cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Efficient three-dimensional video cybersecurity framework based on double random phase encoding
Creators: name: Faragallah, OS
name: El-Shafai, W
name: Afifi, A
name: Elashry, I
name: Alzain, MA
name: Al-Amri, JF
name: Soh, Boon
name: El-Hoseny, HM
name: El-Sayed, HS
name: El-Samie, FEA
Publisher: name: La Trobe
Year: 2021
Subjects: Uncategorized

description: With the rapidly increasing rate of using online services and social media websites, cybercriminals have caused a great deterioration in the network security with enormous undesired consequences. Encryption techniques may be utilized to achieve data robustness and security in digital multimedia communication systems. From this perspective, this paper presents an optical ciphering framework using Double Random Phase Encoding (DRPE) for efficient and secure transmission of Three-Dimensional Videos (3DVs). Firstly, in the DRPE-based 3DV cybersecurity framework proposed in the paper, an optical emitter converts each frame of the transmitted 3DV into an optical signal. Then, the DRPE technique encrypts the obtained optical signal using two kinds of phase modulation in the time and frequency domains. Lastly, a Charge Coupled Device (CCD) digital camera converts, upon detection, the optical cipher frames to digital format. The proposed DRPE-based 3DV cybersecurity framework is examined and investi-gated through visual inspection and various security statistical metrics. Experi-ments and analysis show that the proposed DRPE-based 3DV cybersecurity framework is secure and effective to mitigate different multimedia attacks.
Feasibility and advantages of continuous synthesis of bioinspired silica using CO2 as an acidifying agent
Creators: name: Shukla, Chinmay
name: Moghadam, Roja
name: Patwardhan, Siddharth V.
name: Ranade, Vivek
Publisher: name: University of Limerick
Year: 2024
Subjects: classificationCode: 34
subject: Chemical sciences
subject: FOS: Chemical sciences

description: In this work, we present a method for the continuous synthesis of bioinspired porous silica (BIS) particles using carbon dioxide (CO2) as an acidifying agent. Typical BIS synthesis uses strong mineral acids (e.g., HCl) to initiate the hydrolysis and subsequent condensation reactions. The use of strong acids leads to challenges in controlling the reaction pH. The synthesis approach proposed in this work offers for the first time CO2 as an attractive alternative for the synthesis of BIS and demonstrates the continuous process. The developed method leverages the mild acidic and the self-buffering nature of the CO2 combined with additional options for controlling mass transfer rates to facilitate enhanced control of pH, which is crucial for controlling the properties of synthesized BIS. Proof of concept experiments conducted in continuous mode demonstrated a yield of over 70% and a surface area exceeding 500 m2 /g. These results indicate the successful synthesis of BIS using CO2 with properties in the desired range. The enhanced pH control offered by this CO2-based process will facilitate the implementation of a sustainable and robust continuous process for BIS synthesis.
D3.5 Call for tender documents and contract notice
Creators: name: Van DenBulcke, Marc
name: Raicevic Toungouz, Gordana
name: Van Garsse, Steven
name: Verschave, Alexander
name: Carton, Katrien
name: Chamagne, Charlotte
Publisher: name: Zenodo
Year: 2025
Subjects: subject: Biological sciences
subject: FOS: Biological sciences
subject: genetics
subject: DNA
subject: Medical and health sciences
subject: FOS: Medical and health sciences
subject: Clinical Medicine
subject: Oncology
subject: RNA
subject: ctDNA
subject: Liquid Biopsy
subject: NGS
subject: Cancer diagnostic
subject: cancer treatment

description: This deliverable presents the draft of the Request for Tender of the oncNGS PCP. It integrates information of alldeliverables developed in the preparatory phase and takes into consideration the remaks and suggestionsformulated by the suppliers during the OMC. As the Request for Tender is still in draft, a number of items areprone to be (slightly) adapted taking into account the ongoing discussions between the buyers and continuousevolving liquid-biopsy market.
Supplemental material for Do healthcare professionals and young adults know about the National Chlamydia Screening Programme? Findings from two cross-sectional surveys
Creators: name: Currie, Susanna
name: Mercer, Catherine H
name: Dunbar, Kevin J
name: Saunders, John
name: Woodhall, Sarah C
Publisher: name: SAGE Journals
Year: 2018
Subjects: subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Supplemental material for Do healthcare professionals and young adults know about the National Chlamydia Screening Programme? Findings from two cross-sectional surveys by Susanna Currie, Catherine H Mercer, Kevin J Dunbar, John Saunders and Sarah C Woodhall in International Journal of STD & AIDS
Options for reducing uncertainty in impact classification for alien species
Creators: name: Clarke, David
name: Palmer, DJ
name: McGrannachan, C
name: Burgess, TI
name: Chown, SL
name: Clarke, RH
name: Kumschick, S
name: Lach, L
name: Liebhold, AM
name: Roy, HE
name: Saunders, ME
name: Yeates, DK
name: Zalucki, MP
name: McGeoch, Melodie
Publisher: name: La Trobe
Year: 2024
Subjects: classificationCode: 3103
subject: Ecology
subject: FOS: Biological sciences
classificationCode: 41
subject: Environmental sciences
classificationCode: 4101
subject: Climate change impacts and adaptation
classificationCode: 4102
subject: Ecological applications

