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Article ; Online: Can an unplanned extubation checklist solely identify children at-risk for adverse events? A response to the pediatric unplanned extubation risk score.

Perry-Eaddy, Mallory A / Braccialarghe, Karen / Cowl, Allison / Melendez, Elliot

Heart & lung : the journal of critical care

2023 Volume 62, Page(s) 278–279

MeSH term(s)	Child ; Humans ; Airway Extubation/adverse effects ; Checklist ; Risk Factors ; Case-Control Studies ; Intubation, Intratracheal ; Respiration, Artificial
Language	English
Publishing date	2023-07-20
Publishing country	United States
Document type	Letter
ZDB-ID	193129-5
ISSN	1527-3288 ; 0147-9563
ISSN (online)	1527-3288
ISSN	0147-9563
DOI	10.1016/j.hrtlng.2023.07.001
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Article: Fast and Accurate Multiplex Identification and Quantification of Seven Genetically Modified Soybean Lines Using Six-Color Digital PCR.

Bogožalec Košir, Alexandra / Muller, Sabine / Žel, Jana / Milavec, Mojca / Mallory, Allison C / Dobnik, David

Foods (Basel, Switzerland)

2023 Volume 12, Issue 22

Abstract: The proliferation of genetically modified organisms (GMOs) presents challenges to GMO testing laboratories and policymakers. Traditional methods, like quantitative real-time PCR (qPCR), face limitations in quantifying the increasing number of GMOs in a ... ...

Abstract	The proliferation of genetically modified organisms (GMOs) presents challenges to GMO testing laboratories and policymakers. Traditional methods, like quantitative real-time PCR (qPCR), face limitations in quantifying the increasing number of GMOs in a single sample. Digital PCR (dPCR), specifically multiplexing, offers a solution by enabling simultaneous quantification of multiple GMO targets. This study explores the use of the Naica six-color Crystal dPCR platform for quantifying five GM soybean lines within a single six-plex assay. Two four-color assays were also developed for added flexibility. These assays demonstrated high specificity, sensitivity (limit of detection or LOD < 25 copies per reaction) and precision (bias to an estimated copy number concentration <15%). Additionally, two approaches for the optimization of data analysis were implemented. By applying a limit-of-blank (LOB) correction, the limit of quantification (LOQ) and LOD could be more precisely determined. Pooling of reactions additionally lowered the LOD, with a two- to eight-fold increase in sensitivity. Real-life samples from routine testing were used to confirm the assays' applicability for quantifying GM soybean lines in complex samples. This study showcases the potential of the six-color Crystal dPCR platform to revolutionize GMO testing, facilitating comprehensive analysis of GMOs in complex samples.
Language	English
Publishing date	2023-11-17
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2704223-6
ISSN	2304-8158
ISSN	2304-8158
DOI	10.3390/foods12224156
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Article ; Online: 6-Color Crystal Digital PCR

Madic, Jordan / Jovelet, Cécile / Dehri, Imane / Mallory, Allison C

Methods in molecular biology (Clifton, N.J.)

2021 Volume 2279, Page(s) 127–144

Abstract: The profiling of EGFR mutations, the most common genetic alterations in non-small cell lung cancer (NSCLC) predictive of targeted therapy efficacy, is crucial to anticipate the patient response to EGFR tyrosine kinase inhibitors. Here, we introduce the ... ...

Abstract	The profiling of EGFR mutations, the most common genetic alterations in non-small cell lung cancer (NSCLC) predictive of targeted therapy efficacy, is crucial to anticipate the patient response to EGFR tyrosine kinase inhibitors. Here, we introduce the naica
MeSH term(s)	Carcinoma, Non-Small-Cell Lung/blood ; Carcinoma, Non-Small-Cell Lung/genetics ; Circulating Tumor DNA/blood ; Circulating Tumor DNA/genetics ; ErbB Receptors/genetics ; Humans ; Lung Neoplasms/blood ; Lung Neoplasms/genetics ; Multiplex Polymerase Chain Reaction ; Mutation ; Neoplasm Proteins/genetics
Chemical Substances	Circulating Tumor DNA ; Neoplasm Proteins ; EGFR protein, human (EC 2.7.10.1) ; ErbB Receptors (EC 2.7.10.1)
Language	English
Publishing date	2021-03-08
Publishing country	United States
Document type	Journal Article
ISSN	1940-6029
ISSN (online)	1940-6029
DOI	10.1007/978-1-0716-1278-1_10
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Article: Correction to: Congenital pleuropulmonary blastoma in a newborn with a variant of uncertain significance in DICER1 evaluated by RNA-sequencing.

