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Article: Vonoprozan: Potentially new first-line treatment for delayed upper gastrointestinal bleeds following endoscopic procedures? A letter to the editor.

Umer, Muhammad / Bukhari, Syed Wasif

JPMA. The Journal of the Pakistan Medical Association

2022 Volume 71, Issue 12, Page(s) 2838

MeSH term(s)	Endoscopy ; Endoscopy, Gastrointestinal ; Gastrointestinal Hemorrhage/etiology ; Gastrointestinal Hemorrhage/therapy ; Humans
Language	English
Publishing date	2022-02-10
Publishing country	Pakistan
Document type	Journal Article
ZDB-ID	603873-6
ISSN	0030-9982
ISSN	0030-9982
DOI	10.47391/JPMA.4136
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Letter to the editor: A nomogram based on radiomics and clinical information to predict prognosis in percutaneous balloon compression for the treatment of trigeminal neuralgia.

Iqbal, Umer / Arsal, Syed Ali / Kumar, Aashish

Neurosurgical review

2024 Volume 47, Issue 1, Page(s) 135

MeSH term(s)	Humans ; Trigeminal Neuralgia/diagnostic imaging ; Trigeminal Neuralgia/surgery ; Nomograms ; Radiomics ; Balloon Occlusion ; Prognosis ; Retrospective Studies
Language	English
Publishing date	2024-04-02
Publishing country	Germany
Document type	Letter
ZDB-ID	6907-3
ISSN	1437-2320 ; 0344-5607
ISSN (online)	1437-2320
ISSN	0344-5607
DOI	10.1007/s10143-024-02362-8
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Article: A comparative study on the effect of propolis and dentine bonding agent in treating dentine hypersensitivity.

Akber, Ather / Ahmed, Shahbaz / Umer Hasan, Syed Muhammad

JPMA. The Journal of the Pakistan Medical Association

2023 Volume 72, Issue 12, Page(s) 2417–2421

Abstract: Objective: To find out if there is a difference in the efficacy of propolis and seventh-generation dentine bonding agent in reducing dentine hypersensitivity.: Methods: The randomised, single-blind study was conducted at the Department of ... ...

Abstract	Objective: To find out if there is a difference in the efficacy of propolis and seventh-generation dentine bonding agent in reducing dentine hypersensitivity. Methods: The randomised, single-blind study was conducted at the Department of Periodontology, Dow International Dental College, Dow University of Health Sciences, Karachi, from December 2018 to November 2019, and comprised patients with complaint of dentine hypersensitivity who were divided in group A which received 30% ethanolic extract of propolis, and group B which received dentine bonding agent. Recordings of dentine hypersensitivity were obtained at baseline, before and after the application of experimental agents, and on days 7, 15 and 30. The response was measured using the Schiff Cold Air Sensitivity Scale. Data was analysed using SPSS 20. Results: Of the 52 patients, 19 (36.5%) were males and 33 (63.5%) were females. The overall mean age was 29.9 ± 6.5 years. Majority of the subjects were students i.e. 16 (30.8%) and housewives i.e. 11 (21.2%), while drivers, teachers, businessmen etc. constituted of 25 (48%) subjects. Significant reduction of dentine hypersensitivity was observed in both groups (p<0.05). Intergroup comparison showed non-significant differences (p>0.05). Conclusions: Propolis and dentine bonding agent had significant effect in reducing dentine hypersensitivity. The difference between the two was not significant.
MeSH term(s)	Adult ; Female ; Humans ; Male ; Young Adult ; Dentin ; Dentin Desensitizing Agents ; Dentin Sensitivity/drug therapy ; Propolis/therapeutic use ; Single-Blind Method
Chemical Substances	Dentin Desensitizing Agents ; Propolis (9009-62-5)
Language	English
Publishing date	2023-05-25
Publishing country	Pakistan
Document type	Journal Article ; Randomized Controlled Trial
ZDB-ID	603873-6
ISSN	0030-9982
ISSN	0030-9982
DOI	10.47391/JPMA.4102
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Article: Perplexing Polyphenolics: The Isolations, Syntheses, Reappraisals, and Bioactivities of Flavonoids, Isoflavonoids, and Neoflavonoids from 2016 to 2022.

Umer, Syed Muhammad / Shamim, Shahbaz / Khan, Khalid Mohammed / Saleem, Rahman Shah Zaib

Life (Basel, Switzerland)

2023 Volume 13, Issue 3

Abstract: Flavonoids, isoflavonoids, neoflavonoids, and their various subcategories are polyphenolics-an extensive class of natural products. These compounds are bioactive and display multiple activities, including anticancer, antibacterial, antiviral, antioxidant, ...

