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Article ; Online: Improved SARS-CoV-2 M

Vuong, Wayne / Fischer, Conrad / Khan, Muhammad Bashir / van Belkum, Marco J / Lamer, Tess / Willoughby, Kurtis D / Lu, Jimmy / Arutyunova, Elena / Joyce, Michael A / Saffran, Holly A / Shields, Justin A / Young, Howard S / Nieman, James A / Tyrrell, D Lorne / Lemieux, M Joanne / Vederas, John C

European journal of medicinal chemistry

2021 Volume 222, Page(s) 113584

Abstract: Replication of SARS-CoV-2, the coronavirus causing COVID-19, requires a main protease (M ...

Abstract	Replication of SARS-CoV-2, the coronavirus causing COVID-19, requires a main protease (M
MeSH term(s)	Animals ; Antiviral Agents/chemical synthesis ; Antiviral Agents/metabolism ; Antiviral Agents/pharmacology ; Binding Sites ; Chlorocebus aethiops ; Coronavirus 3C Proteases/antagonists & inhibitors ; Coronavirus 3C Proteases/chemistry ; Coronavirus 3C Proteases/metabolism ; Crystallography, X-Ray ; Cysteine Proteinase Inhibitors/chemical synthesis ; Cysteine Proteinase Inhibitors/metabolism ; Cysteine Proteinase Inhibitors/pharmacology ; Humans ; Micelles ; Microbial Sensitivity Tests ; Molecular Structure ; Protein Binding ; Pyrrolidines/chemical synthesis ; Pyrrolidines/metabolism ; Pyrrolidines/pharmacology ; SARS-CoV-2/drug effects ; SARS-CoV-2/enzymology ; Solubility ; Structure-Activity Relationship ; Sulfonic Acids/chemical synthesis ; Sulfonic Acids/metabolism ; Sulfonic Acids/pharmacology ; Vero Cells
Chemical Substances	Antiviral Agents ; Cysteine Proteinase Inhibitors ; Micelles ; Pyrrolidines ; Sulfonic Acids ; 3C-like proteinase, SARS-CoV-2 (EC 3.4.22.-) ; Coronavirus 3C Proteases (EC 3.4.22.28) ; GC376 (H1NMJ5XDG5)
Language	English
Publishing date	2021-05-30
Publishing country	France
Document type	Journal Article ; Review
ZDB-ID	188597-2
ISSN	1768-3254 ; 0009-4374 ; 0223-5234
ISSN (online)	1768-3254
ISSN	0009-4374 ; 0223-5234
DOI	10.1016/j.ejmech.2021.113584
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Article ; Online: dTrmt10A impacts Hsp70 chaperone m

Perlegos, Alexandra E / Quan, Xiuming / Donnelly, Kirby M / Shen, Hui / Shields, Emily J / Elashal, Heidi / Fange Liu, Kathy / Bonini, Nancy M

Scientific reports

2023 Volume 13, Issue 1, Page(s) 22999

Abstract: Chronic cellular stress has a profound impact on the brain, leading to degeneration and accelerated aging. Recent work has revealed the vital role of RNA modifications, and the proteins responsible for regulating them, in the stress response. In our ... ...

Abstract	Chronic cellular stress has a profound impact on the brain, leading to degeneration and accelerated aging. Recent work has revealed the vital role of RNA modifications, and the proteins responsible for regulating them, in the stress response. In our study, we defined the role of CG14618/dTrmt10A, the Drosophila counterpart of human TRMT10A a N
MeSH term(s)	Animals ; Humans ; Drosophila/genetics ; HSP70 Heat-Shock Proteins/genetics ; HSP70 Heat-Shock Proteins/metabolism ; Molecular Chaperones/metabolism ; Methyltransferases/genetics ; Methyltransferases/metabolism ; Brain/metabolism ; RNA
Chemical Substances	HSP70 Heat-Shock Proteins ; Molecular Chaperones ; Methyltransferases (EC 2.1.1.-) ; RNA (63231-63-0) ; TRMT10A protein, human (EC 2.1.1.-)
Language	English
Publishing date	2023-12-28
Publishing country	England
Document type	Journal Article
ZDB-ID	2615211-3
ISSN	2045-2322 ; 2045-2322
ISSN (online)	2045-2322
ISSN	2045-2322
DOI	10.1038/s41598-023-50272-4
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Article ; Online: Mettl3-dependent m

Perlegos, Alexandra E / Shields, Emily J / Shen, Hui / Liu, Kathy Fange / Bonini, Nancy M

Nature communications

2022 Volume 13, Issue 1, Page(s) 5387

Abstract: ... ...