Lyle, Allison N J / Ohlsen, Timothy J D / Miller, Danny E / Brown, Gabrielle / Waligorski, Natalie / Stark, Rebecca / Taylor, Mallory R / Puia-Dumitrescu, Mihai

Maternal health, neonatology and perinatology

2023 Volume 9, Issue 1, Page(s) 7

Language	English
Publishing date	2023-05-25
Publishing country	England
Document type	Published Erratum
ZDB-ID	2809925-4
ISSN	2054-958X
ISSN	2054-958X
DOI	10.1186/s40748-023-00161-5
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Article ; Online: Validating MCM2 as a clinically relevant surrogate immunohistochemical marker for an aggressive meningioma molecular subtype.

Shelbourn, Allison / Nuechterlein, Nicholas / Parada, Carolina Angelica / Eaton, Jessica / Tucker, Mallory / Ferreira, Manuel / Cimino, Patrick J

Journal of neuropathology and experimental neurology

2023 Volume 82, Issue 12, Page(s) 1037–1039

MeSH term(s)	Humans ; Meningioma ; Meningeal Neoplasms ; Minichromosome Maintenance Complex Component 2
Chemical Substances	MCM2 protein, human (EC 3.6.4.12) ; Minichromosome Maintenance Complex Component 2 (EC 3.6.4.12)
Language	English
Publishing date	2023-10-13
Publishing country	England
Document type	Journal Article ; Research Support, N.I.H., Intramural
ZDB-ID	3088-0
ISSN	1554-6578 ; 0022-3069
ISSN (online)	1554-6578
ISSN	0022-3069
DOI	10.1093/jnen/nlad082
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Ui II Zs.134: Show issues			Location: Je nach Verfügbarkeit (siehe Angabe bei Bestand) bis Jg. 2021: Bestellungen von Artikeln über das Online-Bestellformular ab Jg. 2022: Lesesaal (EG)
Ui II Zs.194: Show issues			Location: Je nach Verfügbarkeit (siehe Angabe bei Bestand) bis Jg. 2021: Bestellungen von Artikeln über das Online-Bestellformular ab Jg. 2022: Lesesaal (EG)

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Article ; Online: Zika Virus Communication Preferences of Pregnant Women

Mallory Ellingson / Allison Chamberlain

Journal of the Georgia Public Health Association, Vol 7, Iss

Beyond the Verbal

2017 Volume 1

Abstract: Background: Pregnant women are frequently a priority group during public health emergencies, including the current Zika virus outbreak. These women turn to prenatal care providers for health information, but providers may not have the time for ... ...

Abstract	Background: Pregnant women are frequently a priority group during public health emergencies, including the current Zika virus outbreak. These women turn to prenatal care providers for health information, but providers may not have the time for discussions with every patient. Knowing alternative ways to communicate key Zika-related information to pregnant women is important. Methods: To determine pregnant women’s preferences for obtaining Zika information from their prenatal providers, a 27-item survey was administered to 408 pregnant women at four prenatal care clinics in Atlanta between May 5th, 2016 and June 20th, 2016. The anonymous survey evaluated women’s preferences for receiving information about three topics: Zika virus, maternal vaccines and safe medications. Chi-square and Fisher’s exact tests were used to determine statistical significance of associations between these topics and selected patient characteristics. Significance was evaluated at α=0.05. Results: Educational brochures (63.8%), e-mails (55.2%) and their provider’s practice website (40.2%) were women’s most preferred modalities for receiving information about Zika virus beyond verbal communication. Most women (73.2%) use the CDC website as their primary source of information about Zika virus; only 19.2% seek that information on their provider’s website. Conclusions: Conveying Zika-related information to pregnant women is essential. As public health practitioners create and refine provider-to-patient communications, they can use these findings to ensure their messages align with how women want to receive information (e.g., brochures, emails, provider websites) and take advantage of existing modalities (e.g. their own websites) that providers may not be fully utilizing. Key words: Zika virus, pregnancy, communication, internet, social media, prenatal care providers
Keywords	zika virus ; pregnancy ; communication ; internet ; social media ; prenatal care providers ; Public aspects of medicine ; RA1-1270
Subject code	360
Language	English
Publishing date	2017-07-01T00:00:00Z
Publisher	Georgia Southern University
Document type	Article ; Online
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Article ; Online: Beyond the verbal: Pregnant women's preferences for receiving influenza and Tdap vaccine information from their obstetric care providers.

