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  1. Article: Lightweight preprocessing and template matching facilitate streamlined ischemic myocardial scar classification.

    Udin, Michael H / Armstrong, Sara / Kai, Alice / Doyle, Scott / Ionita, Ciprian N / Pokharel, Saraswati / Sharma, Umesh C

    Journal of medical imaging (Bellingham, Wash.)

    2024  Volume 11, Issue 2, Page(s) 24503

    Abstract: Purpose: Ischemic myocardial scarring (IMS) is a common outcome of coronary artery disease that potentially leads to lethal arrythmias and heart failure. Late-gadolinium-enhanced cardiac magnetic resonance (CMR) imaging scans have served as the ... ...

    Abstract Purpose: Ischemic myocardial scarring (IMS) is a common outcome of coronary artery disease that potentially leads to lethal arrythmias and heart failure. Late-gadolinium-enhanced cardiac magnetic resonance (CMR) imaging scans have served as the diagnostic bedrock for IMS, with recent advancements in machine learning enabling enhanced scar classification. However, the trade-off for these improvements is intensive computational and time demands. As a solution, we propose a combination of lightweight preprocessing (LWP) and template matching (TM) to streamline IMS classification.
    Approach: CMR images from 279 patients (151 IMS, 128 control) were classified for IMS presence using two convolutional neural networks (CNNs) and TM, both with and without LWP. Evaluation metrics included accuracy, sensitivity, specificity, F1-score, area under the receiver operating characteristic curve (AUROC), and processing time. External testing dataset analysis encompassed patient-level classifications (PLCs) and a CNN versus TM classification comparison (CVTCC).
    Results: LWP enhanced the speed of both CNNs (4.9x) and TM (21.9x). Furthermore, in the absence of LWP, TM outpaced CNNs by over 10x, while with LWP, TM was more than 100x faster. Additionally, TM performed similarly to the CNNs in accuracy, sensitivity, specificity, F1-score, and AUROC, with PLCs demonstrating improvements across all five metrics. Moreover, the CVTCC revealed a substantial 90.9% agreement.
    Conclusions: Our results highlight the effectiveness of LWP and TM in streamlining IMS classification. Anticipated enhancements to LWP's region of interest (ROI) isolation and TM's ROI targeting are expected to boost accuracy, positioning them as a potential alternative to CNNs for IMS classification, supporting the need for further research.
    Language English
    Publishing date 2024-03-21
    Publishing country United States
    Document type Journal Article
    ISSN 2329-4302
    ISSN 2329-4302
    DOI 10.1117/1.JMI.11.2.024503
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: NZ-RugbyHealth Study: Current Postural Control Ability of Former Rugby Union and Non-contact Sport Players.

    Hume, Patria A / Lewis, Gwyn N / Brown, Scott R / Rashid, Usman / Theadom, Alice / Taylor, Denise

    Sports medicine (Auckland, N.Z.)

    2023  Volume 53, Issue 11, Page(s) 2257–2266

    Abstract: Background: Players in contact sports frequently experience mild traumatic brain (concussion) injuries (TBI). While there are known disruptions to balance following acute head trauma, it is uncertain if sport-related concussion injuries have a lasting ... ...

    Abstract Background: Players in contact sports frequently experience mild traumatic brain (concussion) injuries (TBI). While there are known disruptions to balance following acute head trauma, it is uncertain if sport-related concussion injuries have a lasting impact on postural control.
    Aim: To assess postural control in retired rugby players in comparison to retired non-contact sport players, and to evaluate any association with self-reported sport-related concussion history.
    Methods: Using a cross-sectional design, 75 players in the NZ-RugbyHealth study from three sports groups (44 ± 8 years; 24 elite rugby, 30 community rugby, 21 non-contact sport) took part in this study. The SMART EquiTest
    Results: Limited significant differences in balance metrics were found between the sports groups. A statistically significant (p < 0.001) interaction indicated a relationship between COP path length and sport-related concussion history in the most challenging balance condition, such that path length increased as the number of previous sport-related concussions increased.
    Conclusion: There was some evidence for a relationship between sport-related concussion recurrence in sports players and postural stability in challenging balance conditions. There was no evidence of impaired balance ability in retired rugby players compared with non-contact sport athletes.
    Language English
    Publishing date 2023-05-20
    Publishing country New Zealand
    Document type Journal Article
    ZDB-ID 605911-9
    ISSN 1179-2035 ; 0112-1642
    ISSN (online) 1179-2035
    ISSN 0112-1642
    DOI 10.1007/s40279-023-01864-7
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Potential underreporting of treated patients using a