description: Impact assessment is an important and cost-effective tool for assisting in the identification and prioritization of invasive alien species. With the number of alien and invasive alien species expected to increase, reliance on impact assessment tools for the identification of species that pose the greatest threats will continue to grow. Given the importance of such assessments for management and resource allocation, it is critical to understand the uncertainty involved and what effect this may have on the outcome. Using an uncertainty typology and insects as a model taxon, we identified and classified the causes and types of uncertainty when performing impact assessments on alien species. We assessed 100 alien insect species across two rounds of assessments with each species independently assessed by two assessors. Agreement between assessors was relatively low for all three impact classification components (mechanism, severity, and confidence) after the first round of assessments. For the second round, we revised guidelines and gave assessors access to each other’s assessments which improved agreement by between 20% and 30% for impact mechanism, severity, and confidence. Of the 12 potential reasons for assessment discrepancies identified a priori, 11 were found to occur. The most frequent causes (and types) of uncertainty (i.e., differences between assessment outcomes for the same species) were as follows: incomplete information searches (systematic error), unclear mechanism and/or extent of impact (subjective judgment due to a lack of knowledge), and limitations of the assessment framework (context dependence). In response to these findings, we identify actions that may reduce uncertainty in the impact assessment process, particularly for assessing speciose taxa with diverse life histories such as Insects. Evidence of environmental impact was available for most insect species, and (of the non-random original subset of species assessed) 14 of those with evidence were identified as high impact species (with either major or massive impact). Although uncertainty in risk assessment, including impact assessments, can never be eliminated, identifying, and communicating its cause and variety is a first step toward its reduction and a more reliable assessment outcome, regardless of the taxa being assessed.
Options for reducing uncertainty in impact classification for alien species
Creators: name: Clarke, DA
name: Palmer, DJ
name: McGrannachan, C
name: Burgess, TI
name: Chown, SL
name: Clarke, RH
name: Kumschick, S
name: Lach, L
name: Liebhold, AM
name: Roy, HE
name: Saunders, ME
name: Yeates, DK
name: Zalucki, MP
name: McGeoch, Melodie
Publisher: name: La Trobe
Year: 2021
Subjects: Uncategorized

description: Impact assessment is an important and cost-effective tool for assisting in the identification and prioritization of invasive alien species. With the number of alien and invasive alien species expected to increase, reliance on impact assessment tools for the identification of species that pose the greatest threats will continue to grow. Given the importance of such assessments for management and resource allocation, it is critical to understand the uncertainty involved and what effect this may have on the outcome. Using an uncertainty typology and insects as a model taxon, we identified and classified the causes and types of uncertainty when performing impact assessments on alien species. We assessed 100 alien insect species across two rounds of assessments with each species independently assessed by two assessors. Agreement between assessors was relatively low for all three impact classification components (mechanism, severity, and confidence) after the first round of assessments. For the second round, we revised guidelines and gave assessors access to each other’s assessments which improved agreement by between 20% and 30% for impact mechanism, severity, and confidence. Of the 12 potential reasons for assessment discrepancies identified a priori, 11 were found to occur. The most frequent causes (and types) of uncertainty (i.e., differences between assessment outcomes for the same species) were as follows: incomplete information searches (systematic error), unclear mechanism and/or extent of impact (subjective judgment due to a lack of knowledge), and limitations of the assessment framework (context dependence). In response to these findings, we identify actions that may reduce uncertainty in the impact assessment process, particularly for assessing speciose taxa with diverse life histories such as Insects. Evidence of environmental impact was available for most insect species, and (of the non-random original subset of species assessed) 14 of those with evidence were identified as high impact species (with either major or massive impact). Although uncertainty in risk assessment, including impact assessments, can never be eliminated, identifying, and communicating its cause and variety is a first step toward its reduction and a more reliable assessment outcome, regardless of the taxa being assessed.
Why and how the work of Motor Neurone Disease Associations matters before and during bereavement: a consumer perspective
Creators: name: Aoun, Samar
name: Cafarella, PA
name: Hogden, A
name: Thomas, G
name: Jiang, L
name: Edis, R
Publisher: name: La Trobe
Year: 2021
Subjects: Uncategorized

description: Background: Studies on the experiences of consumers with Motor Neurone Disease Associations at end of life and bereavement are lacking, and their role and capability within the broader sectors of health and disability are unknown. Objectives: To ascertain the experiences and views of bereaved motor neurone disease caregivers with Motor Neurone Disease Associations about service gaps and needed improvements before and during bereavement and to propose a model of care that fits with consumer preferences and where Motor Neurone Disease Associations are effective enablers of care. Methods: A national bereavement survey was facilitated in 2019 by all Motor Neurone Disease Associations in Australia. A total of 363 respondents completed the section on support provided by Motor Neurone Disease Associations. A mixed-method design was used. Results: Respondents were generally positive about support received before bereavement (73-76%), except for emotional support (55%). Positive experiences related to the following: information, equipment advice/provision, advocacy/linking to services, showing empathy/understanding, personal contact and peer social support. Negative experiences included lack of continuity in case management and contact, perceived lack of competence or training, lack of emotional support and a lack of access to motor neurone disease services in rural areas. Suggested improvements were as follows: more contact and compassion at end of life and postdeath; better preparation for end of life; option of discussing euthanasia; providing referrals and links for counseling; access to caregiver support groups and peer interaction; provision of a genuine continuum of care rather than postdeath abandonment; guidance regarding postdeath practicalities; and more access to bereavement support in rural areas. Conclusion: This study provides consumer perspectives on driving new or improved initiatives by Motor Neurone Disease Associations and the need for a national standardised approach to training and service delivery, based on research evidence. A public health approach to motor neurone disease end-of-life care, of international applicability, is proposed to address the needs and preferences of motor neurone disease consumers, while supporting the capability of Motor Neurone Disease Associations within a multidisciplinary workforce to deliver that care.
Supplementary document for Noise-tolerance Detection of High-frequency Dynamic Targets with Mid-infrared Thermal Radiation via Intra-cavity Enhanced Upconversion - 7471604.pdf
Creators: name: Dong, Shuai
name: Qiao, Zhixing
name: Hu, Jianyong
name: Liang, Xilong
name: shi, Zhaoyang
name: Xu, Yafang
name: Zhang, Guofeng
name: Chen, Ruiyun
name: Yang, Zhichun
name: Liu, Xinghui
Publisher: name: Optica Publishing Group
Year: 2025
Subjects: Uncategorized