Abstract	Flavonoids, isoflavonoids, neoflavonoids, and their various subcategories are polyphenolics-an extensive class of natural products. These compounds are bioactive and display multiple activities, including anticancer, antibacterial, antiviral, antioxidant, and neuroprotective activities. Thus, these compounds can serve as leads for therapeutic agents or targets for complex synthesis; they are coveted and routinely isolated, characterized, biologically evaluated, and synthesized. However, data regarding the compounds' sources, isolation procedures, structural novelties, bioactivities, and synthetic schemes are often dispersed and complex, a dilemma this review aims to address. To serve as an easily accessible guide for researchers wanting to apprise themselves of the latest advancements in this subfield, this review summarizes seventy-six (76) articles published between 2016 and 2022 that detail the isolation and characterization of two hundred and forty-nine (249) novel compounds, the total and semisyntheses of thirteen (13) compounds, and reappraisals of the structures of twenty (20) previously reported compounds and their bioactivities. This article also discusses new synthetic methods and enzymes capable of producing or modifying flavonoids, isoflavonoids, or neoflavonoids.
Language	English
Publishing date	2023-03-09
Publishing country	Switzerland
Document type	Journal Article ; Review
ZDB-ID	2662250-6
ISSN	2075-1729
ISSN	2075-1729
DOI	10.3390/life13030736
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Finite Element Analysis of Upper Limb Splint Designs and Materials for 3D Printing.

Mian, Syed Hammad / Umer, Usama / Moiduddin, Khaja / Alkhalefah, Hisham

Polymers

2023 Volume 15, Issue 14

Abstract: Three-dimensional (3D) printed splints must be lightweight and adequately ventilated to maximize the patient's convenience while maintaining requisite strength. The ensuing loss of strength has a substantial impact on the transformation of a solid splint ...

Abstract	Three-dimensional (3D) printed splints must be lightweight and adequately ventilated to maximize the patient's convenience while maintaining requisite strength. The ensuing loss of strength has a substantial impact on the transformation of a solid splint model into a perforated or porous model. Thus, two methods for making perforations-standard approach and topological optimization-are investigated in this study. The objective of this research is to ascertain the impact of different perforation shapes and their distribution as well as topology optimization on the customized splint model. The solid splint models made of various materials have been transformed into porous designs to evaluate their strength by utilizing Finite Element (FE) simulation. This study will have a substantial effect on the designing concept for medical devices as well as other industries such as automobiles and aerospace. The novelty of the research refers to creating the perforations as well as applying topology optimization and 3D printing in practice. According to the comparison of the various materials, PLA had the least amount of deformation and the highest safety factor for all loading directions. Additionally, it was shown that all perforation shapes behave similarly, implying that the perforation shape's effect is not notably pronounced. However, square perforations seemed to perform the best out of all the perforation shape types. It was also obvious that the topology-optimized hand splint outperformed that with square perforations. The topology-optimized hand splint weighs 26% less than the solid splint, whereas the square-perforated hand splint weighs roughly 12% less. Nevertheless, the user must choose which strategy (standard perforations or topology optimization) to employ based on the available tools and prerequisites.
Language	English
Publishing date	2023-07-10
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2527146-5
ISSN	2073-4360 ; 2073-4360
ISSN (online)	2073-4360
ISSN	2073-4360
DOI	10.3390/polym15142993
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Article ; Online: Correction

Umair Umer / Hailin Zhao / Syed Kazim Usman / Zhigang Sun

Entropy, Vol 24, Iss 1538, p

Umer et al. High Order Split Operators for the Time-Dependent Wavepacket method of Triatomic Reactive Scattering in Hyperspherical Coordinates. Entropy 2019, 21 , 979

2022 Volume 1538

Abstract: The authors would like to update the affiliations for Umair Umer and Syed Kazim Usman ...

Abstract	The authors would like to update the affiliations for Umair Umer and Syed Kazim Usman in the published publication [.]
Keywords	n/a ; Science ; Q ; Astrophysics ; QB460-466 ; Physics ; QC1-999
Language	English
Publishing date	2022-10-01T00:00:00Z
Publisher	MDPI AG
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: HMMPolish: a coding region polishing tool for TGS-sequenced RNA viruses.

