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Current Approaches of Building Mechanistic Pharmacodynamic Drug-Target Binding Models.

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

Liang J, Tran VN, Hemez C, Abel Zur Wiesch P.
PMID: 34888713
Methods Mol Biol. 2022;2385:1-17. doi: 10.1007/978-1-0716-1767-0_1.

Mechanistic pharmacodynamic models that incorporate the binding kinetics of drug-target interactions have several advantages in understanding target engagement and the efficacy of a drug dose. However, guidelines on how to build and interpret mechanistic pharmacodynamic drug-target binding models considering...

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Liang J, Tran VN, Hemez C, et al. Current Approaches of Building Mechanistic Pharmacodynamic Drug-Target Binding Models. Methods Mol Biol. 2022;2385:1-17doi: 10.1007/978-1-0716-1767-0_1.
Liang, J., Tran, V. N., Hemez, C., & Abel Zur Wiesch, P. (2022). Current Approaches of Building Mechanistic Pharmacodynamic Drug-Target Binding Models. Methods in molecular biology (Clifton, N.J.), 23851-17. https://doi.org/10.1007/978-1-0716-1767-0_1
Liang, Jingyi, et al. "Current Approaches of Building Mechanistic Pharmacodynamic Drug-Target Binding Models." Methods in molecular biology (Clifton, N.J.) vol. 2385 (2022): 1-17. doi: https://doi.org/10.1007/978-1-0716-1767-0_1
Liang J, Tran VN, Hemez C, Abel Zur Wiesch P. Current Approaches of Building Mechanistic Pharmacodynamic Drug-Target Binding Models. Methods Mol Biol. 2022;2385:1-17. doi: 10.1007/978-1-0716-1767-0_1. PMID: 34888713.
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Oral Cholera Vaccine Efficacy and Effectiveness.

Vaccines

Song KR, Lim JK, Park SE, Saluja T, Cho SI, Wartel TA, Lynch J.
PMID: 34960228
Vaccines (Basel). 2021 Dec 15;9(12). doi: 10.3390/vaccines9121482.

Although measuring vaccine efficacy through the conventional phase III study design, randomized, double-blinded controlled trial serves as the "gold standard", effectiveness studies, conducted in the context of a public health program, seek to broaden the understanding of the impact...

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Song KR, Lim JK, Park SE, et al. Oral Cholera Vaccine Efficacy and Effectiveness. Vaccines (Basel). 2021;9(12)doi: 10.3390/vaccines9121482.
Song, K. R., Lim, J. K., Park, S. E., Saluja, T., Cho, S. I., Wartel, T. A., & Lynch, J. (2021). Oral Cholera Vaccine Efficacy and Effectiveness. Vaccines, 9(12), . https://doi.org/10.3390/vaccines9121482
Song, Katerina Rok, et al. "Oral Cholera Vaccine Efficacy and Effectiveness." Vaccines vol. 9,12 (2021). doi: https://doi.org/10.3390/vaccines9121482
Song KR, Lim JK, Park SE, Saluja T, Cho SI, Wartel TA, Lynch J. Oral Cholera Vaccine Efficacy and Effectiveness. Vaccines (Basel). 2021 Dec 15;9(12). doi: 10.3390/vaccines9121482. PMID: 34960228.
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Complete Genome Sequence of Burkholderia cenocepacia Phage Magia.

Microbiology resource announcements

Gafford-Gaby D, Yao G, Le T, Clark J, Gonzalez C, Gill J, Liu M.
PMID: 33574112
Microbiol Resour Announc. 2021 Feb 11;10(6). doi: 10.1128/MRA.01473-20.

No abstract available.

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Gafford-Gaby D, Yao G, Le T, et al. Complete Genome Sequence of Burkholderia cenocepacia Phage Magia. Microbiol Resour Announc. 2021;10(6)doi: 10.1128/MRA.01473-20.
Gafford-Gaby, D., Yao, G., Le, T., Clark, J., Gonzalez, C., Gill, J., & Liu, M. (2021). Complete Genome Sequence of Burkholderia cenocepacia Phage Magia. Microbiology resource announcements, 10(6), . https://doi.org/10.1128/MRA.01473-20
Gafford-Gaby, David, et al. "Complete Genome Sequence of Burkholderia cenocepacia Phage Magia." Microbiology resource announcements vol. 10,6 (2021). doi: https://doi.org/10.1128/MRA.01473-20
Gafford-Gaby D, Yao G, Le T, Clark J, Gonzalez C, Gill J, Liu M. Complete Genome Sequence of Burkholderia cenocepacia Phage Magia. Microbiol Resour Announc. 2021 Feb 11;10(6). doi: 10.1128/MRA.01473-20. PMID: 33574112; PMCID: PMC7883833.
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The concentration and health risk assessment of radionuclides in the muscle of tuna fish: A worldwide systematic review and meta-analysis.