description: High-resolution Figures and Supplemental file
Evaluation of CogSport for acute concussion diagnosis in cricket
Creators: name: James, K
name: Saw, AE
name: Saw, R
name: Kountouris, Alex
name: Orchard, JW
Publisher: name: La Trobe
Year: 2021
Subjects: Uncategorized

description: Objective The diagnosis of sport-related concussion is a challenge for practitioners given the variable presentation and lack of a universal clinical indicator. The aim of this study was to describe the CogSport findings associated with concussion in elite Australian cricket players, and to evaluate the diagnostic ability of CogSport for this cohort. Methods A retrospective study design was used to evaluate CogSport performance of 45 concussed (male n=27, mean age 24.5±4.5 years; female n=18, 23.5±3.5 years) compared with 45 matched non-concussed (male n=27, mean age 27.3±4.5 years; female n=18, 24.1±4.5 years) elite Australian cricket players who sustained a head impact during cricket specific activity between July 2015 and December 2019. Results Median number of reported symptoms on the day of injury for concussed players was 7 out of 24, with a median symptom severity of 10 out of 120. CogSport performance deteriorated significantly in concussed cricket players' Detection speed (p<0.001), Identification speed (p<0.001), One Back speed (p=0.001) and One Back accuracy (p=0.022) components. These components, when considered independently and together, had good diagnostic utility. Conclusion This study demonstrated good clinical utility of CogSport for identifying concussed cricket players, particularly symptoms and Detection, Identification and One Back components. Therefore, CogSport may be considered a useful tool to assist concussion diagnosis in this cohort, and the clinician may place greater weight on the components associated with concussion diagnosis.
The long and the short of it: unlocking nanopore long-read RNA sequencing data with short-read differential expression analysis tools
Creators: name: Dong, Xueyi
name: Tian, Luyi
name: Gouil, Quentin
name: Kariyawasam, Hasaru
name: Su, Shian
name: De Paoli-Iseppi, Ricardo
name: Prawer, Yair David Joseph
name: Clark, Michael B
name: Breslin, Kelsey
name: Iminitoff, Megan
name: Blewitt, Marnie E
name: Law, Charity W
name: Ritchie, Matthew E
Publisher: name: La Trobe
Year: 2021
Subjects: classificationCode: 31
subject: Biological sciences
subject: FOS: Biological sciences
classificationCode: 3102
subject: Bioinformatics and computational biology
classificationCode: 3105
subject: Genetics

description: Abstract
 Application of Oxford Nanopore Technologies’ long-read sequencing platform to transcriptomic analysis is increasing in popularity. However, such analysis can be challenging due to the high sequence error and small library sizes, which decreases quantification accuracy and reduces power for statistical testing. Here, we report the analysis of two nanopore RNA-seq datasets with the goal of obtaining gene- and isoform-level differential expression information. A dataset of synthetic, spliced, spike-in RNAs (‘sequins’) as well as a mouse neural stem cell dataset from samples with a null mutation of the epigenetic regulator Smchd1 was analysed using a mix of long-read specific tools for preprocessing together with established short-read RNA-seq methods for downstream analysis. We used limma-voom to perform differential gene expression analysis, and the novel FLAMES pipeline to perform isoform identification and quantification, followed by DRIMSeq and limma-diffSplice (with stageR) to perform differential transcript usage analysis. We compared results from the sequins dataset to the ground truth, and results of the mouse dataset to a previous short-read study on equivalent samples. Overall, our work shows that transcriptomic analysis of long-read nanopore data using long-read specific preprocessing methods together with short-read differential expression methods and software that are already in wide use can yield meaningful results.
USJ782656_Appendix – Supplemental material for Housing trajectories of immigrants and their children in France: Between integration and stratification
Creators: name: Acolin, Arthur
Publisher: name: SAGE Journals
Year: 2018
Subjects: subject: 160299 Criminology not elsewhere classified
subject: FOS: Law
subject: Economics
subject: Geography
subject: 160607 International Relations
subject: FOS: Political science
subject: Sociology
subject: FOS: Sociology
subject: 120599 Urban and Regional Planning not elsewhere classified
subject: FOS: Social and economic geography

description: Supplemental material, USJ782656_Appendix for Housing trajectories of immigrants and their children in France: Between integration and stratification by Arthur Acolin in Urban Studies
Practitioner, Coach, and Athlete Perceptions of Evidence-Based Practice in Professional Sport in Australia
Creators: name: Schwarz, Edgar
name: Harper, Liam D
name: Duffield, Rob
name: McCunn, Robert
name: Govus, Andrew
name: Skorski, Sabrina
name: Fullagar, Hugh HK
Publisher: name: La Trobe
Year: 2021
Subjects: Uncategorized