    Guh, Alice Y / Fridkin, Scott / Goodenough, Dana / Winston, Lisa G / Johnston, Helen / Basiliere, Elizabeth / Olson, Danyel / Wilson, Christopher D / Watkins, Jasmine J / Korhonen, Lauren / Gerding, Dale N

    Infection control and hospital epidemiology

    2024  Volume 45, Issue 5, Page(s) 590–598

    Abstract: Objective: Patients tested for : Design: Retrospective observational study.: Setting: The study was conducted across 36 laboratories at 5 Emerging Infections Program sites.: Patients: We defined a CDI case as a positive test detected by this 2- ... ...

    Abstract Objective: Patients tested for
    Design: Retrospective observational study.
    Setting: The study was conducted across 36 laboratories at 5 Emerging Infections Program sites.
    Patients: We defined a CDI case as a positive test detected by this 2-step algorithm during 2018-2020 in a patient aged ≥1 year with no positive test in the previous 8 weeks.
    Methods: We used multivariable logistic regression to compare CDI-related complications and recurrence between NAAT+/toxin- and NAAT+/toxin+ cases. We used a mixed-effects logistic model to identify factors associated with treatment in NAAT+/toxin- cases.
    Results: Of 1,801 cases, 1,252 were NAAT+/toxin-, and 549 were NAAT+/toxin+. CDI treatment was given to 866 (71.5%) of 1,212 NAAT+/toxin- cases versus 510 (95.9%) of 532 NAAT+/toxin+ cases (
    Conclusion: Use of this 2-step algorithm likely results in underreporting of some NAAT+/toxin- cases with clinically relevant CDI. Disease severity and laboratory interpretive comments influence treatment decisions for NAAT+/toxin- cases.
    MeSH term(s) Humans ; Clostridioides difficile/genetics ; Bacterial Toxins ; Enterotoxins ; Nucleic Acid Amplification Techniques ; Clostridium Infections/diagnosis ; Algorithms
    Chemical Substances Bacterial Toxins ; Enterotoxins
    Language English
    Publishing date 2024-01-25
    Publishing country United States
    Document type Observational Study ; Journal Article
    ZDB-ID 639378-0
    ISSN 1559-6834 ; 0195-9417 ; 0899-823X
    ISSN (online) 1559-6834
    ISSN 0195-9417 ; 0899-823X
    DOI 10.1017/ice.2023.262
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Targeted accurate RNA consensus sequencing (tARC-seq) reveals mechanisms of replication error affecting SARS-CoV-2 divergence.

    Bradley, Catherine C / Wang, Chen / Gordon, Alasdair J E / Wen, Alice X / Luna, Pamela N / Cooke, Matthew B / Kohrn, Brendan F / Kennedy, Scott R / Avadhanula, Vasanthi / Piedra, Pedro A / Lichtarge, Olivier / Shaw, Chad A / Ronca, Shannon E / Herman, Christophe

    Nature microbiology

    2024  

    Abstract: RNA viruses, like SARS-CoV-2, depend on their RNA-dependent RNA polymerases (RdRp) for replication, which is error prone. Monitoring replication errors is crucial for understanding the virus's evolution. Current methods lack the precision to detect rare ... ...

    Abstract RNA viruses, like SARS-CoV-2, depend on their RNA-dependent RNA polymerases (RdRp) for replication, which is error prone. Monitoring replication errors is crucial for understanding the virus's evolution. Current methods lack the precision to detect rare de novo RNA mutations, particularly in low-input samples such as those from patients. Here we introduce a targeted accurate RNA consensus sequencing method (tARC-seq) to accurately determine the mutation frequency and types in SARS-CoV-2, both in cell culture and clinical samples. Our findings show an average of 2.68 × 10
    Language English
    Publishing date 2024-04-22
    Publishing country England
    Document type Journal Article
    ISSN 2058-5276
    ISSN (online) 2058-5276
    DOI 10.1038/s41564-024-01655-4
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article: An overview of menopause, and why this should feature within pre-registration education.

