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Clear cell variant, urothelial carcinoma of ureter: A rare entity

Anuj Mahajan, Prashanth Adiga, Aaron Fernandes
2020 Urology Case Reports  
Clear cell variants of transitional cell carcinoma of upper urinary tract is extremely rare. Although clear cell of urinary bladder has been reported, its occurrence in the upper tract has not been reported readily in literature. We present a case of 77 year old female who was suspected with TCC of the ureter, but was found to have clear cell variant on histology post radical nephroureterectomy. This was the first such case in our institution.
doi:10.1016/j.eucr.2020.101331 pmid:33102033 pmcid:PMC7573925 fatcat:unm7l424uff3hmtfstelqea3vy

Medical image of the week: ascaris lumbridoies

Candy Wong, Aaron Fernandes, Jennifer Huang, Sachin Chaudhary
2015 Southwest Journal of Pulmonary and Critical Care  
Candy Wong 1 ; Aaron Fernandes 2 , Jennifer Huang 2 , and Sachin Chaudhary 1 1 Division of Pulmonary, Critical Care, Allergy, and Sleep Medicine. 2 Department of Medicine University of Arizona Tucson  ... 
doi:10.13175/swjpcc008-15 fatcat:4son43byuza7lfnizgnysyfhy4

Simulated Conference submissions: A technique to improve student attitudes about writing

Aaron G. Cass, Chris S. T. Fernandes
2008 2008 38th Annual Frontiers in Education Conference  
While many models have been suggested for improving the writing skills of students in technical fields, we contend that improving attitudes about writing is equally important. We present an approach that seeks to improve both skills and attitudes through the use of Simulated Conference submissions. In this model, students are asked to write and present as if they are submitting to a technical research conference, complete with a review panel. By giving students this audience, we aim to focus
more » ... ir efforts on communication, rather than simply completing assignment requirements. In this paper, we present our results after having implemented this approach twice. The results show that student skills and appreciation of those skills both improve. In particular, student appreciation of the value of a literature review increases over the course of a term. Index Terms -Communication, Conference submissions, Student attitudes, Writing skills. PROBLEM STATEMENT AND GOALS The problem of how to integrate writing and presentation skills into a technology-laden field such as engineering has been an issue for many decades now. Many paradigms have been suggested including case studies [1], group writing [2], and more focused emphasis on communication in the senior capstone course [3] . Norback [4] gives an extensive survey of publications over a 17-year period that focus on the oral and written communication skills of engineering students. And while many of these approaches have improved the communication skills of students, the equally-difficult task of improving students' attitudes about these skills is no less important to address. Indeed, it is often the case that students in technology-focused fields have an aversion to learning communication skills. As noted by Hendricks and Pappas [5], "the apparent resistance from engineering students to developing English writing skills is more a problem of attitude than of ability and skill." These attitudes also carry over into industry, where students complain that there is "too much emphasis on writing and presentation" [6] . In fact, the efforts at Michigan Tech in employing their successful Writing Across the Curriculum initiative have been most resisted by those within the College of Engineering [5], [7] . While others have attempted to promote the perceived importance of communication skills through the use of highmotivation topics, such as computer games in [8], our
doi:10.1109/fie.2008.4720357 fatcat:pimbqut54zes3ftl7xcx7d2c3y

An empirical evaluation of undo mechanisms

Aaron G. Cass, Chris S. T. Fernandes, Andrew Polidore
2006 Proceedings of the 4th Nordic conference on Human-computer interaction changing roles - NordiCHI '06  
Cass and Fernandes [5] , on the other hand, describe what they call cascading selective undo.  ...  It is these control and data dependencies that cause cascading in the undo algorithm presented by Cass and Fernandes.  ... 
doi:10.1145/1182475.1182478 dblp:conf/nordichi/CassFP06 fatcat:jifkxf2i7rephbnm4qfjanx6ny

A simple, inexpensive and multi-scale 3-D fluorescent test sample for optical sectioning microscopies [article]