description: Purpose: To examine practitioners’, coaches’, and athletes’ perceptions of evidence-based practice (EBP) in professional sport in Australia. Methods: One hundred thirty-eight participants (practitioners n = 67, coaches n = 39, and athletes n = 32) in various professional sports in Australia each completed a group-specific online questionnaire. Questions focused on perceptions of research, the contribution of participants’ own experience in implementing knowledge to practice, sources, and barriers for accessing and implementing EBP, preferred methods of feedback, and the required qualities of practitioners. Results: All practitioners reported using EBP, while most coaches and athletes believed that EBP contributes to individual performance and preparation (>85%). Practitioners’ preferred EBP information sources were “peer-reviewed journals” and “other practitioners within their sport,” while athlete sources were “practitioners within their sport” and “other athletes within their sport.” As primary barriers to accessing and implementing research, practitioners highlighted “time constraints,” “poor research translation,” and “nonapplicable research.” Practitioners ranked “informal conversation” as their most valued method of providing feedback; however, coaches prefer feedback from “scheduled meetings,” “online reports,” or “shared database.” Both athletes and coaches value “excellent knowledge of the sport,” “experience,” and “communication skills” in practitioners disseminating EBP. Conclusion: Practitioners, coaches, and athletes believe in the importance of EBP to their profession, although practitioners reported several barriers to accessing and implementing research as part of EBP. Athletes place a high value on experienced practitioners who have excellent knowledge of the sport and communication skills. Collectively, these findings can be used to further stakeholder understanding regarding EBP and the role of research to positively influence athlete health.
Supplemental material for Hematopoietic stem cell transplantation alters susceptibility to pulmonary hypertension in Bmpr2-deficient mice
Creators: name: Crosby, Alexi
name: Toshner, Mark R.
name: Southwood, Mark R.
name: Soon, Elaine
name: Dunmore, Benjamin J.
name: Groves, Emily
name: Moore, Stephen
name: Wright, Penny
name: Ottersbach, Katrin
name: Bennett, Cavan
name: Guerrero, Jose
name: Ghevaert, Cedric
name: Morrell, Nicholas W.
Publisher: name: SAGE Journals
Year: 2018
Subjects: subject: Cardiology
subject: 110203 Respiratory Diseases
subject: FOS: Clinical medicine

description: Supplemental material for Hematopoietic stem cell transplantation alters susceptibility to pulmonary hypertension in Bmpr2-deficient mice by Alexi Crosby, Mark R. Toshner, Mark R. Southwood, Elaine Soon, Benjamin J. Dunmore, Emily Groves, Stephen Moore, Penny Wright, Katrin Ottersbach, Cavan Bennett, Jose Guerrero, Cedric Ghevaert and Nicholas W. Morrell in Pulmonary Circulation
Size-exclusion chromatography separation reveals that vesicular and non-vesicular small RNA profiles differ in cell free urine
Creators: name: Karttunen, J
name: Stewart, Sarah
name: Kalmar, L
name: Grant, AJ
name: Frankl, FE Karet
name: Williams, TL
Publisher: name: La Trobe
Year: 2021
Subjects: Uncategorized

description: Urinary extracellular vesicles (EVs) and their RNA cargo are a novel source of biomarkers for various diseases. We aimed to identify the optimal method for isolating small (<200 nm) EVs from human urine prior to small RNA analysis. EVs from filtered healthy volunteer urine were concentrated using three methods: ultracentrifugation (UC); a precipitation-based kit (PR); and ultrafiltration (UF). EVs were further purified by size-exclusion chromatography (SEC). EV preparations were analysed with transmission electron microscopy (TEM), Western blotting, nanoparticle tracking analysis (NTA) and an Agilent Bioanalyzer Small RNA kit. UF yielded the highest number of particles both before and after SEC. Small RNA analysis from UF-concentrated urine identified two major peaks at 10–40 nucleotides (nt) and 40–80 nt. In contrast, EV preparations obtained after UC, PR or SEC combined with any concentrating method, contained predominantly 40–80 nt sized small RNA. Protein fractions from UF+SEC contained small RNA of 10–40 nt in size (consistent with miRNAs). These data indicate that most of the microRNA-sized RNAs in filtered urine are not associated with small-sized EVs, and highlights the importance of removing non-vesicular proteins and RNA from urine EV preparations prior to small RNA analysis.
Flores_online_supplement_ – Supplemental material for Who Are the “Illegals”? The Social Construction of Illegality in the United States
Creators: name: Flores, René D.
name: Schachter, Ariela
Publisher: name: SAGE Journals
Year: 2018
Subjects: subject: Sociology
subject: FOS: Sociology

description: Supplemental material, Flores_online_supplement_ for Who Are the “Illegals”? The Social Construction of Illegality in the United States by René D. Flores and Ariela Schachter in American Sociological Review
PS_IRT_Online_Appendix – Supplemental material for Modeling Response Style Using Vignettes and Person-Specific Item Response Theory
Creators: name: Jonas, Katherine G.
name: Markon, Kristian E.
Publisher: name: SAGE Journals
Year: 2018
Subjects: subject: 160807 Sociological Methodology and Research Methods
subject: FOS: Sociology
subject: 170199 Psychology not elsewhere classified
subject: FOS: Psychology

description: Supplemental material, PS_IRT_Online_Appendix for Modeling Response Style Using Vignettes and Person-Specific Item Response Theory by Katherine G. Jonas and Kristian E. Markon in Applied Psychological Measurement
Radical Scavenging Activity of Natural Anthraquinones: A Theoretical Insight
Creators: name: Trung, NQ
name: Thong, NM
name: Cuong, DH
name: Manh, TD
name: Hoang, LP
name: Hien, NK
name: Nam, PC
name: Quang, DT
name: Mechler, Adam
name: Vo, Quan Van
Publisher: name: La Trobe
Year: 2021
Subjects: Uncategorized