Abstract	N
MeSH term(s)	Adenosine/metabolism ; Animals ; Brain/metabolism ; Drosophila/genetics ; Drosophila/metabolism ; Methylation ; RNA, Messenger/metabolism
Chemical Substances	RNA, Messenger ; Adenosine (K72T3FS567)
Language	English
Publishing date	2022-09-14
Publishing country	England
Document type	Journal Article ; Research Support, N.I.H., Extramural
ZDB-ID	2553671-0
ISSN	2041-1723 ; 2041-1723
ISSN (online)	2041-1723
ISSN	2041-1723
DOI	10.1038/s41467-022-33085-3
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Article ; Online: Carcinogen 4-Nitroquinoline Oxide (4-NQO) Induces Oncostatin-M (OSM) in Esophageal Cells.

Mukherjee, Amitava / Epperly, Michael W / Fisher, Renee / Shields, Donna / Hou, Wen / Pennathur, Arjun / Luketich, James / Wang, Hong / Greenberger, Joel S

In vivo (Athens, Greece)

2023 Volume 37, Issue 2, Page(s) 506–518

Abstract: ... by luciferase imaging of p16: Results: A significant increase in the levels of RNA for oncostatin-M was found ...

Abstract	Background/aim: The earliest cellular and molecular biologic changes in the esophagus that lead to esophageal cancer were evaluated in a mouse model. We correlated numbers of senescent cells with the levels of expression of potentially carcinogenic genes in sorted side population (SP) cells containing esophageal stem cells and non-stem cells in the non-side population cells in the 4-nitroquinolone oxide (NQO)-treated esophagus. Materials and methods: We compared stem cells with non-stem cells from the esophagus of mice treated with the chemical carcinogen 4-NQO (100 μg/ml) in drinking water. We also compared gene expression in human esophagus samples treated with 4-NQO (100 μg/ml media) to non-treated samples. We separated and quantitated the relative levels of expression of RNA using RNAseq analysis. We identified senescent cells by luciferase imaging of p16 Results: A significant increase in the levels of RNA for oncostatin-M was found in senescent cells of the esophagus from 4-NQO-treated mice and human esophagus in vitro. Conclusion: Induction of OSM in chemically-induced esophageal cancer in mice correlates with the appearance of senescent cells.
MeSH term(s)	Humans ; Animals ; Mice ; Carcinogens ; Oxides ; Mutagens ; Esophageal Neoplasms/chemically induced ; Esophageal Neoplasms/genetics ; Nitroquinolines ; RNA ; Oncostatin M
Chemical Substances	Carcinogens ; Oxides ; Mutagens ; Nitroquinolines ; RNA (63231-63-0) ; OSM protein, human ; Oncostatin M (106956-32-5)
Language	English
Publishing date	2023-03-07
Publishing country	Greece
Document type	Journal Article
ZDB-ID	807031-3
ISSN	1791-7549 ; 0258-851X
ISSN (online)	1791-7549
ISSN	0258-851X
DOI	10.21873/invivo.13108
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Article: Tributes to J. Donald M. Gass, M.D.

Brucker, Alexander J / Yannuzzi, Lawrence A / Green, W Richard / Shields, Jerry A / Jampol, Lee M / Singerman, Lawrence J

Retina (Philadelphia, Pa.)

2004 Volume 23, Issue 6 Suppl, Page(s) S2–12

MeSH term(s)	History, 20th Century ; History, 21st Century ; Humans ; Ophthalmology/history ; United States
Language	English
Publishing date	2004-03-01
Publishing country	United States
Document type	Biography ; Historical Article ; Journal Article
ZDB-ID	603192-4
ISSN	1539-2864 ; 0275-004X
ISSN (online)	1539-2864
ISSN	0275-004X
DOI	10.1097/00006982-200312001-00002
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Article ; Online: Characterization and immunogenicity of a novel mosaic M HIV-1 gp140 trimer.