Ellingson, Mallory / Chamberlain, Allison T

Human vaccines & immunotherapeutics

2018 Volume 14, Issue 3, Page(s) 767–771

Abstract: Objective: Prenatal providers are pregnant women's most trusted sources of health information, and a provider's recommendation is a strong predictor of maternal vaccine receipt. However, other ways women prefer receiving vaccine-related information from ...

Abstract	Objective: Prenatal providers are pregnant women's most trusted sources of health information, and a provider's recommendation is a strong predictor of maternal vaccine receipt. However, other ways women prefer receiving vaccine-related information from prenatal providers, aside from face-to-face conversations, is unclear. This study explores what secondary communication methods are preferred for receiving maternal vaccine-related information. Study design: Obstetric patients at four prenatal clinics around Atlanta, Georgia received a 27-item survey between May 5th, 2016 and June 15th, 2016. Participants were asked about sources they currently use to obtain prenatal health information and their preferences for receiving vaccine-related information from providers. Descriptive statistics were calculated and chi-square tests were used to evaluate associations between participant characteristics and outcomes. Results: Women primarily reported using the CDC website (57.7%) and pregnancy-related websites (53.0%) to obtain vaccine information. Apart from clinical conversations, educational brochures (64.9%) and e-mails (54.7%) were the preferred methods of receiving vaccine information from providers, followed by their provider's practice website (42.1%). Communication preferences and interest in maternal immunization varied by race/ethnicity, age and education; white women were twice as likely to want information on a provider's practice website compared to African-American women (OR = 2.06; 95% CI: 1.31, 3.25). Conclusions: Pregnant women use the Internet for information about vaccines, but they still value input from their providers. While e-mails and brochures were the preferred secondary modes of receiving information, a provider's existing practice website offers a potential communications medium that capitalizes on women's information seeking behaviors and preferences while limiting burden on providers.
MeSH term(s)	Adolescent ; Adult ; African Americans ; Communication ; Diphtheria-Tetanus-acellular Pertussis Vaccines/immunology ; Female ; Georgia ; Health Knowledge, Attitudes, Practice ; Humans ; Immunization/methods ; Influenza Vaccines/immunology ; Influenza, Human/immunology ; Influenza, Human/prevention & control ; Internet ; Patient Acceptance of Health Care ; Pregnancy ; Pregnancy Complications, Infectious/immunology ; Pregnancy Complications, Infectious/prevention & control ; Pregnant Women ; Vaccination/methods ; Young Adult
Chemical Substances	Diphtheria-Tetanus-acellular Pertussis Vaccines ; Influenza Vaccines
Language	English
Publishing date	2018-02-12
Publishing country	United States
Document type	Journal Article ; Research Support, U.S. Gov't, P.H.S.
ZDB-ID	2664176-8
ISSN	2164-554X ; 2164-5515
ISSN (online)	2164-554X
ISSN	2164-5515
DOI	10.1080/21645515.2018.1425114
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Article ; Online: Correction to

Allison N. J. Lyle / Timothy J. D. Ohlsen / Danny E. Miller / Gabrielle Brown / Natalie Waligorski / Rebecca Stark / Mallory R. Taylor / Mihai Puia‑Dumitrescu

Maternal Health, Neonatology and Perinatology, Vol 9, Iss 1, Pp 1-

Congenital pleuropulmonary blastoma in a newborn with a variant of uncertain significance in DICER1 evaluated by RNA-sequencing

2023 Volume 1

Keywords	Medicine ; R
Language	English
Publishing date	2023-05-01T00:00:00Z
Publisher	BMC
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article: Congenital pleuropulmonary blastoma in a newborn with a variant of uncertain significance in DICER1 evaluated by RNA-sequencing.

Lyle, Allison N J / Ohlsen, Timothy J D / Miller, Danny E / Brown, Gabrielle / Waligorski, Natalie / Stark, Rebecca / Taylor, Mallory R / Puia-Dumitrescu, Mihai

Maternal health, neonatology and perinatology

2023 Volume 9, Issue 1, Page(s) 4

Abstract: Background: Pleuropulmonary blastoma (PPB) is a rare mesenchymal malignancy of the lung and is the most common pulmonary malignancy in infants and children. Cystic PPB, the earliest form of PPB occurring from birth to approximately two years of age, is ... ...