    Calow, Alice / Morrell-Scott, Nicola / Smith, Emma Johnson

    British journal of nursing (Mark Allen Publishing)

    2023  Volume 32, Issue 7, Page(s) 334–340

    Abstract: Background: Over half the population (51%) of England and Wales is female, most of whom will experience menopause, either as a result of endocrine ageing or medical treatment.: Aim: The project aimed to undertake a review of the literature to ... ...

    Abstract Background: Over half the population (51%) of England and Wales is female, most of whom will experience menopause, either as a result of endocrine ageing or medical treatment.
    Aim: The project aimed to undertake a review of the literature to determine the level of knowledge about menopause that healthcare students are exposed to, and to highlight why it is important for them to have an understanding of this subject both for their own clinical practice and for supporting colleagues in the workplace.
    Method: A literature review was conducted by the project team.
    Findings: There is a lack of education for healthcare students, who will go on to care for those affected by menopause, and will also work with colleagues experiencing menopause.
    Conclusion: Educational programmes should include menopause as a component, which will allow for a breaking down of barriers on a subject that is still generally considered taboo.
    Recommendations: A national audit should be conducted on menopause coverage in UK pre-registration nursing. The addition of menopause to the Liverpool John Moores University pre-registration nursing curriculum is also recommended based on agreed competencies.
    MeSH term(s) Female ; Humans ; Curriculum ; Education, Nursing/organization & administration ; Health Occupations/education ; Menopause ; United Kingdom ; Nursing Education Research
    Language English
    Publishing date 2023-04-06
    Publishing country England
    Document type Review ; Journal Article
    ZDB-ID 1119191-0
    ISSN 0966-0461
    ISSN 0966-0461
    DOI 10.12968/bjon.2023.32.7.334
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Challenges and opportunities in rapid disaster research: lessons from the field in New Mexico and Vanuatu.

    Scott, Mary Alice / Olszowy, Kathryn M / Dancause, Kelsey N / Roome, Amanda / Chan, Chim / Taylor, Hailey K / Marañon-Laguna, Andrea / Montoya, Emilee / Garcia, Alysa / Mares, Claudia / Tosiro, Beverlyn / Tarivonda, Len

    Frontiers in sociology

    2023  Volume 8, Page(s) 983972

    Abstract: Rapid research is essential to assess impacts in communities affected by disasters, particularly those communities made "hard-to-reach" due to their active marginalization across history and in contemporary practices. In this article, we describe two ... ...

    Abstract Rapid research is essential to assess impacts in communities affected by disasters, particularly those communities made "hard-to-reach" due to their active marginalization across history and in contemporary practices. In this article, we describe two rapid research projects developed to assess needs for and experiences of communities hard-hit by disasters. The first is a project on the COVID-19 pandemic in southern New Mexico (USA) that was developed to provide information to local agencies that are deploying programs to rebuild and revitalize marginalized communities. The second is a project on population displacement due to a volcanic eruption in Vanuatu, a lower-middle income country in the South Pacific, with mental and physical health outcomes data shared with the Vanuatu Ministry of Health. We describe the similar and unique challenges that arose doing rapid research in these two different contexts, the potential broader impacts of the research, and a synthesis of lessons learned. We discuss the challenges of rapidly changing rules and regulations, lack of baseline data, lack of survey instruments validated for specific populations and in local languages, limited availability of community partners, finding funding for rapid deployment of projects, rapidly training and working with research assistants, health and safety concerns of researchers and participants, and communicating with local and international partners. We also specifically discuss how we addressed our own personal challenges while also conducting time-intensive rapid research. In both studies, researchers shared results with governmental and non-governmental partners who may use the data to inform the design of their own relief programs. While different in context, type of disaster, and research strategy, our discussion of these projects provides insights into common lessons learned for working with communities at elevated risk for the worst outcomes during disasters, such as the need for flexibility, compromise, and good working relationships with community partners.
    Language English
    Publishing date 2023-04-20
    Publishing country Switzerland
    Document type Journal Article
    ISSN 2297-7775
    ISSN (online) 2297-7775
    DOI 10.3389/fsoc.2023.983972
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: Final outcomes analysis of the cell product SQZ-PBMC-HPV Phase 1 trial in incurable HPV16+ solid tumors shows improved overall survival in patients with increased CD8+ T cell tumor infiltration.