description: Anthraquinones (ANQs) isolated from Paederia plants are known to have antidiarrheal, antitussive, anthelmintic, analgesic, anti-inflammatory, antihyperlipidemic, antihyperglycaemic, and antimicrobial activities. The antioxidant properties were also noted but not confirmed thus far. In this study, the superoxide and hydroperoxide radical scavenging activities of six ANQs were evaluated using a computational approach. The results suggest that the ANQs exhibit low HOO• antiradical activity in all environments, including the gas phase (k < 102 M-1 s-1). In contrast, the ANQs might exert excellent O2•- radical scavenging activity, particularly in aqueous solution. The rate constants of the superoxide anion scavenging in water (at pH = 7.4) range from 3.42 × 106 to 3.70 × 108 M-1 s-1. Compared with typical antioxidants such as ascorbic acid and quercetin, the superoxide anion scavenging activity of ANQs is significantly higher. Thus, the ANQs are promising O2•- radical scavengers in polar media.
Reshaping Plant Science: The Power of AI and Cutting-Edge Technologies
Creators: name: Amanulla Khan
Publisher: name: Zenodo
Year: 2025
Subjects: AI
Artificial intelligence
Plant phenotyping

description: The field of plant science is witnessing a transformative era, driven by the integration of artificial intelligence (AI) andcutting-edge technologies. AI-based approaches have emerged as powerful tools to unlock the mysteries of plant biology,revolutionizing various facets of research, from understanding plant phenotypes to unraveling the complexities ofgenomics and transcriptomics. This article delves into the realm of AI-driven advancements in plant scientific research,exploring how AI is reshaping our understanding of plant phenotyping, genomics, disease detection, crop yield prediction,image analysis, functional genomics, genome-wide association studies, and gene expression analysis. The integration of AIin plant research fosters innovation, sustainability, and food security, making it a transformative force in plant scienceresearch.
Metformin Effects on Markers of Glycemic Index and Serum Lipids in patients with Type 2 Diabetes Mellitus on Insulin Therapy
Creators: name: Yasseen, Yasseen
name: Abidal-Hussain, Mohammed
name: Almohnna, Sadiq
name: Hussien, Yasmeen
name: Al-Aubaidy, Hayder
name: Hadi, Najah
Publisher: name: La Trobe
Year: 2021
Subjects: Uncategorized

description: No description supplied
A routing and scheduling problem for cross-docking networks with perishable products, heterogeneous vehicles and split delivery
Creators: name: Shahabi-Shahmiri, Reza
name: Sobhan Asian
name: Tavakkoli-Moghaddam, Reza
name: Mousavi, Seyed Meysam
name: Rajabzadeh, Mohsen
Publisher: name: La Trobe
Year: 2021
Subjects: Uncategorized

description: No description supplied
Novel high-affinity EGFRvIII-specific chimeric antigen receptor T cells effectively eliminate human glioblastoma
Creators: name: Abbott, RC
name: Verdon, DJ
name: Gracey, FM
name: Hughes-Parry, HE
name: Iliopoulos, M
name: Watson, KA
name: Mulazzani, M
name: Luong, K
name: D’Arcy, C
name: Sullivan, LC
name: Kiefel, BR
name: Cross, RS
name: Jenkins, Misty
Publisher: name: La Trobe
Year: 2021
Subjects: Uncategorized

description: Objectives: The increasing success of Chimeric Antigen Receptor (CAR) T cell therapy in haematological malignancies is reinvigorating its application in many other cancer types and with renewed focus on its application to solid tumors. We present a novel CAR against glioblastoma, an aggressive, malignant glioma, with a dismal survival rate for which treatment options have remained unchanged for over a decade. Methods: We use the human Retained Display (ReD) antibody platform (Myrio Therapeutics) to identify a novel single-chain variable fragment (scFv) that recognises epidermal growth factor receptor mutant variant III (EGFRvIII), a common and tumor-specific mutation found in glioblastoma. We use both in vitro functional assays and an in vivo orthotopic xenograft model of glioblastoma to examine the function of our novel CAR, called GCT02, targeted using murine CAR T cells. Results: Our EGFRvIII-specific scFv was found to be of much higher affinity than reported comparators reverse-engineered from monoclonal antibodies. Despite the higher affinity, GCT02 CAR T cells kill equivalently but secrete lower amounts of cytokine. In addition, GCT02-CAR T cells also mediate rapid and complete tumor elimination in vivo. Conclusion: We present a novel EGFRvIII-specific CAR, with effective antitumor functions both in in vitro and in a xenograft model of human glioblastoma.
De novo transcriptome analysis for examination of the nutrition metabolic system related to the evolutionary process through which stick insects gain the ability of flight (Phasmatodea)
Creators: name: Sakamoto, T
name: Sasaki, S
name: Yamaguchi, N
name: Nakano, M
name: Sato, H
name: Iwabuchi, K
name: Tabunoki, H
name: Simpson, Richard
name: Bono, H
Publisher: name: La Trobe
Year: 2021
Subjects: Uncategorized

