- Author
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Femia G, Langlois N, Raleigh J, Perumal SR, Semsarian C, and Puranik R
- Abstract
Background: Post-mortem cardiac magnetic resonance (CMR) is a non-invasive alternative to conventional autopsy. At present, diagnostic guidelines for cardiovascular conditions such as hypertrophic cardiomyopathy have not been established. We correlated post-mortem CMR images to definite conventional autopsy findings and hypothesed that elevated T2-weighted signal intensity and RV to LV area ratios can identify myocardial infarction and pulmonary emboli respectively., Methods: For this unblinded pilot sub-study, we selected cases from the original blinded study that compared post-mortem imaging to conventional autopsy in patients referred for coronial investigation between October 2014 to November 2016. Three groups of scans were selected based on the cause of death identified by conventional autopsy: non-cardiovascular causes of death with no structural cardiac abnormality i.e., control cases, acute/subacute myocardial infarction and pulmonary emboli. Left ventricular (LV) wall thickness, LV myocardial signal intensity and ventricular cavity areas were measured., Results: Fifty-six scans were selected [39 (69.6%) males]: 37 (66.1%) controls, eight (14.3%) acute/subacute myocardial infarction and eleven (19.6%) pulmonary emboli. The median age was 61 years [Interquartile range (IQR) 50-73] and the median time from death to imaging and autopsy was 2 days (IQR 2-3) and 3 days (IQR 3-4). The septal and lateral walls were thicker {15 mm [13-17] and 15 mm [14-18]} on post-mortem CMR than published ante-mortem measurements. Areas of acute/subacute myocardial infarction had significantly higher T2-weighted signal intensity (normalised to skeletal muscle) compared to normal myocardium in those who died from other causes {2.5 [2.3-3.0.] vs. 1.9 [1.8-2.3]; P<0.001}. In cases with pulmonary emboli, there was definite RV enlargement with a larger indexed RV to LV area ratio compared to those who died from other causes {2.9 [2.5-3.0] vs. 1.8 [1.5-2.0]; P<0.001}., Conclusions: We present potential post-mortem CMR parameters to identify important cardiovascular abnormalities that may be beneficial when conventional autopsy cannot be performed. In patients without cardiovascular disease, LV wall thickness was found to be unreliable in diagnosing hypertrophic cardiomyopathy without histological and/or genetic testing. Elevated T2 signal intensity and RV to LV area ratios may be useful markers for acute/subacute myocardial infarction and pulmonary emboli. Larger studies will be necessary to define cut-offs., Competing Interests: Conflicts of Interest: All authors have completed the ICMJE uniform disclosure form (available at: http://dx.doi.org/10.21037/cdt-20-948). The authors have no conflicts of interest to declare., (2021 Cardiovascular Diagnosis and Therapy. All rights reserved.)
- Published
- 2021
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49. Evolution of late-stage metastatic melanoma is dominated by aneuploidy and whole genome doubling.
- Author
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Vergara IA, Mintoff CP, Sandhu S, McIntosh L, Young RJ, Wong SQ, Colebatch A, Cameron DL, Kwon JL, Wolfe R, Peng A, Ellul J, Dou X, Fedele C, Boyle S, Arnau GM, Raleigh J, Hatzimihalis A, Szeto P, Mooi J, Widmer DS, Cheng PF, Amann V, Dummer R, Hayward N, Wilmott J, Scolyer RA, Cho RJ, Bowtell D, Thorne H, Alsop K, Cordner S, Woodford N, Leditschke J, O'Brien P, Dawson SJ, McArthur GA, Mann GJ, Levesque MP, Papenfuss AT, and Shackleton M
- Subjects
- Disease Progression, Exome genetics, Humans, INDEL Mutation genetics, Melanocytes pathology, Point Mutation genetics, Polymorphism, Single Nucleotide genetics, Exome Sequencing, Whole Genome Sequencing, Melanoma, Cutaneous Malignant, Aneuploidy, DNA Copy Number Variations genetics, Genome, Human genetics, Melanoma genetics, Skin Neoplasms genetics
- Abstract
Although melanoma is initiated by acquisition of point mutations and limited focal copy number alterations in melanocytes-of-origin, the nature of genetic changes that characterise lethal metastatic disease is poorly understood. Here, we analyze the evolution of human melanoma progressing from early to late disease in 13 patients by sampling their tumours at multiple sites and times. Whole exome and genome sequencing data from 88 tumour samples reveals only limited gain of point mutations generally, with net mutational loss in some metastases. In contrast, melanoma evolution is dominated by whole genome doubling and large-scale aneuploidy, in which widespread loss of heterozygosity sculpts the burden of point mutations, neoantigens and structural variants even in treatment-naïve and primary cutaneous melanomas in some patients. These results imply that dysregulation of genomic integrity is a key driver of selective clonal advantage during melanoma progression.
- Published
- 2021
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50. Comparison of conventional autopsy with post-mortem magnetic resonance, computed tomography in determining the cause of unexplained death.
- Author
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Femia G, Langlois N, Raleigh J, Gray B, Othman F, Perumal SR, Semsarian C, and Puranik R
- Subjects
- Aged, Female, Humans, Male, Middle Aged, Predictive Value of Tests, Prospective Studies, Sensitivity and Specificity, Autopsy methods, Cause of Death, Magnetic Resonance Imaging, Tomography, X-Ray Computed
- Abstract
Conventional autopsy is the gold standard for identifying unexplained death but due to declines in referrals, there is an emerging role for post-mortem imaging. We evaluated whether post-mortem magnetic resonance (PMMR) and computed tomography (PMCT) are inferior to conventional autopsy. Deceased individuals ≥ 2 years old with unexplained death referred for coronial investigation between October 2014 to December 2016 underwent PMCT and PMMR prior to conventional autopsy. Images were reported separately and then compared to the autopsy findings by independent and blinded investigators. Outcomes included the accuracy of imaging modalities to identify an organ system cause of death and other significant abnormalities. Sixty-nine individuals underwent post-mortem scanning and autopsy (50 males; 73%) with a median age of 61 years (IQR 50-73) and median time from death to imaging of 2 days (IQR 2-3). With autopsy, 48 (70%) had an organ system cause of death and were included in assessing primary outcome while the remaining 21 (30%) were only included in assessing secondary outcome; 12 (17%) had a non-structural cause and 9 (13%) had no identifiable cause. PMMR and PMCT identified the cause of death in 58% (28/48) of cases; 50% (24/48) for PMMR and 35% (17/48) for PMCT. The sensitivity and specificity were 57% and 57% for PMMR and 38% and 73% for PMCT. Both PMMR and PMCT identified 61% (57/94) of other significant abnormalities. Post-mortem imaging is inferior to autopsy but when reported by experienced clinicians, PMMR provides important information for cardiac and neurological deaths while PMCT is beneficial for neurological, traumatic and gastrointestinal deaths.
- Published
- 2021
- Full Text
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