Abstract	Background: Pleuropulmonary blastoma (PPB) is a rare mesenchymal malignancy of the lung and is the most common pulmonary malignancy in infants and children. Cystic PPB, the earliest form of PPB occurring from birth to approximately two years of age, is often mistaken for a congenital pulmonary airway malformation, as the two entities can be difficult to distinguish on imaging and pathology. Diagnosis of PPB should prompt workup for DICER1 syndrome, an autosomal dominant tumor predisposition syndrome. We report a newborn with a congenital PPB presenting with tachypnea and hypoxia, who was found to have variant of uncertain clinical significance (VUS) in DICER1. Case presentation: A term female infant developed respiratory distress shortly after birth. Initial imaging was concerning for a congenital pulmonary airway malformation versus congenital diaphragmatic hernia, and she was transferred to a quaternary neonatal intensive care unit for management and workup. Chest CT angiography demonstrated a macrocytic multicystic lesion within the right lower lobe without systemic arterial supply. The pediatric surgery team was consulted, and the neonate underwent right lower lobectomy. Pathology revealed a type I PPB. Oncology and genetics consultants recommended observation without chemotherapy and single gene sequencing of DICER1, which identified a germline VUS in DICER1 predicted to alter splicing. RNA-sequencing from blood demonstrated that the variant resulted in an in-frame deletion of 29 amino acids in a majority of transcripts from the affected allele. Due to the patient's young age at presentation and high clinical suspicion for DICER1 syndrome, tumor surveillance was initiated. Renal and pelvic ultrasonography were unremarkable. Conclusion: We present the case of a term neonate with respiratory distress and cystic lung mass, found to have a type I PPB with a germline VUS in DICER1 that likely increased her risk of DICER1-related tumors. Nearly 70% of patients with PPB demonstrate germline mutations in DICER1. Review of RNA sequencing data demonstrates the difficulty in classifying splice variants such as this. Penetrance is low, and many patients with pathogenic DICER1 variants do not develop a malignancy. Best practice surgical and oncologic recommendations include an individualized approach and tumor board discussion. This case highlights the importance of a multidisciplinary team approach and the utility of international registries for patients with rare diagnoses.
Language	English
Publishing date	2023-03-16
Publishing country	England
Document type	Journal Article
ZDB-ID	2809925-4
ISSN	2054-958X
ISSN	2054-958X
DOI	10.1186/s40748-023-00148-2
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Article ; Online: LncRNAs in vertebrates: advances and challenges.

Mallory, Allison C / Shkumatava, Alena

Biochimie

2015 Volume 117, Page(s) 3–14

Abstract: Beyond the handful of classic and well-characterized long noncoding RNAs (lncRNAs), more recently, hundreds of thousands of lncRNAs have been identified in multiple species including bacteria, plants and vertebrates, and the number of newly annotated ... ...

Abstract	Beyond the handful of classic and well-characterized long noncoding RNAs (lncRNAs), more recently, hundreds of thousands of lncRNAs have been identified in multiple species including bacteria, plants and vertebrates, and the number of newly annotated lncRNAs continues to increase as more transcriptomes are analyzed. In vertebrates, the expression of many lncRNAs is highly regulated, displaying discrete temporal and spatial expression patterns, suggesting roles in a wide range of developmental processes and setting them apart from classic housekeeping ncRNAs. In addition, the deregulation of a subset of these lncRNAs has been linked to the development of several diseases, including cancers, as well as developmental anomalies. However, the majority of vertebrate lncRNA functions remain enigmatic. As such, a major task at hand is to decipher the biological roles of lncRNAs and uncover the regulatory networks upon which they impinge. This review focuses on our emerging understanding of lncRNAs in vertebrate animals, highlighting some recent advances in their functional analyses across several species and emphasizing the current challenges researchers face to characterize lncRNAs and identify their in vivo functions.
MeSH term(s)	Animals ; Chromatin/genetics ; Disease/genetics ; Gene Expression Regulation ; Humans ; Neoplasms/genetics ; Proteins/genetics ; Proteins/metabolism ; RNA, Long Noncoding/genetics ; Vertebrates/genetics ; Vertebrates/metabolism
Chemical Substances	Chromatin ; Proteins ; RNA, Long Noncoding
Language	English
Publishing date	2015-03-24
Publishing country	France
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Review
ZDB-ID	120345-9
ISSN	1638-6183 ; 0300-9084
ISSN (online)	1638-6183
ISSN	0300-9084
DOI	10.1016/j.biochi.2015.03.014
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