Chemosphere

Fakhri Y, Sarafraz M, Pilevar Z, Daraei H, Rahimizadeh A, Kazemi S, Khedher KM, Thai VN, Ba LH, Mousavi Khaneghah A.
PMID: 34871618
Chemosphere. 2022 Feb;289:133149. doi: 10.1016/j.chemosphere.2021.133149. Epub 2021 Dec 03.

Exposure to radionuclides, especially in food, can endanger the health of consumers. In this study, a systematic review and meta-analysis were performed regarding the concentration of radionuclides in tuna fish muscle. International databases including PubMed, Scopus, and Embase were...

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Fakhri Y, Sarafraz M, Pilevar Z, et al. The concentration and health risk assessment of radionuclides in the muscle of tuna fish: A worldwide systematic review and meta-analysis. Chemosphere. 2021;289:133149doi: 10.1016/j.chemosphere.2021.133149.
Fakhri, Y., Sarafraz, M., Pilevar, Z., Daraei, H., Rahimizadeh, A., Kazemi, S., Khedher, K. M., Thai, V. N., Ba, L. H., & Mousavi Khaneghah, A. (2022). The concentration and health risk assessment of radionuclides in the muscle of tuna fish: A worldwide systematic review and meta-analysis. Chemosphere, 289133149. https://doi.org/10.1016/j.chemosphere.2021.133149
Fakhri, Yadolah, et al. "The concentration and health risk assessment of radionuclides in the muscle of tuna fish: A worldwide systematic review and meta-analysis." Chemosphere vol. 289 (2022): 133149. doi: https://doi.org/10.1016/j.chemosphere.2021.133149
Fakhri Y, Sarafraz M, Pilevar Z, Daraei H, Rahimizadeh A, Kazemi S, Khedher KM, Thai VN, Ba LH, Mousavi Khaneghah A. The concentration and health risk assessment of radionuclides in the muscle of tuna fish: A worldwide systematic review and meta-analysis. Chemosphere. 2022 Feb;289:133149. doi: 10.1016/j.chemosphere.2021.133149. Epub 2021 Dec 03. PMID: 34871618.
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Complete Genome Sequence of Klebsiella pneumoniae Podophage Pone.

Microbiology resource announcements

Lo J, Lessor L, Clark J, Le T, Gill JJ, Liu M.
PMID: 34042488
Microbiol Resour Announc. 2021 May 27;10(21):e0140520. doi: 10.1128/MRA.01405-20. Epub 2021 May 27.

Klebsiella pneumoniae is a Gram-negative pathogen that has become increasingly antibiotic resistant. Phage therapy is potentially a useful approach to controlling this pathogen. Here, we present the genome sequence of the phiKMV-like K. pneumoniae podophage Pone.

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Lo J, Lessor L, Clark J, et al. Complete Genome Sequence of Klebsiella pneumoniae Podophage Pone. Microbiol Resour Announc. 2021;10(21):e0140520doi: 10.1128/MRA.01405-20.
Lo, J., Lessor, L., Clark, J., Le, T., Gill, J. J., & Liu, M. (2021). Complete Genome Sequence of Klebsiella pneumoniae Podophage Pone. Microbiology resource announcements, 10(21), e0140520. https://doi.org/10.1128/MRA.01405-20
Lo, Johnathan, et al. "Complete Genome Sequence of Klebsiella pneumoniae Podophage Pone." Microbiology resource announcements vol. 10,21 (2021): e0140520. doi: https://doi.org/10.1128/MRA.01405-20
Lo J, Lessor L, Clark J, Le T, Gill JJ, Liu M. Complete Genome Sequence of Klebsiella pneumoniae Podophage Pone. Microbiol Resour Announc. 2021 May 27;10(21):e0140520. doi: 10.1128/MRA.01405-20. Epub 2021 May 27. PMID: 34042488; PMCID: PMC8201637.
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Minimally invasive treatment of abdominal lymphocele: A review of contemporary options and how to approach them.

Lymphology

Khorshidi F, Majdalany BS, Peters G, Tran AN, Shaikh J, Liddell RP, Perez Lozada JC, Kokabi N, Nezami N.
PMID: 34735751
Lymphology. 2021;54(2):56-67.

