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Article ; Online: Implementation of Artificial Intelligence Applications in Australian Healthcare Organisations: Environmental Scan Findings.

Janssen, Anna B / Kavisha, Shah / Johnson, Alison / Marinic, Anna / Teede, Helena / Shaw, Tim

Studies in health technology and informatics

2024 Volume 310, Page(s) 1136–1140

Abstract: Artificial Intelligence (AI) has great potential to improve healthcare, but implementation into routine practice remains a challenge. This study scoped the extent to which AI and Natural Language Processing (NLP) is being implemented into routine ... ...

Abstract	Artificial Intelligence (AI) has great potential to improve healthcare, but implementation into routine practice remains a challenge. This study scoped the extent to which AI and Natural Language Processing (NLP) is being implemented into routine practice in Australian healthcare organisations. An environmental scan of publicly available data was undertaken to identify AI applications. Publicly available data consisted of news posts from Australian public healthcare organisations and conference proceedings from key research organisations. Two researchers reviewed and analysed posts related to AI applications to create a list of potential implementation case studies. The final list of AI applications was reviewed by a governance committee in order to identify any missing applications. One application was identified by the governance committee and subsequently added. The environmental scan identified eighteen AI applications, of which eleven met all eligibility criteria. Only one application included NLP. Twelve applications were included when the application identified by the governance committee was added to the list. Implementation of AI applications is spread across four broad categories of use: 1) Decision Support, 2) Monitoring Treatment Effectiveness, 3) Personalised Care and 4) Risk Prediction.
MeSH term(s)	Artificial Intelligence ; Australia ; Natural Language Processing ; Eligibility Determination ; Health Facilities
Language	English
Publishing date	2024-01-25
Publishing country	Netherlands
Document type	Journal Article
ISSN	1879-8365
ISSN (online)	1879-8365
DOI	10.3233/SHTI231142
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Article ; Online: Development of an Enzyme-Linked Immunosorbent Spot Assay for the Assessment of Adeno-Associated Virus Peptides to Examine Immune Safety.

Krivoshik, Sara Rose / Dzielak, Lindsey / Masters, April R / Hall, Jennifer / Johnson, Alison J

Human gene therapy

2024

Abstract: Adeno-associated virus (AAV)-based gene therapies have shown promise as novel treatments for rare genetic disorders such as hemophilia A and spinal muscular atrophy. However, cellular immune responses mediated by cytotoxic ( ... ...

Abstract	Adeno-associated virus (AAV)-based gene therapies have shown promise as novel treatments for rare genetic disorders such as hemophilia A and spinal muscular atrophy. However, cellular immune responses mediated by cytotoxic (CD8
Language	English
Publishing date	2024-02-22
Publishing country	United States
Document type	Journal Article
ZDB-ID	1028152-6
ISSN	1557-7422 ; 1043-0342
ISSN (online)	1557-7422
ISSN	1043-0342
DOI	10.1089/hum.2023.180
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Article ; Online: Learning health systems using data to drive healthcare improvement and impact: a systematic review.

Enticott, Joanne / Johnson, Alison / Teede, Helena

BMC health services research

2021 Volume 21, Issue 1, Page(s) 200

Abstract: Background: The transition to electronic health records offers the potential for big data to drive the next frontier in healthcare improvement. Yet there are multiple barriers to harnessing the power of data. The Learning Health System (LHS) has emerged ...