Nkolola, Joseph P / Bricault, Christine A / Cheung, Ann / Shields, Jennifer / Perry, James / Kovacs, James M / Giorgi, Elena / van Winsen, Margot / Apetri, Adrian / Brinkman-van der Linden, Els C M / Chen, Bing / Korber, Bette / Seaman, Michael S / Barouch, Dan H

Journal of virology

2014 Volume 88, Issue 17, Page(s) 9538–9552

Abstract: ... immunogenicity. Here, we report the production and characterization of a stable HIV-1 mosaic M gp140 Env trimer ... The mosaic M trimer bound CD4 as well as multiple broadly neutralizing monoclonal antibodies, and biophysical ... characterization suggested substantial stability. The mosaic M trimer elicited higher neutralizing antibody (nAb ...

Abstract	Unlabelled: The extraordinary diversity of the human immunodeficiency virus type 1 (HIV-1) envelope (Env) glycoprotein poses a major challenge for the development of an HIV-1 vaccine. One strategy to circumvent this problem utilizes bioinformatically optimized mosaic antigens. However, mosaic Env proteins expressed as trimers have not been previously evaluated for their stability, antigenicity, and immunogenicity. Here, we report the production and characterization of a stable HIV-1 mosaic M gp140 Env trimer. The mosaic M trimer bound CD4 as well as multiple broadly neutralizing monoclonal antibodies, and biophysical characterization suggested substantial stability. The mosaic M trimer elicited higher neutralizing antibody (nAb) titers against clade B viruses than a previously described clade C (C97ZA.012) gp140 trimer in guinea pigs, whereas the clade C trimer elicited higher nAb titers than the mosaic M trimer against clade A and C viruses. A mixture of the clade C and mosaic M trimers elicited nAb responses that were comparable to the better component of the mixture for each virus tested. These data suggest that combinations of relatively small numbers of immunologically complementary Env trimers may improve nAb responses. Importance: The development of an HIV-1 vaccine remains a formidable challenge due to multiple circulating strains of HIV-1 worldwide. This study describes a candidate HIV-1 Env protein vaccine whose sequence has been designed by computational methods to address HIV-1 diversity. The characteristics and immunogenicity of this Env protein, both alone and mixed together with a clade C Env protein vaccine, are described.
MeSH term(s)	Animals ; Antibodies, Neutralizing/blood ; Antibodies, Neutralizing/metabolism ; CD4 Antigens/metabolism ; Female ; Guinea Pigs ; HIV Antibodies/blood ; HIV Antibodies/metabolism ; HIV-1/genetics ; HIV-1/immunology ; Protein Binding ; Recombinant Proteins/genetics ; Recombinant Proteins/immunology ; Recombinant Proteins/metabolism ; env Gene Products, Human Immunodeficiency Virus/genetics ; env Gene Products, Human Immunodeficiency Virus/immunology ; env Gene Products, Human Immunodeficiency Virus/metabolism
Chemical Substances	Antibodies, Neutralizing ; CD4 Antigens ; HIV Antibodies ; Recombinant Proteins ; env Gene Products, Human Immunodeficiency Virus ; gp140 envelope protein, Human immunodeficiency virus 1
Language	English
Publishing date	2014-06-25
Publishing country	United States
Document type	Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
ZDB-ID	80174-4
ISSN	1098-5514 ; 0022-538X
ISSN (online)	1098-5514
ISSN	0022-538X
DOI	10.1128/JVI.01739-14
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Book ; Online: The Development of a Labelled te reo M\=aori-English Bilingual Database for Language Technology

James, Jesin / Shields, Isabella / Yogarajan, Vithya / Keegan, Peter J. / Watson, Catherine / Jones, Peter-Lucas / Mahelona, Keoni

2022

Abstract: Te reo M\=aori (referred to as M\=aori), New Zealand's indigenous language, is under-resourced ... in language technology. M\=aori speakers are bilingual, where M\=aori is code-switched with English ... Unfortunately, there are minimal resources available for M\=aori language technology, language detection and ...