Lymphoceles are lymphatic fluid collections resulting from lymphatic vessel disruption after surgery or trauma. They are most often described following retroperitoneal surgeries such as cystectomies, prostatectomies, renal transplants, and gynecologic surgeries. Most lymphoceles are asymptomatic and resolve spontaneously without...

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Khorshidi F, Majdalany BS, Peters G, et al. Minimally invasive treatment of abdominal lymphocele: A review of contemporary options and how to approach them. Lymphology. 2021;54(2):56-67
Khorshidi, F., Majdalany, B. S., Peters, G., Tran, A. N., Shaikh, J., Liddell, R. P., Perez Lozada, J. C., Kokabi, N., & Nezami, N. (2021). Minimally invasive treatment of abdominal lymphocele: A review of contemporary options and how to approach them. Lymphology, 54(2), 56-67.
Khorshidi, F, et al. "Minimally invasive treatment of abdominal lymphocele: A review of contemporary options and how to approach them." Lymphology vol. 54,2 (2021): 56-67.
Khorshidi F, Majdalany BS, Peters G, Tran AN, Shaikh J, Liddell RP, Perez Lozada JC, Kokabi N, Nezami N. Minimally invasive treatment of abdominal lymphocele: A review of contemporary options and how to approach them. Lymphology. 2021;54(2):56-67. PMID: 34735751.
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No evidence of aberrant amyloid β and phosphorylated tau expression in herpes simplex virus-infected neurons of the trigeminal ganglia and brain.

Brain pathology (Zurich, Switzerland)

Tran DN, Bakx ATCM, van Dis V, Aronica E, Verdijk RM, Ouwendijk WJD.
PMID: 34913212
Brain Pathol. 2021 Dec 16;e13044. doi: 10.1111/bpa.13044. Epub 2021 Dec 16.

Increasing evidence supports the role of neurotropic herpes simplex virus 1 (HSV-1) in the pathogenesis of Alzheimer's disease (AD). However, it is unclear whether previously reported findings in HSV-1 cell culture and animal models can be translated to humans....

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Tran DN, Bakx ATCM, van Dis V, et al. No evidence of aberrant amyloid β and phosphorylated tau expression in herpes simplex virus-infected neurons of the trigeminal ganglia and brain. Brain Pathol. 2021;e13044doi: 10.1111/bpa.13044.
Tran, D. N., Bakx, A. T. C. M., van Dis, V., Aronica, E., Verdijk, R. M., & Ouwendijk, W. J. D. (2021). No evidence of aberrant amyloid β and phosphorylated tau expression in herpes simplex virus-infected neurons of the trigeminal ganglia and brain. Brain pathology (Zurich, Switzerland), e13044. https://doi.org/10.1111/bpa.13044
Tran, Diana N, et al. "No evidence of aberrant amyloid β and phosphorylated tau expression in herpes simplex virus-infected neurons of the trigeminal ganglia and brain." Brain pathology (Zurich, Switzerland) vol. (2021): e13044. doi: https://doi.org/10.1111/bpa.13044
Tran DN, Bakx ATCM, van Dis V, Aronica E, Verdijk RM, Ouwendijk WJD. No evidence of aberrant amyloid β and phosphorylated tau expression in herpes simplex virus-infected neurons of the trigeminal ganglia and brain. Brain Pathol. 2021 Dec 16;e13044. doi: 10.1111/bpa.13044. Epub 2021 Dec 16. PMID: 34913212.
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Quantitative Systems Pharmacology Model-Based Predictions of Clinical Endpoints to Optimize Warfarin and Rivaroxaban Anti-Thrombosis Therapy.

Frontiers in pharmacology

Hartmann S, Biliouris K, Lesko LJ, Nowak-Göttl U, Trame MN.
PMID: 32765265
Front Pharmacol. 2020 Jul 14;11:1041. doi: 10.3389/fphar.2020.01041. eCollection 2020.

BACKGROUND: Tight monitoring of efficacy and safety of anticoagulants such as warfarin is imperative to optimize the benefit-risk ratio of anticoagulants in patients. The standard tests used are measurements of prothrombin time (PT), usually expressed as international normalized ratio...