Ilya Olevsko, Kaitlin Szederkenyi, Jennifer Corridon, Aaron Au, Brigitte Delhomme, Thierry Bastien, Julien Fernandes, Christopher Yip, Martin Oheim, Adi Salomon
2021 bioRxiv   pre-print
ABSTRACTFluorescence standards allow for quality control and for the comparison of data sets across instruments and laboratories in applications of quantitative fluorescence. For example, users of microscopy core facilities expect a homogenous and time-invariant illumination and a uniform detection sensitivity, which are prerequisites for quantitative imaging analysis, particle tracking or fluorometric pH or Ca2+-concentration measurements. Similarly, confirming the three-dimensional (3-D)
more » ... ution of optical sectioning micro-scopes prior to volumetric reconstructions calls for a regular calibration with a standardised point source. Typically, the test samples required for such calibration measurements are different ones, and they depend much on the very microscope technique used. Also, the ever-increasing choice among these techniques increases the demand for comparison and metrology across instruments. Here, we advocate and demonstrate the multiple uses of a surprisingly versatile and simple 3-D test sample that can complement existing and much more expensive calibration samples: simple commercial tissue paper labelled with a fluorescent highlighter pen. We provide relevant sample characteristics and show examples ranging from the sub-µm to cm scale, acquired on epifluorescence, confocal, image scanning, two-photon (2P) and light-sheet microscopes.Graphical abstractPyranine-labeled tissue paper, imaged upon 405-nm epifluorescence excitation through a 455LP LP dichroic and 465LP emission filter. Objective ×20/NA0.25. Overlaid are the normalised absorbance (dashed) and emission spectra (through line), respectively. In the present work we show that this "primitive" and inexpensive three-dimensional (3-D) test sample is a surprisingly versatile and powerful tool for quality assessment, comparison across microscopes as well as routine metrology for optical sectioning techniques, both for research labs and imaging core facilities.Research highlights-highlighter-pen marked tissue paper is a surprisingly powerful and versatile test sample for 3-D fluorescence microscopies-standard tissue paper presents features ranging from 400 nm to centimetres-our sample can simultaneously be used for testing intensity, field homogeneity, resolution, optical sectioning and image contrast-it is easy to prepare, versatile, photostable and inexpensive
doi:10.1101/2021.04.27.441588 fatcat:wzmv6nq2ljgwvnpbujsarjzgh4

Integrating Web-based and Corpus-based Techniques for Question Answering

Boris Katz, Jimmy J. Lin, Daniel Loreto, Wesley Hildebrandt, Matthew W. Bilotti, Sue Felshin, Aaron Fernandes, Gregory Marton, Federico Mora
2003 Text Retrieval Conference  
dblp:conf/trec/KatzLLHBFFMM03 fatcat:esordrwcsraqfezd4ydtenzxwq

Answering Multiple Questions on a Topic From Heterogeneous Resources

Boris Katz, Matthew W. Bilotti, Sue Felshin, Aaron Fernandes, Wesley Hildebrandt, Roni Katzir, Jimmy J. Lin, Daniel Loreto, Gregory Marton, Federico Mora, Özlem Uzuner
2004 Text Retrieval Conference  
The composition of the patterns, the testing methodology, and the results, are detailed in (Fernandes, 2004) .  ...  ., 2004; Fernandes, 2004) , inspects the text collection for syntactic patterns often associated with a definitional context, and extracts pairs of targets and definitional nuggets.  ... 
dblp:conf/trec/KatzBFFHKLLMMU04 fatcat:6o74z4ry6vd3bekp76bo2d372q

Investigation of Two Mycobacterium abscessus Outbreaks in Quebec Using Whole Genome Sequencing

Michelle Wuzinski, Hafid Soualhine, Emilie Valliere, Pierre-Marie Akochy, Nancy Cloutier, Aaron Petkau, Brynn Kaplen, Maryse Duchesne, Jasmin Villeneuve, Meenu K. Sharma, Luis Fernandes
2020 BioMed Research International  
In recent decades, nontuberculous mycobacteria (NTM) infections are of emerging public health concern and have contributed towards significant clinical and economic burden globally. One such rapid growing mycobacteria, Mycobacterium abscessus, can cause clonal outbreaks, and these bacteria exhibit a highly resistant antimicrobial susceptibility profile. Here, we present an investigation of two small outbreaks of M. abscessus: first in a pediatric clinic setting and second in a tattoo parlour
more » ... m Quebec. Two whole genome sequencing approaches were utilized for genotyping: MAB-MLST, a multilocus sequencing typing scheme containing housekeeping, identification, and antimicrobial resistance genes, and SNVPhyl that uses phylogenetics to determine single nucleotide variations between strains. MAB-MLST results showed that the pediatric outbreak strains had two distinct sequence types, demonstrating that one strain did not belong to the outbreak, while all tattoo outbreak isolates belonged to the same sequence type. SNVPhyl results were similar to MAB-MLST results and showed that the pediatric outbreak strains tightly clustered together with 0-1 SNVs between isolates, a sharp contrast between unrelated strains used as controls. Similar results were seen for tattoo outbreak cases with 3-11 SNVs between isolates. NTM infections can be difficult to identify, and outbreak investigations can be complicated. Thus, WGS tools can be used in public health outbreak investigations as they provide high discriminatory power.
doi:10.1155/2020/7092053 fatcat:4eiee2swl5h43b6wbxrdxmyro4