Abstract	Background: The transition to electronic health records offers the potential for big data to drive the next frontier in healthcare improvement. Yet there are multiple barriers to harnessing the power of data. The Learning Health System (LHS) has emerged as a model to overcome these barriers, yet there remains limited evidence of impact on delivery or outcomes of healthcare. Objective: To gather evidence on the effects of LHS data hubs or aligned models that use data to deliver healthcare improvement and impact. Any reported impact on the process, delivery or outcomes of healthcare was captured. Methods: Systematic review from CINAHL, EMBASE, MEDLINE, Medline in-process and Web of Science PubMed databases, using learning health system, data hub, data-driven, ehealth, informatics, collaborations, partnerships, and translation terms. English-language, peer-reviewed literature published between January 2014 and Sept 2019 was captured, supplemented by a grey literature search. Eligibility criteria included studies of LHS data hubs that reported research translation leading to health impact. Results: Overall, 1076 titles were identified, with 43 eligible studies, across 23 LHS environments. Most LHS environments were in the United States (n = 18) with others in Canada, UK, Sweden and Australia/NZ. Five (21.7%) produced medium-high level of evidence, which were peer-reviewed publications. Conclusions: LHS environments are producing impact across multiple continents and settings.
MeSH term(s)	Australia/epidemiology ; Canada ; Delivery of Health Care ; Humans ; Learning Health System ; Sweden ; United States
Language	English
Publishing date	2021-03-05
Publishing country	England
Document type	Journal Article ; Systematic Review
ISSN	1472-6963
ISSN (online)	1472-6963
DOI	10.1186/s12913-021-06215-8
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Article ; Online: Occupational exposure to organic solvents and risk of bladder cancer.

Xie, Shuai / Friesen, Melissa C / Baris, Dalsu / Schwenn, Molly / Rothman, Nathaniel / Johnson, Alison / Karagas, Margaret R / Silverman, Debra T / Koutros, Stella

Journal of exposure science & environmental epidemiology

2024

Abstract: Background: Bladder cancer has been linked to several occupations that involve the use of solvents, including those used in the dry-cleaning industry.: Objectives: We evaluated exposure to solvents and risk of bladder cancer in 1182 incident cases ... ...

Abstract	Background: Bladder cancer has been linked to several occupations that involve the use of solvents, including those used in the dry-cleaning industry. Objectives: We evaluated exposure to solvents and risk of bladder cancer in 1182 incident cases and 1408 controls from a population-based study. Methods: Exposure to solvents was quantitatively assessed using a job-exposure matrix (CANJEM). Exposure to benzene, toluene and xylene often co-occur. Therefore, we created two additional sets of metrics for combined benzene, toluene and xylene (BTX) exposure: (1) CANJEM-based BTX metrics and (2) hybrid BTX metrics, using an approach that integrates the CANJEM-based BTX metrics together with lifetime occupational histories and exposure-oriented modules that captured within-job, respondent-specific details about tasks and chemicals. Adjusted odds ratios (ORs) and 95% confidence intervals (95% CI) were estimated using logistic regression. Results: Bladder cancer risks were increased among those ever exposed to benzene (OR = 1.63, 95% CI: 1.14-2.32), toluene (OR = 1.60, 95% CI: 1.06-2.43), and xylene (OR = 1.67, 95% CI: 1.13-2.48) individually. We further observed a statistically significant exposure-response relationship for cumulative BTX exposure, with a stronger association using the hybrid BTX metrics (OR Impact: There is limited evidence about the role of exposure to specific organic solvents, alone or in combination on the risk of developing bladder cancer. In this study, workers with increasing exposure to benzene, toluene, and xylene as a group (BTX) had a statistically significant exposure-response relationship with bladder cancer. Future evaluation of the carcinogenicity of BTX and other organic solvents, particularly concurrent exposure, on bladder cancer development is needed.
Language	English
Publishing date	2024-02-16
Publishing country	United States
Document type	Journal Article
ZDB-ID	2218551-3
ISSN	1559-064X ; 1559-0631
ISSN (online)	1559-064X
ISSN	1559-0631
DOI	10.1038/s41370-024-00651-4
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Article ; Online: Impact of Early Supportive Care Assessment on treatment decision in head and neck cancer before concomitant chemoradiotherapy.