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Hartmann S, Biliouris K, Lesko LJ, et al. Quantitative Systems Pharmacology Model-Based Predictions of Clinical Endpoints to Optimize Warfarin and Rivaroxaban Anti-Thrombosis Therapy. Front Pharmacol. 2020;11:1041doi: 10.3389/fphar.2020.01041.
Hartmann, S., Biliouris, K., Lesko, L. J., Nowak-Göttl, U., & Trame, M. N. (2020). Quantitative Systems Pharmacology Model-Based Predictions of Clinical Endpoints to Optimize Warfarin and Rivaroxaban Anti-Thrombosis Therapy. Frontiers in pharmacology, 111041. https://doi.org/10.3389/fphar.2020.01041
Hartmann, Sonja, et al. "Quantitative Systems Pharmacology Model-Based Predictions of Clinical Endpoints to Optimize Warfarin and Rivaroxaban Anti-Thrombosis Therapy." Frontiers in pharmacology vol. 11 (2020): 1041. doi: https://doi.org/10.3389/fphar.2020.01041
Hartmann S, Biliouris K, Lesko LJ, Nowak-Göttl U, Trame MN. Quantitative Systems Pharmacology Model-Based Predictions of Clinical Endpoints to Optimize Warfarin and Rivaroxaban Anti-Thrombosis Therapy. Front Pharmacol. 2020 Jul 14;11:1041. doi: 10.3389/fphar.2020.01041. eCollection 2020. PMID: 32765265; PMCID: PMC7381140.
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A calcineurin B-like protein participates in low oxygen signalling in rice.

Functional plant biology : FPB

Ho VT, Tran AN, Cardarelli F, Perata P, Pucciariello C.
PMID: 32480620
Funct Plant Biol. 2017 Sep;44(9):917-928. doi: 10.1071/FP16376.

Following the identification of the calcineurin B-like interacting protein kinase 15 (CIPK15), which is a regulator of starch degradation, the low O2 signal elicited during rice germination under submergence has been linked to the sugar sensing cascade and calcium...

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Ho VT, Tran AN, Cardarelli F, et al. A calcineurin B-like protein participates in low oxygen signalling in rice. Funct Plant Biol. 2017;44(9):917-928doi: 10.1071/FP16376.
Ho, V. T., Tran, A. N., Cardarelli, F., Perata, P., & Pucciariello, C. (2017). A calcineurin B-like protein participates in low oxygen signalling in rice. Functional plant biology : FPB, 44(9), 917-928. https://doi.org/10.1071/FP16376
Ho, Viet The, et al. "A calcineurin B-like protein participates in low oxygen signalling in rice." Functional plant biology : FPB vol. 44,9 (2017): 917-928. doi: https://doi.org/10.1071/FP16376
Ho VT, Tran AN, Cardarelli F, Perata P, Pucciariello C. A calcineurin B-like protein participates in low oxygen signalling in rice. Funct Plant Biol. 2017 Sep;44(9):917-928. doi: 10.1071/FP16376. PMID: 32480620.
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Improvement in the Palladium-Catalyzed Miyaura Borylation Reaction by Optimization of the Base: Scope and Mechanistic Study.

The Journal of organic chemistry

Barroso S, Joksch M, Puylaert P, Tin S, Bell SJ, Donnellan L, Duguid S, Muir C, Zhao P, Farina V, Tran DN, de Vries JG.
PMID: 33245661
J Org Chem. 2021 Jan 01;86(1):103-109. doi: 10.1021/acs.joc.0c01758. Epub 2020 Nov 27.

Aryl boronic acids and esters are important building blocks in API synthesis. The palladium-catalyzed Suzuki-Miyaura borylation is the most common method for their preparation. This paper describes an improvement of the current reaction conditions. By using lipophilic bases such...

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Barroso S, Joksch M, Puylaert P, et al. Improvement in the Palladium-Catalyzed Miyaura Borylation Reaction by Optimization of the Base: Scope and Mechanistic Study. J Org Chem. 2020;86(1):103-109doi: 10.1021/acs.joc.0c01758.
Barroso, S., Joksch, M., Puylaert, P., Tin, S., Bell, S. J., Donnellan, L., Duguid, S., Muir, C., Zhao, P., Farina, V., Tran, D. N., & de Vries, J. G. (2021). Improvement in the Palladium-Catalyzed Miyaura Borylation Reaction by Optimization of the Base: Scope and Mechanistic Study. The Journal of organic chemistry, 86(1), 103-109. https://doi.org/10.1021/acs.joc.0c01758
Barroso, Santiago, et al. "Improvement in the Palladium-Catalyzed Miyaura Borylation Reaction by Optimization of the Base: Scope and Mechanistic Study." The Journal of organic chemistry vol. 86,1 (2021): 103-109. doi: https://doi.org/10.1021/acs.joc.0c01758
Barroso S, Joksch M, Puylaert P, Tin S, Bell SJ, Donnellan L, Duguid S, Muir C, Zhao P, Farina V, Tran DN, de Vries JG. Improvement in the Palladium-Catalyzed Miyaura Borylation Reaction by Optimization of the Base: Scope and Mechanistic Study. J Org Chem. 2021 Jan 01;86(1):103-109. doi: 10.1021/acs.joc.0c01758. Epub 2020 Nov 27. PMID: 33245661.
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Incorporating respondent-driven sampling into web-based discrete choice experiments: preferences for COVID-19 mitigation measures.