Abstract	Te reo M\=aori (referred to as M\=aori), New Zealand's indigenous language, is under-resourced in language technology. M\=aori speakers are bilingual, where M\=aori is code-switched with English. Unfortunately, there are minimal resources available for M\=aori language technology, language detection and code-switch detection between M\=aori-English pair. Both English and M\=aori use Roman-derived orthography making rule-based systems for detecting language and code-switching restrictive. Most M\=aori language detection is done manually by language experts. This research builds a M\=aori-English bilingual database of 66,016,807 words with word-level language annotation. The New Zealand Parliament Hansard debates reports were used to build the database. The language labels are assigned using language-specific rules and expert manual annotations. Words with the same spelling, but different meanings, exist for M\=aori and English. These words could not be categorised as M\=aori or English based on word-level language rules. Hence, manual annotations were necessary. An analysis reporting the various aspects of the database such as metadata, year-wise analysis, frequently occurring words, sentence length and N-grams is also reported. The database developed here is a valuable tool for future language and speech technology development for Aotearoa New Zealand. The methodology followed to label the database can also be followed by other low-resourced language pairs. Comment: Submitted to Springer Language Resources and Evaluation Journal 2022
Keywords	Computer Science - Computation and Language
Publishing date	2022-08-20
Publishing country	us
Document type	Book ; Online
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Article ; Online: Conjunctival Tumors: Review of Clinical Features, Risks, Biomarkers, and Outcomes--The 2017 J. Donald M. Gass Lecture.

Shields, Carol L / Chien, Jason L / Surakiatchanukul, Thamolwan / Sioufi, Kareem / Lally, Sara E / Shields, Jerry A

Asia-Pacific journal of ophthalmology (Philadelphia, Pa.)

2017 Volume 6, Issue 2, Page(s) 109–120

Abstract: Conjunctival tumors encompass a broad range of diagnoses. The 3 most important malignant tumors include ocular surface squamous neoplasia (OSSN) (14%), melanoma (12%), and lymphoma (7%). Conjunctival malignancies are rarely found in children. Regarding ... ...

Abstract	Conjunctival tumors encompass a broad range of diagnoses. The 3 most important malignant tumors include ocular surface squamous neoplasia (OSSN) (14%), melanoma (12%), and lymphoma (7%). Conjunctival malignancies are rarely found in children. Regarding OSSN, pre-disposing conditions include chronic solar radiation, immune deficiency (HIV), organ transplant, autoimmune conditions, xeroderma pigmentosum, and chronic exposure to cigarette smoke. OSSN is managed surgically or with topical/injection immunotherapy or chemotherapy. Metastasis occurs in <1%. Regarding melanoma, predisposing conditions include primary acquired melanosis (PAM), chronic nevus, and chronic solar radiation. Treatment of PAM or nevus can prevent melanoma. Melanoma management involves surgical resection with clean margins and avoidance of direct tumor manipulation ("no touch" technique). The first surgery is most important, to minimize tumor seeding. Biomarkers including BRAF, TERT, and PTEN provide information regarding risk for metastasis and allow for targeted antibiomarker therapies. Ten-year risk for melanoma metastasis is 25%. Tumors >2 mm thickness or those located in fornix, caruncle, or orbit are at highest risk for metastasis. Regarding lymphoma, predisposing conditions include benign reactive lymphoid hyperplasia, immune deficiency (HIV), immune dysfunction, and chronic inflammation/infection (Helicobacter pylori, Chlamydia psittaci). The 4 most important subtypes include extranodal marginal zone lymphoma (ENMZL), follicular lymphoma, mantle cell lymphoma (MCL), and diffuse large B-cell lymphoma. Treatment includes surgical resection, cryotherapy, radiotherapy, systemic chemotherapy, or targeted anti-B-cell therapy (rituximab). Lymphoma-related survival (5-year) depends on subtype and ranges from 97% (ENMZL) to 9% (MCL). Recognizing conjunctival tumors and understanding predisposing factors, biomarkers, and treatment strategies are vital to patient outcomes.
MeSH term(s)	Conjunctiva/pathology ; Conjunctival Neoplasms/diagnosis ; Humans ; Neoplasm Staging
Language	English
Publishing date	2017-03-29
Publishing country	United States
Document type	Lecture
ZDB-ID	2756329-7
ISSN	2162-0989 ; 2162-0989
ISSN (online)	2162-0989
ISSN	2162-0989
DOI	10.22608/APO.201710
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Article ; Online: Results of an RCT in Two Pediatric Emergency Departments to Evaluate the Efficacy of an m-Health Educational App on Car Seat Use.