Cherifi, François / Villemin, Maud / Bisiaux, Frederique / Johnson, Alison / Solem Laviec, Heidi / Rambeau, Audrey

Supportive care in cancer : official journal of the Multinational Association of Supportive Care in Cancer

2022 Volume 30, Issue 8, Page(s) 6545–6553

Abstract: Objective: To assess the impact of a global pretherapeutic comprehensive supportive care assessment performed in an outpatient supportive care clinic (OSCC) and early supportive care interventions on oncological treatment choice in patients with ... ...

Abstract	Objective: To assess the impact of a global pretherapeutic comprehensive supportive care assessment performed in an outpatient supportive care clinic (OSCC) and early supportive care interventions on oncological treatment choice in patients with chemoradiation (CRT) indication for head and neck cancer (HNC). Methods: In this monocentric prospective observational study, we included all patients considered for CRT (exclusive or post-operative) for HNC from February 2019 to March 2020. The following frailty indicators were assessed: comorbidities (Charlson index), nutritional status, altered functional ability (ADL and IADL), social precarity (EPICES score), cognitive impairment (MoCA score), addictive habits and pain. Results: OSCC led to a change in treatment for 13.7% of patients, mainly de-escalations. Ninety-three percent of patients had at least one altered domain, including 50% with three or more altered domains. Cognitive function was the most frequently altered domain (66.7%). Altered functional ability was significantly associated with treatment de-escalation after OSCC. Treatment interruptions were significantly associated with treatment de-escalation and social precarity. De-escalation was also associated with a significantly poorer PFS (median of 23.2 mos. vs 8.8 mos., HR = 2.18 95%IC[1.02-4.63] p = 0.037)) and a non-significant trend towards worse OS (median 23.3mos. vs not reached (HR = 2.16 95%CI[0.88-5.31] p = 0.0836). Conclusion: We strongly encourage the creation of OSCC for patients treated with chemoradiation for HNC. This practice, through an exhaustive assessment, favours therapeutic adaptation, personalized follow-up and optimization of supportive care.
MeSH term(s)	Activities of Daily Living ; Chemoradiotherapy/adverse effects ; Head and Neck Neoplasms/therapy ; Humans ; Nutritional Status ; Prospective Studies
Language	English
Publishing date	2022-04-27
Publishing country	Germany
Document type	Journal Article ; Observational Study
ZDB-ID	1134446-5
ISSN	1433-7339 ; 0941-4355
ISSN (online)	1433-7339
ISSN	0941-4355
DOI	10.1007/s00520-022-07078-3
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Article ; Online: Correction to: Impact of Early Supportive Care Assessment on treatment decision.

Cherifi, François / Villemin, Maud / Bisiaux, Frederique / Johnson, Alison / Solem Laviec, Heidi / Rambeau, Audrey

Supportive care in cancer : official journal of the Multinational Association of Supportive Care in Cancer

2022 Volume 30, Issue 8, Page(s) 6555

Language	English
Publishing date	2022-05-06
Publishing country	Germany
Document type	Published Erratum
ZDB-ID	1134446-5
ISSN	1433-7339 ; 0941-4355
ISSN (online)	1433-7339
ISSN	0941-4355
DOI	10.1007/s00520-022-07119-x
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Article ; Online: Pairwise comparative analysis of six haplotype assembly methods based on users' experience.

Sun, Shuying / Cheng, Flora / Han, Daphne / Wei, Sarah / Zhong, Alice / Massoudian, Sherwin / Johnson, Alison B

BMC genomic data

2023 Volume 24, Issue 1, Page(s) 35

Abstract: Background: A haplotype is a set of DNA variants inherited together from one parent or chromosome. Haplotype information is useful for studying genetic variation and disease association. Haplotype assembly (HA) is a process of obtaining haplotypes using ...