Health services & outcomes research methodology

Johnson CA, Tran DN, Mwangi A, Sosa-Rubí SG, Chivardi C, Romero-Martínez M, Pastakia S, Robinson E, Jennings Mayo-Wilson L, Galárraga O.
PMID: 35035272
Health Serv Outcomes Res Methodol. 2022 Jan 11;1-20. doi: 10.1007/s10742-021-00266-4. Epub 2022 Jan 11.

To slow the spread of COVID-19, most countries implemented stay-at-home orders, social distancing, and other nonpharmaceutical mitigation strategies. To understand individual preferences for mitigation strategies, we piloted a web-based Respondent Driven Sampling (RDS) approach to recruit participants from four...

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Johnson CA, Tran DN, Mwangi A, et al. Incorporating respondent-driven sampling into web-based discrete choice experiments: preferences for COVID-19 mitigation measures. Health Serv Outcomes Res Methodol. 2022;1-20doi: 10.1007/s10742-021-00266-4.
Johnson, C. A., Tran, D. N., Mwangi, A., Sosa-Rubí, S. G., Chivardi, C., Romero-Martínez, M., Pastakia, S., Robinson, E., Jennings Mayo-Wilson, L., & Galárraga, O. (2022). Incorporating respondent-driven sampling into web-based discrete choice experiments: preferences for COVID-19 mitigation measures. Health services & outcomes research methodology, 1-20. https://doi.org/10.1007/s10742-021-00266-4
Johnson, Courtney A, et al. "Incorporating respondent-driven sampling into web-based discrete choice experiments: preferences for COVID-19 mitigation measures." Health services & outcomes research methodology vol. (2022): 1-20. doi: https://doi.org/10.1007/s10742-021-00266-4
Johnson CA, Tran DN, Mwangi A, Sosa-Rubí SG, Chivardi C, Romero-Martínez M, Pastakia S, Robinson E, Jennings Mayo-Wilson L, Galárraga O. Incorporating respondent-driven sampling into web-based discrete choice experiments: preferences for COVID-19 mitigation measures. Health Serv Outcomes Res Methodol. 2022 Jan 11;1-20. doi: 10.1007/s10742-021-00266-4. Epub 2022 Jan 11. PMID: 35035272; PMCID: PMC8747856.
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Collective bacterial disinfection by opto-chemical treatment on mature biofilm in clinical endoscope.

Journal of photochemistry and photobiology. B, Biology

Tran VN, Park S, Khan F, Truong VG, Jeong S, Lee DH, Kim YM, Kang HW.
PMID: 34847498
J Photochem Photobiol B. 2021 Nov 22;226:112367. doi: 10.1016/j.jphotobiol.2021.112367. Epub 2021 Nov 22.

The present study proposes an innovative opto-chemical treatment using a basket-integrated optical device (BIOD) to disinfect mature bacterial biofilm on endoscope channels. A BIOD was designed to position an optical diffuser on the central axis of an endoscope channel...

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Tran VN, Park S, Khan F, et al. Collective bacterial disinfection by opto-chemical treatment on mature biofilm in clinical endoscope. J Photochem Photobiol B. 2021;226:112367doi: 10.1016/j.jphotobiol.2021.112367.
Tran, V. N., Park, S., Khan, F., Truong, V. G., Jeong, S., Lee, D. H., Kim, Y. M., & Kang, H. W. (2021). Collective bacterial disinfection by opto-chemical treatment on mature biofilm in clinical endoscope. Journal of photochemistry and photobiology. B, Biology, 226112367. https://doi.org/10.1016/j.jphotobiol.2021.112367
Tran, Van Nam, et al. "Collective bacterial disinfection by opto-chemical treatment on mature biofilm in clinical endoscope." Journal of photochemistry and photobiology. B, Biology vol. 226 (2021): 112367. doi: https://doi.org/10.1016/j.jphotobiol.2021.112367
Tran VN, Park S, Khan F, Truong VG, Jeong S, Lee DH, Kim YM, Kang HW. Collective bacterial disinfection by opto-chemical treatment on mature biofilm in clinical endoscope. J Photochem Photobiol B. 2021 Nov 22;226:112367. doi: 10.1016/j.jphotobiol.2021.112367. Epub 2021 Nov 22. PMID: 34847498.
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Showing 25 to 36 of 328 entries