    Weaver, Alice N / Iams, Wade T / Park, Jong Chul / Mita, Monica / Holtick, Udo / Gordon, Michael S / Rodabaugh, Kerry J / Dhani, Neesha / Neupane, Prakash / Taylor, Matthew / Amanda Duvall, E / Jennings, Julia / Miselis, Nathan R / Loughhead, Scott / Warren, Marshelle S / Bernstein, Howard / Klussmann, Jens P / Baranda, Joaquina / Jimeno, Antonio

    Molecular carcinogenesis

    2024  

    Abstract: Cancer vaccines strive to induce robust, antigen-targeted, T-cell-mediated immune responses but have struggled to produce meaningful regression in solid tumors. An autologous cell vaccine, SQZ-PBMC-HPV, was developed by SQZ Biotechnologies using ... ...

    Abstract Cancer vaccines strive to induce robust, antigen-targeted, T-cell-mediated immune responses but have struggled to produce meaningful regression in solid tumors. An autologous cell vaccine, SQZ-PBMC-HPV, was developed by SQZ Biotechnologies using microfluidic squeezing technology to load PBMCs with HPV16 E6 and E7 antigens in HLA-A*02+ patients. The SQZ-PBMC-HPV-101 Phase 1 trial (NCT04084951) enrolled patients with incurable HPV16+ cancers. Here, we present a post hoc analysis of the relationship between Posttreatment CD8+ T cell infiltration and patient outcomes. SQZ-PBMC-HPV was administered as monotherapy every 3 weeks. Tumor samples were collected pre-dose and post-dose 4 weeks after treatment start. Biomarkers including CD8, MHC-I, E6, E7, GZMB, and Ki67 were evaluated by immunohistochemistry, immunofluorescence, and RNA in situ hybridization, and were correlated with clinical response, survival, and drug product composition. Eighteen patients had paired pre- and post-dose biopsies. Six (33%) had an increase in CD8+ T cell density in tumor parenchyma between screening and C2D8. Patients with increased CD8+ T cell density had improved disease control rate (66.7% vs 16.7%) and median overall survival (606.5 days vs 170.0 days, p = 0.0078). Drug product was significantly enriched for higher T cells and lower monocytes in the increased CD8+ T cell density group. In patients with incurable HPV16+ solid tumors treated with SQZ-PBMC-HPV, an increase in CD8+ T cell density within the tumor parenchyma was associated with superior disease control rate and overall survival. The product composition for patients with increased CD8+ T cell density was enriched for T cells.
    Language English
    Publishing date 2024-05-02
    Publishing country United States
    Document type Journal Article
    ZDB-ID 1004029-8
    ISSN 1098-2744 ; 0899-1987
    ISSN (online) 1098-2744
    ISSN 0899-1987
    DOI 10.1002/mc.23738
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article ; Online: Brain-phenotype models fail for individuals who defy sample stereotypes.

    Greene, Abigail S / Shen, Xilin / Noble, Stephanie / Horien, Corey / Hahn, C Alice / Arora, Jagriti / Tokoglu, Fuyuze / Spann, Marisa N / Carrión, Carmen I / Barron, Daniel S / Sanacora, Gerard / Srihari, Vinod H / Woods, Scott W / Scheinost, Dustin / Constable, R Todd

    Nature

    2022  Volume 609, Issue 7925, Page(s) 109–118

    Abstract: Individual differences in brain functional organization track a range of traits, symptoms and ... ...