Abstract	Background: A haplotype is a set of DNA variants inherited together from one parent or chromosome. Haplotype information is useful for studying genetic variation and disease association. Haplotype assembly (HA) is a process of obtaining haplotypes using DNA sequencing data. Currently, there are many HA methods with their own strengths and weaknesses. This study focused on comparing six HA methods or algorithms: HapCUT2, MixSIH, PEATH, WhatsHap, SDhaP, and MAtCHap using two NA12878 datasets named hg19 and hg38. The 6 HA algorithms were run on chromosome 10 of these two datasets, each with 3 filtering levels based on sequencing depth (DP1, DP15, and DP30). Their outputs were then compared. Result: Run time (CPU time) was compared to assess the efficiency of 6 HA methods. HapCUT2 was the fastest HA for 6 datasets, with run time consistently under 2 min. In addition, WhatsHap was relatively fast, and its run time was 21 min or less for all 6 datasets. The other 4 HA algorithms' run time varied across different datasets and coverage levels. To assess their accuracy, pairwise comparisons were conducted for each pair of the six packages by generating their disagreement rates for both haplotype blocks and Single Nucleotide Variants (SNVs). The authors also compared them using switch distance (error), i.e., the number of positions where two chromosomes of a certain phase must be switched to match with the known haplotype. HapCUT2, PEATH, MixSIH, and MAtCHap generated output files with similar numbers of blocks and SNVs, and they had relatively similar performance. WhatsHap generated a much larger number of SNVs in the hg19 DP1 output, which caused it to have high disagreement percentages with other methods. However, for the hg38 data, WhatsHap had similar performance as the other 4 algorithms, except SDhaP. The comparison analysis showed that SDhaP had a much larger disagreement rate when it was compared with the other algorithms in all 6 datasets. Conclusion: The comparative analysis is important because each algorithm is different. The findings of this study provide a deeper understanding of the performance of currently available HA algorithms and useful input for other users.
MeSH term(s)	Humans ; Haplotypes/genetics ; Algorithms ; Chromosomes, Human, Pair 10 ; Dissent and Disputes ; Records
Language	English
Publishing date	2023-06-29
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ISSN	2730-6844
ISSN (online)	2730-6844
DOI	10.1186/s12863-023-01134-5
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Article: Identifying Duplicate Cancer Cases Across State Boundaries: Pseudonymization as a Method to Encrypt Identifiers.

Riddle, Bruce L / Eliassen, M Scottie / Celaya, Maria O / Bancroft, Carolyn / Johnson, Alison / Oh, Junhie / Chawla, Chiahui / Rees, Judy R

Journal of registry management

2023 Volume 49, Issue 3, Page(s) 88–91

Abstract: Identifying potential duplicate cancer cases across state boundaries has been a topic of interest for many years. Duplicate cases could distort our understanding of the burden of cancer in a state, region, or even nationally, and waste cancer ... ...

Abstract	Identifying potential duplicate cancer cases across state boundaries has been a topic of interest for many years. Duplicate cases could distort our understanding of the burden of cancer in a state, region, or even nationally, and waste cancer surveillance resources. This paper reports a pilot quality improvement project to use a publicly available tool to encrypt a standard set of patient identifiers and then link cases across state boundaries as a way to identify and reconcile possible duplicate cases among a group of neighboring states. The paper describes the protocol, challenges, and preliminary results, and suggests future efforts.
MeSH term(s)	Humans ; Neoplasms/epidemiology ; Records
Language	English
Publishing date	2023-05-16
Publishing country	United States
Document type	Journal Article
ISSN	1945-6123
ISSN	1945-6123
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Article ; Online: Stable isotope ratios and current-use pesticide levels in edible insects: Implications on chemical food safety.

Macan Schönleben, Alicia / Yin, Shanshan / Strak, Ethan / Johnson, Alison / Belova, Lidia / Ait Bamai, Yu / van Nuijs, Alexander L N / Poma, Giulia / Covaci, Adrian

Food research international (Ottawa, Ont.)

2024 Volume 179, Page(s) 114020

Abstract: In the past years, the European Union (EU) has added edible insects to the list of novel foods, allowing an increasing number of insect-based products into the European market. With insects gaining more popularity in the Western world, it is crucial to ... ...