description: Objective: Insects are the most evolutionarily successful groups of organisms, and this success is largely due to their flight ability. Interestingly, some stick insects have lost their flight ability despite having wings. To elucidate the shift from wingless to flying forms during insect evolution, we compared the nutritional metabolism system among flight-winged, flightless-winged, and flightless-wingless stick insect groups. Results: Here, we report RNA sequencing of midgut transcriptome of Entoria okinawaensis, a prominent Japanese flightless-wingless stick insect, and the comparative analysis of its transcriptome in publicly available midgut transcriptomes obtained from seven stick insect species. A gene enrichment analysis for differentially expressed genes, including those obtained from winged vs wingless and flight vs flightless genes comparisons, revealed that carbohydrate metabolic process-related genes were highly expressed in the winged stick insect group. We also found that the expression of the mitochondrial enolase superfamily member 1 transcript was significantly higher in the winged stick insect group than in the wingless stick insect group. Our findings could indicate that carbohydrate metabolic processes are related to the evolutionary process through which stick insects gain the ability of flight.
A Pathway to Precision Medicine for Aboriginal Australians: A Study Protocol
Creators: name: Cheng, Yeu-Yao
name: Nunn, Jack
name: Skinner, John
name: Rambaldini, Boe
name: Boughtwood, Tiffany
name: Calma, Tom
name: Brown, Alex
name: Meldrum, Cliff
name: Dinger, Marcel E
name: Byrne, Jennifer A
name: McCowen, Debbie
name: Potter, Jayden
name: Faires, Kerry
name: Cooper, Sandra
name: Gwynne, Kylie
Publisher: name: La Trobe
Year: 2021
Subjects: Uncategorized

description: (1) Background: Genomic precision medicine (PM) utilises people’s genomic data to inform the delivery of preventive and therapeutic health care. PM has not been well-established for use with people of Aboriginal and Torres Strait Islander ancestry due to the paucity of genomic data from these communities. We report the development of a new protocol using co-design methods to enhance the potential use of PM for Aboriginal Australians. (2) Methods: This iterative qualitative study consists of five main phases. Phase-I will ensure appropriate governance of the project and establishment of a Project Advisory Committee. Following an initial consultation with the Aboriginal community, Phase-II will invite community members to participate in co-design workshops. In Phase-III, the Chief Investigators will participate in co-design workshops and document generated ideas. The notes shall be analysed thematically in Phase-IV with Aboriginal community representatives, and the summary will be disseminated to the communities. In Phase-V, we will evaluate the co-design process and adapt our protocol for the use in partnership with other communities. (3) Discussion: This study protocol represents a crucial first step to ensure that PM research is relevant and acceptable to Aboriginal Australians. Without fair access to PM, the gap in health outcome between Aboriginal and non-Aboriginal Australians will continue to widen.
Supplemental_Meta_References – Supplemental material for The Relationship Between Study Quality and the Effects of Supplemental Reading Interventions: A Meta-Analysis
Creators: name: Austin, Christy R.
name: Wanzek, Jeanne
name: Scammacca, Nancy K.
name: Vaughn, Sharon
name: Gesel, Samantha A.
name: Donegan, Rachel E.
name: Engelmann, Morgan L.
Publisher: name: SAGE Journals
Year: 2018
Subjects: subject: 130312 Special Education and Disability
subject: FOS: Educational sciences

description: Supplemental material, Supplemental_Meta_References for The Relationship Between Study Quality and the Effects of Supplemental Reading Interventions: A Meta-Analysis by Christy R. Austin, Jeanne Wanzek, Nancy K. Scammacca, Sharon Vaughn, Samantha A. Gesel, Rachel E. Donegan and Morgan L. Engelmann in Exceptional Children
Additional file 3 of Evaluating the potential of whole-genome sequencing for tracing transmission routes in experimental infections and natural outbreaks of bovine respiratory syncytial virus
Creators: name: Johnson, Paul C. D.
name: Hägglund, Sara
name: Näslund, Katarina
name: Meyer, Gilles
name: Taylor, Geraldine
name: Orton, Richard J.
name: Zohari, Siamak
name: Haydon, Daniel T.
name: Valarcher, Jean François
Publisher: name: figshare
Year: 2024
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 3. Alignments of variable sites from consensus sequences from the three experiments (C, D and F) where consensus-level variation was observed, and from the outbreak samples (O).
Characterization of brain-derived extracellular vesicle lipids in Alzheimer's disease
Creators: name: Su, Huaqi
name: Rustam, Yepy H
name: Masters, Colin L
name: Makalic, Enes
name: McLean, Catriona A
name: Hill, Andrew
name: Barnham, Kevin J
name: Reid, Gavin E
name: Vella, Laura J
Publisher: name: La Trobe
Year: 2021
Subjects: Uncategorized