2015 Revista Caatinga  
The irrigation was calculated based on the daily evaporation from tank class A, according to the methodology proposed by Maciel; Dantas Neto e Fernandes (2007) .  ... 
doi:10.1590/1983-21252015v28n320rc fatcat:hx7npk3rujfvtoqa67hogajkh4

Patterns of Leaf Biochemical and Structural Properties of Cerrado Life Forms: Implications for Remote Sensing

Aaron Ball, Arturo Sanchez-Azofeifa, Carlos Portillo-Quintero, Benoit Rivard, Saulo Castro-Contreras, Geraldo Fernandes, Sergio R. Roiloa
2015 PLoS ONE  
Aim The general goal of this study is to investigate and analyze patterns of ecophysiological leaf traits and spectral response among life forms (trees, shrubs and lianas) in the Cerrado ecosystem. In this study, we first tested whether life forms are discriminated through leaf level functional traits. We then explored the correlation between leaf-level plant functional traits and spectral reflectance. environments. The traits we found as indicative of these groups (SLA and water content) are
more » ... od candidates for spectral characterization. Future studies need to use the full wavelength (400 nm-2500 nm) in order to capture the potential response of these traits. The ecological linkage to water balance and life strategies encourages these traits as starting points for modeling plant communities using hyperspectral remote sensing. Leaf Traits of Cerrado Plants PLOS ONE |
doi:10.1371/journal.pone.0117659 pmid:25692675 pmcid:PMC4333119 fatcat:aym46l7wjrenll3f2c54l3ujo4

Species in the Cryptococcus gattii Complex Differ in Capsule and Cell Size following Growth under Capsule-Inducing Conditions

Kenya E. Fernandes, Christine Dwyer, Leona T. Campbell, Dee A. Carter, Aaron P. Mitchell
2016 mSphere  
Cryptococcus gattii causes invasive fungal infections that have been increasing in incidence and global distribution in recent years. The major molecular genotypes of C. gattii that were previously classified as VGI to VGIV have recently been described as four new species: C. gattii (VGI), C. deuterogattii (VGII), C. bacillisporus (VGIII), and C. tetragattii (VGIV). The main driver for their classification has been phylogeny, and phenotypic diversity has not yet been extensively characterized.
more » ... his study examines variation in attributes related to virulence and pathogenicity, including capsule thickness, cell size, tolerance to temperature, oxidative and osmotic stress, and cell wall integrity. A capsule induction agar using diluted Sabouraud medium revealed significant differences in capsule and cell size across the C. gattii species complex and produced irregularly shaped elongated cells in a number of strains. C. gattii /VGI strains possessed the largest capsules of all species but had smaller cells, while C. deuterogattii /VGII strains possessed the largest cells of all species but had smaller capsules. Overall thermotolerance was highest in C. deuterogattii /VGII strains, while a number of C. bacillisporus /VGIII, and C. tetragattii /VGIV strains had substantially reduced growth at 37°C. There was no significant difference among species in their tolerances to oxidative or osmotic stresses, and there was no evidence for defects in cell wall integrity in strains producing irregular cells. These data support the division of the C. gattii species complex into distinctly identified species and suggest underlying reasons for their differences in virulence, epidemiology, and host preference. IMPORTANCE Infections with the fungal pathogen Cryptococcus gattii have been increasing in recent years. Recently, four different species have been described within C. gattii , which correspond to four previously known molecular genotypes (VGI to VGIV). Examining traits related to infection and disease is important for determining whether these different species have clinical relevance. This study examined variation in attributes that are important for infecting and surviving in the host, including tolerance to various stresses, yeast cell size, and the amount of polysaccharide capsule that covers the cell. The cell size and capsule size were significantly different and inversely correlated across the species. Thermotolerance was highest in C. deuterogattii (VGII), the only species known to cause outbreaks, while most strains of the species C. bacillisporus (VGIII) and C. tetragattii (VGIV) grew poorly at 37°C. These findings argue for increased acceptance of the new species and may be useful for informing diagnosis and prognosis in clinical infection.
doi:10.1128/msphere.00350-16 pmid:28066814 pmcid:PMC5196034 fatcat:vhednlcslzcwjeyleh3dmfbeby