Abstract	In the past years, the European Union (EU) has added edible insects to the list of novel foods, allowing an increasing number of insect-based products into the European market. With insects gaining more popularity in the Western world, it is crucial to investigate their chemical food safety. This study aimed at investigating possible isotopic patterns in different edible insect species (n = 52) from Asia, Africa and Europe using stable isotope ratio analysis (SIRA) to provide a framework for future investigations on food authenticity and traceability. Additionally, complementary mass-spectrometric screening approaches were applied to gain a comprehensive overview of contamination levels of current-use pesticides (CUPs) in edible insects, to assess their chemical food safety. SIRA revealed significant differences between countries in δ
MeSH term(s)	Animals ; Edible Insects ; Pesticides/analysis ; Food ; Food Safety ; Insecta ; Sulfur
Chemical Substances	Pesticides ; Sulfur (70FD1KFU70)
Language	English
Publishing date	2024-01-23
Publishing country	Canada
Document type	Review ; Journal Article
ZDB-ID	1111695-x
ISSN	1873-7145 ; 0963-9969
ISSN (online)	1873-7145
ISSN	0963-9969
DOI	10.1016/j.foodres.2024.114020
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Article ; Online: Comparative evaluation of three real-time polymerase chain reaction assays to detect Myxobolus cerebralis.

Cavender, Wade / Swan, Christine / Wolf, Skylar / Van Vliet, Danielle / Johnson, Alison Aceves / Forest, Anna / Shields, Robert / Loch, Thomas / Knupp, Christopher / Drennan, John / Glenney, Gavin / Hallett, Sascha L / Marcino, Joe / Reed, Aimee

Journal of aquatic animal health

2024

Abstract: Objective: We sought to evaluate accurate and reproducible detection of Myxobolus cerebralis (Mc), the causative agent of whirling disease, by using nested polymerase chain reaction (nPCR) and three previously established real-time quantitative PCR ( ... ...

Abstract	Objective: We sought to evaluate accurate and reproducible detection of Myxobolus cerebralis (Mc), the causative agent of whirling disease, by using nested polymerase chain reaction (nPCR) and three previously established real-time quantitative PCR (qPCR) assays: K18S (Kelley 18S), C18S (Cavender 18S), and Hsp70 (heat shock protein 70). We used a "fit for purpose" approach combined with intra- and interlaboratory testing to identify a molecular testing method that would be equivalent to the currently accepted nPCR procedure for Mc. Methods: Assay performance was compared using a combination of intra- and interlaboratory testing that used synthetic gBlocks along with naturally and experimentally infected fish tissue. North American isolates representing geographically distinct locations were also tested using all three assays. Result: The K18S and C18S assays exhibited high assay sensitivity, intra- and interlaboratory repeatability of sample replicates, and reproducible identification of all test samples across multiple laboratories. In contrast, the Hsp70 assay failed to detect several positive samples at low DNA concentrations during intra- and interlaboratory testing. The K18S assay was the only procedure that demonstrated perfect detection accuracy when testing geographically distinct Mc isolates. Results demonstrated the K18S assay is robust under variable test conditions, is more accurate than the C18S and Hsp70 assays, and provides detection capabilities equivalent to those of the currently accepted nPCR confirmation assay "gold standard" that is described in the American Fisheries Society-Fish Health Section (AFS-FHS) Blue Book. Conclusion: The "fit for purpose" approach and preliminary completion of the World Organization for Animal Health validation pathway demonstrate that the K18S assay provides an alternate method for Mc testing. This work provides the foundation for acceptance of the K18S assay into the AFS-FHS Blue Book as a standardized test procedure for Mc.
Language	English
Publishing date	2024-04-15
Publishing country	United States
Document type	Journal Article
ZDB-ID	1019919-6
ISSN	1548-8667 ; 0899-7659
ISSN (online)	1548-8667
ISSN	0899-7659
DOI	10.1002/aah.10220
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