description: Lipid dyshomeostasis is associated with the most common form of dementia, Alzheimer's disease (AD). Substantial progress has been made in identifying positron emission tomography and cerebrospinal fluid biomarkers for AD, but they have limited use as front-line diagnostic tools. Extracellular vesicles (EVs) are released by all cells and contain a subset of their parental cell composition, including lipids. EVs are released from the brain into the periphery, providing a potential source of tissue and disease specific lipid biomarkers. However, the EV lipidome of the central nervous system is currently unknown and the potential of brain-derived EVs (BDEVs) to inform on lipid dyshomeostasis in AD remains unclear. The aim of this study was to reveal the lipid composition of BDEVs in human frontal cortex, and to determine whether BDEVs have an altered lipid profile in AD. Using semi-quantitative mass spectrometry, we describe the BDEV lipidome, covering four lipid categories, 17 lipid classes and 692 lipid molecules. BDEVs were enriched in glycerophosphoserine (PS) lipids, a characteristic of small EVs. Here we further report that BDEVs are enriched in ether-containing PS lipids, a finding that further establishes ether lipids as a feature of EVs. BDEVs in the AD frontal cortex offered improved detection of dysregulated lipids in AD over global lipid profiling of this brain region. AD BDEVs had significantly altered glycerophospholipid and sphingolipid levels, specifically increased plasmalogen glycerophosphoethanolamine and decreased polyunsaturated fatty acyl containing lipids, and altered amide-linked acyl chain content in sphingomyelin and ceramide lipids relative to CTL. The most prominent alteration was a two-fold decrease in lipid species containing anti-inflammatory/pro-resolving docosahexaenoic acid. The in-depth lipidome analysis provided in this study highlights the advantage of EVs over more complex tissues for improved detection of dysregulated lipids that may serve as potential biomarkers in the periphery.
Supplemental Material, mouse_sertoli-CT-2034-R1-Supplemental_data - In Vitro Derivation of Functional Sertoli-Like Cells from Mouse Embryonic Stem Cells
Creators: name: Dong-Won Seol
name: Seah Park
name: Shin, Eun Young
name: Chang, Jae Ho
name: Lee, Dong Ryul
Publisher: name: SAGE Journals
Year: 2018
Subjects: Medicine
Cell Biology

description: Supplemental Material, mouse_sertoli-CT-2034-R1-Supplemental_data for In Vitro Derivation of Functional Sertoli-Like Cells from Mouse Embryonic Stem Cells by Dong-Won Seol, Seah Park, Eun Young Shin, Jae Ho Chang, and Dong Ryul Lee in Cell Transplantation
CD8+ T cell landscape in Indigenous and non-Indigenous people restricted by influenza mortality-associated HLA-A*24:02 allomorph
Creators: name: Hensen, L
name: Illing, PT
name: Clemens, E Bridie
name: Nguyen, THO
name: Koutsakos, M
name: van de Sandt, CE
name: Mifsud, NA
name: Nguyen, Andrea
name: Szeto, Christopher
name: Chua, BY
name: Halim, H
name: Rizzetto, S
name: Luciani, F
name: Loh, L
name: Grant, Emma
name: Saunders, PM
name: Brooks, AG
name: Rockman, S
name: Kotsimbos, TC
name: Cheng, AC
name: Richards, M
name: Westall, GP
name: Wakim, LM
name: Loudovaris, T
name: Mannering, SI
name: Elliott, M
name: Tangye, SG
name: Jackson, DC
name: Flanagan, KL
name: Rossjohn, J
name: Gras, Stephanie
name: Davies, J
name: Miller, A
name: Tong, SYC
name: Purcell, AW
name: Kedzierska, K
Publisher: name: La Trobe
Year: 2021
Subjects: Uncategorized

description: Indigenous people worldwide are at high risk of developing severe influenza disease. HLA-A*24:02 allele, highly prevalent in Indigenous populations, is associated with influenza-induced mortality, although the basis for this association is unclear. Here, we define CD8 T-cell immune landscapes against influenza A (IAV) and B (IBV) viruses in HLA-A*24:02-expressing Indigenous and non-Indigenous individuals, human tissues, influenza-infected patients and HLA-A*24:02-transgenic mice. We identify immunodominant protective CD8 T-cell epitopes, one towards IAV and six towards IBV, with A24/PB2 -specific CD8 T cells being cross-reactive between IAV and IBV. Memory CD8 T cells towards these specificities are present in blood (CD27 CD45RA phenotype) and tissues (CD103 CD69 phenotype) of healthy individuals, and effector CD27 CD45RA PD-1 CD38 CD8 T cells in IAV/IBV patients. Our data show influenza-specific CD8 T-cell responses in Indigenous Australians, and advocate for T-cell-mediated vaccines that target and boost the breadth of IAV/IBV-specific CD8 T cells to protect high-risk HLA-A*24:02-expressing Indigenous and non-Indigenous populations from severe influenza disease.
Supplementary__Figure_1,_table_1 – Supplemental material for Formaldehyde Exposure in Indoor Air From Public Places and Its Associated Health Risks in Kunshan City, China
Creators: name: Xiaojun Liang
name: Jianxin Zhang
name: Wenlei Song
name: Kewei Wang
name: Baoying Zhang
Publisher: name: SAGE Journals
Year: 2018
Subjects: subject: 111799 Public Health and Health Services not elsewhere classified
subject: FOS: Health sciences

description: Supplemental material, Supplementary__Figure_1,_table_1 for Formaldehyde Exposure in Indoor Air From Public Places and Its Associated Health Risks in Kunshan City, China by Xiaojun Liang, Jianxin Zhang, Wenlei Song, Kewei Wang and Baoying Zhang in Asia Pacific Journal of Public Health
Supplemental_Online_File - Social Preferences as an Individual Difference in Offender Decision-making
Creators: name: Jaynes, Chae M.
name: Loughran, Thomas A.
Publisher: name: SAGE Journals
Year: 2018
Subjects: subject: 160299 Criminology not elsewhere classified
subject: FOS: Law

description: Supplemental_Online_File for Social Preferences as an Individual Difference in Offender Decision-making by Chae M. Jaynes, and Thomas A. Loughran in Journal of Research in Crime and Delinquency
Identifying heart failure in patients with chronic obstructive lung disease through the Canadian Primary Care Sentinel Surveillance Network in British Columbia: a case derivation study
Creators: name: Vijh, Rohit
name: Wong, Sabrina T
name: Grandy, Matthew
name: Peterson, Sandra
name: Ezzat, Allison
name: Gibb, Andrew G
name: Hawkins, Nathaniel M
Publisher: name: La Trobe
Year: 2021
Subjects: Uncategorized