Omprakash A. R, Reshmina C. D'Souza, Sunil H. Sudarshan, Vishwanath Yadav, Aithala P.S., Ramakrishna Pai J, Aaron Marion Fernandes, Tessa Jose Kaneria
2014 Journal of Evolution of Medical and Dental Sciences  
BACKGROUND: In a country like India where tuberculosis is rampant and considered as a major public health problem so much that there are national programs aimed towards this disease. Pulmonary form is the most common form but extra-pulmonary form of the disease is accounts for 57.9 % of all cases of tuberculosis , in which abdominal TB accounts for most cases. The diagnosis of extra-pulmonary tuberculosis is often difficult because of its varied clinical manifestations .In the abdomen the
more » ... e can affect intestinal tract, lymph nodes, peritoneum and solid viscera. CT provides a comprehensive overview of all the abdominal structures and is the imaging modality of choice for evaluation of such patients. In view of this we studied the role of multi-detector computed tomography in diagnosing abdominal tuberculosis.AIMS: The role of multidetector computed tomography in diagnosing abdominal tuberculosis.METHODS AND MATERIALS:This was a study done between over a period of from between December 2011 to November 2012. The reports of all patients who were referred for abdominal CT were searched for tuberculosis and the data was co-related as to whether the patients had tuberculosis.RESULTS: During this period of study a total of 212 studied, 5 cases were diagnosed as having tuberculosis based on abdominal CT. Ascites which was not attributable to any specific disease as a feature; peritoneal involvement was another common feature. CONCLUSION: Tuberculosis continues to be endemic in the developing world and diagnosis of abdominal tuberculosis is usually very difficult, due to nonspecific symptoms and signs. The developments in imaging modalities like CT help in identifying cases of abdominal tuberculosis and the overall organ involvement and should be used whenever there is a high index of clinical suspicion is high.
doi:10.14260/jemds/2014/1866 fatcat:6zh2chveijbq3c4j2ulm4fjxyi

Unanticipated Nocturnal Oxygen Requirement during Positive Pressure Therapy for Sleep Apnea and Medical Comorbidities

Safal Shetty, Aaron Fernandes, Sarah Patel, Daniel Combs, Michael A. Grandner, Sairam Parthasarathy
2017 Journal of Clinical Sleep Medicine (JCSM)  
Fernandes, MD 1,2 ; Sarah Patel, MD 1,2 ; Daniel Combs, MD 3 ; Michael A.  ...  medical comorbidities and a SCIENTIFIC INVESTIGATIONS Unanticipated Nocturnal Oxygen Requirement during Positive Pressure Therapy for Sleep Apnea and Medical Comorbidities Safal Shetty, MD 1,2 ; Aaron  ... 
doi:10.5664/jcsm.6392 pmid:27655454 pmcid:PMC5181618 fatcat:7h7ovkmdrzfvjnhl3fkrynh2lu


Vivek Shetty, Reshmina C D'Souza, Rakesh Rai, Pooja Y. Gandhi, Sunil H. Sudarshan, Aithala P.S., Priyatham Kamath, Aaron Marion Fernandes
2014 Journal of Evolution of Medical and Dental Sciences  
doi:10.14260/jemds/2014/1858 fatcat:3gm4nt3vtrcqxokjfq63f2elei

Quantitative evaluation of passage retrieval algorithms for question answering

Stefanie Tellex, Boris Katz, Jimmy Lin, Aaron Fernandes, Gregory Marton
2003 Proceedings of the 26th annual international ACM SIGIR conference on Research and development in informaion retrieval - SIGIR '03  
Passage retrieval is an important component common to many question answering systems. Because most evaluations of question answering systems focus on end-to-end performance, comparison of common components becomes difficult. To address this shortcoming, we present a quantitative evaluation of various passage retrieval algorithms for question answering, implemented in a framework called Pauchok. We present three important findings: Boolean querying schemes perform well in the question answering
more » ... task. The performance differences between various passage retrieval algorithms vary with the choice of document retriever, which suggests significant interactions between document retrieval and passage retrieval. The best algorithms in our evaluation employ density-based measures for scoring query terms. Our results reveal future directions for passage retrieval and question answering.
doi:10.1145/860435.860445 dblp:conf/sigir/TellexKLFM03 fatcat:4wmfd7smqnf53kr3xgseqfxvzi
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