Gielen, Andrea C / Bishai, David M / Omaki, Elise / Shields, Wendy C / McDonald, Eileen M / Rizzutti, Nicholas C / Case, James / Stevens, Molly W / Aitken, Mary E

American journal of preventive medicine

2018 Volume 54, Issue 6, Page(s) 746–755

Abstract: Introduction: The growing interest in incorporating prevention into emergency health care make it timely to examine the use of computer technology to efficiently deliver effective education in this setting.: Study design: This RCT compared results ... ...

Abstract	Introduction: The growing interest in incorporating prevention into emergency health care make it timely to examine the use of computer technology to efficiently deliver effective education in this setting. Study design: This RCT compared results from an intervention group (n=367) that received child passenger safety information, to an attention-matched control (n=375). A baseline survey and two follow-up surveys at 3 and 6 months were conducted. Setting/participants: Data were collected from June 2014 to September 2016 from a sample of parents with children aged 4-7 years recruited from a pediatric emergency department in an East Coast urban area and one in a Midwest semi-rural area. Intervention: A theory-based, stage-tailored educational program, Safety in Seconds v2.0 Main outcome measures: Four car seat behaviors: (1) having the correct restraint for the child's age and weight; (2) having the child ride in the backseat all the time; (3) buckling up the child all the time; and (4) having the child's restraint inspected by a child passenger safety technician. Results: At 3 months, adjusting for baseline behaviors and attrition, the odds of reporting the correct behavior by the intervention group relative to the control group was 2.07 (p<0.01) for using the correct car seat; 2.37 (p<0.05) times for having the child ride in the back seat; 1.04 (nonsignificant) for riding buckled up all the time; and 1.99 (p<0.01) times for having the car seat inspected. At 6 months, there were statistically significant effects for reporting use of the correct car seat (OR=1.84, p<0.01) and having the car seat inspected (OR=1.73, p<0.01). Conclusions: Mobile apps hold promise for reaching large populations with individually tailored child passenger safety education. Trial registration: Clinical Trial Registration # NCT02345941.
MeSH term(s)	Adult ; Child ; Child Restraint Systems ; Child, Preschool ; Emergency Service, Hospital ; Female ; Health Education/methods ; Humans ; Male ; Mobile Applications ; Parents/education ; Telemedicine/methods
Language	English
Publishing date	2018-04-12
Publishing country	Netherlands
Document type	Journal Article ; Randomized Controlled Trial
ZDB-ID	632646-8
ISSN	1873-2607 ; 0749-3797
ISSN (online)	1873-2607
ISSN	0749-3797
DOI	10.1016/j.amepre.2018.01.042
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Article ; Online: Commentary on Roohafza H, Pirnia A, Sadeghi M, Toghianifar N, Talaei M & Ashrafi M (2009) Impact of nurses clothing on anxiety of hospitalised children. Journal of Clinical Nursing 18, 1953-1959.

Shields, Linda

Journal of clinical nursing

2009 Volume 18, Issue 21, Page(s) 3064–3065

MeSH term(s)	Anxiety ; Child ; Clothing ; Hospitalization ; Humans ; Nurses
Language	English
Publishing date	2009-11
Publishing country	England
Document type	Comment ; Journal Article
ZDB-ID	1159483-4
ISSN	1365-2702 ; 0962-1067 ; 1752-9816
ISSN (online)	1365-2702
ISSN	0962-1067 ; 1752-9816
DOI	10.1111/j.1365-2702.2009.02919.x
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