description: BackgroundHeart failure (HF) poses a substantial global health burden, particularly in patients with chronic obstructive pulmonary disease (COPD). The objective of this study was to validate an electronic medical record-based definition of HF in patients with COPD in primary care practices in the province of British Columbia, Canada.MethodsWe conducted a cross-sectional retrospective chart review from Sept. 1, 2018, to Dec. 31, 2018, for a cohort of patients from primary care practices in BC whose physicians were recruited through the BC node of the Canadian Primary Care Sentinel Surveillance Network. Heart failure case definitions were developed by combining diagnostic codes, medication information and laboratory values available in primary care electronic medical records. These were compared with HF diagnoses identified through detailed chart review as the gold standard. Sensitivity, specificity, negative (NPV) and positive predictive values (PPV) were calculated for each definition.ResultsCharts of 311 patients with COPD were reviewed, of whom 72 (23.2%) had HF. Five categories of definitions were constructed, all of which had appropriate sensitivity, specificity and NPV. The optimal case definition consisted of 1 HF billing code or a specific combination of medications for HF. This definition had an excellent specificity (93.3%, 95% confidence interval [CI] 89.4%-96.1%), sensitivity (90.3%, 95% CI 81.0%-96.0%), PPV (80.2%, 95% CI 69.9%-88.3%) and NPV (97.0%, 95% CI 93.8%-98.8%).InterpretationThis comprehensive case definition improves upon previous primary care HF definitions to include medication codes and laboratory data, along with previously used billing codes. A case definition for HF was derived and validated and can be used with data from electronic medical records to identify HF in patients with COPD in primary care accurately.
jop-2018-3453-File002 – Supplemental material for Predicting parkinsonism side-effects of antipsychotic polypharmacy prescribed in secondary mental healthcare
Creators: name: Giouliana Kadra
name: Athan Spiros
name: Hitesh Shetty
name: Ehtesham Iqbal
name: Hayes, Richard D
name: Stewart, Robert
name: Geerts, Hugo
Publisher: name: SAGE Journals
Year: 2018
Subjects: subject: 110904 Neurology and Neuromuscular Diseases
subject: FOS: Clinical medicine
subject: 111599 Pharmacology and Pharmaceutical Sciences not elsewhere classified
subject: 170199 Psychology not elsewhere classified
subject: FOS: Psychology
subject: 110319 Psychiatry (incl. Psychotherapy)

description: Supplemental material, jop-2018-3453-File002 for Predicting parkinsonism side-effects of antipsychotic polypharmacy prescribed in secondary mental healthcare by Giouliana Kadra, Athan Spiros, Hitesh Shetty, Ehtesham Iqbal, Richard D Hayes, Robert Stewart and Hugo Geerts in Journal of Psychopharmacology
Competition Nutrition Practices of Elite Male Professional Rugby Union Players
Creators: name: Posthumus, Logan
name: Fairbairn, Kirsty
name: Darry, Katrina
name: Driller, Matthew
name: Winwood, Paul
name: Gill, Nicholas
Publisher: name: La Trobe
Year: 2021
Subjects: Uncategorized

description: Thirty-four elite male professional rugby union players from the New Zealand Super Rugby championship completed dietary intakes via the Snap-N-Send method during a seven-day competition week. Mean seven-day absolute energy intake was significantly higher for forwards (4606 ± 719 kcal·day−1) compared to backs (3761 ± 618 kcal·day−1; p < 0.01; d = 1.26). Forwards demonstrated significantly higher mean seven-day absolute macronutrient intakes compared to backs (p < 0.03; d = 0.86–1.58), but no significant differences were observed for mean seven-day relative carbohydrate (3.5 ± 0.8 vs. 3.7 ± 0.7 g·kg·day−1), protein (2.5 ± 0.4 vs. 2.4 ± 0.5 g·kg·day−1), and fat (1.8 ± 0.4 vs. 1.8 ± 0.5 g·kg·day−1) intakes. Both forwards and backs reported their highest energy (5223 ± 864 vs. 4694 ± 784 kcal·day−1) and carbohydrate (4.4 ± 1.2 vs. 5.1 ± 1.0 g·kg·day−1) intakes on game day, with ≈62% of total calories being consumed prior to kick-off. Mean pre-game meal composition for all players was 1.4 ± 0.5 g·kg−1 carbohydrate, 0.8 ± 0.2 g·kg−1 protein, and 0.5 ± 0.2 g·kg−1 fat. Players fell short of daily sports nutrition guidelines for carbohydrate and appeared to “eat to intensity” by increasing or decreasing energy and carbohydrate intake based on the training load. Despite recommendations and continued education, many rugby players select what would be considered a “lower” carbohydrate intake. Although these intakes appear adequate to be a professional RU player, further research is required to determine optimal dietary intakes.
Online_appendix_experimental_instructions__second_guessing – Supplemental material for Second-Guessing in Group Decision Making
Creators: name: Jian, Lian
name: Hollingshead, Andrea B.
name: Lin, John C.
Publisher: name: SAGE Journals
Year: 2018
Subjects: subject: 200199 Communication and Media Studies not elsewhere classified
subject: FOS: Media and communications

description: Supplemental material, Online_appendix_experimental_instructions__second_guessing for Second-Guessing in Group Decision Making by Lian Jian, Andrea B. Hollingshead and John C. Lin in Communication Research