    Abstract Individual differences in brain functional organization track a range of traits, symptoms and behaviours
    MeSH term(s) Brain/anatomy & histology ; Brain/physiology ; Computer Simulation ; Datasets as Topic ; Humans ; Individuality ; Mental Status and Dementia Tests ; Models, Biological ; Phenotype ; Stereotyping
    Language English
    Publishing date 2022-08-24
    Publishing country England
    Document type Journal Article
    ZDB-ID 120714-3
    ISSN 1476-4687 ; 0028-0836
    ISSN (online) 1476-4687
    ISSN 0028-0836
    DOI 10.1038/s41586-022-05118-w
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article: Characteristics of Patients With Initial

    Guh, Alice Y / Li, Rongxia / Korhonen, Lauren / Winston, Lisa G / Parker, Erin / Czaja, Christopher A / Johnston, Helen / Basiliere, Elizabeth / Meek, James / Olson, Danyel / Fridkin, Scott K / Wilson, Lucy E / Perlmutter, Rebecca / Holzbauer, Stacy M / D'Heilly, Paige / Phipps, Erin C / Flores, Kristina G / Dumyati, Ghinwa K / Pierce, Rebecca /
    Ocampo, Valerie L S / Wilson, Christopher D / Watkins, Jasmine J / Gerding, Dale N / McDonald, L Clifford

    Open forum infectious diseases

    2024  Volume 11, Issue 4, Page(s) ofae127

    Abstract: Background: Because interventions are available to prevent further recurrence in patients with recurrent : Methods: iCDI was defined as a positive : Results: Of 18 829 patients with iCDI, 882 (4.7%) had mrCDI; 437 with mrCDI and 7484 without mrCDI ...

    Abstract Background: Because interventions are available to prevent further recurrence in patients with recurrent
    Methods: iCDI was defined as a positive
    Results: Of 18 829 patients with iCDI, 882 (4.7%) had mrCDI; 437 with mrCDI and 7484 without mrCDI had full chart reviews. A higher proportion of patients with mrCDI than without mrCDI were aged ≥65 years (57.2% vs 40.7%;
    Conclusions: Patients with iCDI who are older, on hemodialysis, or had recent hospitalization or nitrofurantoin use had increased risk of mrCDI and may benefit from early use of adjunctive therapy to prevent mrCDI. If confirmed, these findings could aid in clinical decision making and interventional study designs.
    Language English
    Publishing date 2024-03-06
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2757767-3
    ISSN 2328-8957
    ISSN 2328-8957
    DOI 10.1093/ofid/ofae127
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  10. Article: The pentameric complex is not required for vertical transmission of cytomegalovirus in seronegative pregnant rhesus macaques.

    Wang, Hsuan-Yuan / Taher, Husam / Kreklywich, Craig N / Schmidt, Kimberli A / Scheef, Elizabeth A / Barfield, Richard / Otero, Claire E / Valencia, Sarah M / Crooks, Chelsea M / Mirza, Anne / Woods, Kelsey / Burgt, Nathan Vande / Kowalik, Timothy F / Barry, Peter A / Hansen, Scott G / Tarantal, Alice F / Chan, Cliburn / Streblow, Daniel N / Picker, Louis J /
    Kaur, Amitinder / Früh, Klaus / Permar, Sallie R / Malouli, Daniel

    bioRxiv : the preprint server for biology

    2023  

    Abstract: Congenital cytomegalovirus (cCMV) infection is the leading infectious cause of neonatal neurological impairment but essential virological determinants of transplacental CMV transmission remain unclear. The pentameric complex (PC), composed of five ... ...

    Abstract Congenital cytomegalovirus (cCMV) infection is the leading infectious cause of neonatal neurological impairment but essential virological determinants of transplacental CMV transmission remain unclear. The pentameric complex (PC), composed of five subunits, glycoproteins H (gH), gL, UL128, UL130, and UL131A, is essential for efficient entry into non-fibroblast cells
    One sentence summary: Congenital CMV transmission frequency in seronegative rhesus macaques is not affected by the deletion of the viral pentameric complex.
    Language English
    Publishing date 2023-06-16
    Publishing country United States
    Document type Preprint
    DOI 10.1101/2023.06.15.545169
    Database MEDical Literature Analysis and Retrieval System OnLINE

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