Yu, Runzhou / Abdullah, Syed Muhammad Umer / Sun, Yanni

Briefings in bioinformatics

2023 Volume 24, Issue 5

Abstract: Access to accurate viral genomes is important to downstream data analysis. Third-generation sequencing (TGS) has recently become a popular platform for virus sequencing because of its long read length. However, its per-base error rate, which is higher ... ...

Abstract	Access to accurate viral genomes is important to downstream data analysis. Third-generation sequencing (TGS) has recently become a popular platform for virus sequencing because of its long read length. However, its per-base error rate, which is higher than next-generation sequencing, can lead to genomes with errors. Polishing tools are thus needed to correct errors either before or after sequence assembly. Despite promising results of available polishing tools, there is still room to improve the error correction performance to perform more accurate genome assembly. The errors, particularly those in coding regions, can hamper analysis such as linage identification and variant monitoring. In this work, we developed a novel pipeline, HMMPolish, for correcting (polishing) errors in protein-coding regions of known RNA viruses. This tool can be applied to either raw TGS reads or the assembled sequences of the target virus. By utilizing profile Hidden Markov Models of protein families/domains in known viruses, HMMPolish can correct errors that are ignored by available polishers. We extensively validated HMMPolish on 34 datasets that covered four clinically important viruses, including HIV-1, influenza-A, norovirus, and severe acute respiratory syndrome coronavirus 2. These datasets contain reads with different properties, such as sequencing depth and platforms (PacBio or Nanopore). The benchmark results against popular/representative polishers show that HMMPolish competes favorably on error correction in coding regions of known RNA viruses.
MeSH term(s)	Humans ; Sequence Analysis, DNA/methods ; COVID-19 ; Genome ; High-Throughput Nucleotide Sequencing/methods ; Viruses ; RNA Viruses
Language	English
Publishing date	2023-07-20
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2068142-2
ISSN	1477-4054 ; 1467-5463
ISSN (online)	1477-4054
ISSN	1467-5463
DOI	10.1093/bib/bbad264
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Article ; Online: Design, Analysis, and 3D Printing of a Patient-Specific Polyetheretherketone Implant for the Reconstruction of Zygomatic Deformities.

Moiduddin, Khaja / Mian, Syed Hammad / Umer, Usama / Alkhalefah, Hisham / Ahmed, Faraz / Hashmi, Faraz Hussain

Polymers

2023 Volume 15, Issue 4

Abstract: The reconstruction of craniomaxillofacial deformities, especially zygomatic bone repair, can be exigent due to the complex anatomical structure and the sensitivity of the crucial organs involved. The need to reconstruct the zygomatic bone in the most ... ...

Abstract	The reconstruction of craniomaxillofacial deformities, especially zygomatic bone repair, can be exigent due to the complex anatomical structure and the sensitivity of the crucial organs involved. The need to reconstruct the zygomatic bone in the most precise way is of crucial importance for enhancing the patient outcomes and health care-related quality of life (HRQL). Autogenous bone grafts, despite being the gold standard, do not match bone forms, have limited donor sites and bone volume, and can induce substantial surgical site morbidity, which may lead to adverse outcomes. The goal of this study is to provide an integrated approach that includes various processes, from patient scanning to implant manufacture, for the restoration of zygomatic bone abnormalities utilizing Polyetheretherketone (PEEK) material, while retaining adequate aesthetic and facial symmetry. This study takes an integrated approach, including computer-aided implant design using the mirror reconstruction technique, investigating the biomechanical behavior of the implant under loading conditions, and carrying out a fitting accuracy analysis of the PEEK implant fabricated using state-of-the-art additive manufacturing technology. The findings of the biomechanical analysis results reveal the largest stress of approximately 0.89 MPa, which is relatively low in contrast to the material's yield strength and tensile strength. A high degree of sturdiness in the implant design is provided by the maximum value of strain and deformation, which is also relatively low at roughly 2.2 × 10
Language	English
Publishing date	2023-02-10
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2527146-5
ISSN	2073-4360 ; 2073-4360
ISSN (online)	2073-4360
ISSN	2073-4360
DOI	10.3390/polym15040886
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Study for Some Eccentricity-based Topological Indices of Second Type of Dominating David-derived Network.

Liu, Jia-Bao / Ali, Haidar / Ali, Didar Abdulkhaleq / Umer, Ayesha / Ali, Parvez / Kirmani, Syed Ajaz K

Combinatorial chemistry & high throughput screening

2023

Abstract: Background: Dominating David-derived networks are widely studied due to their fractal nature, with applications in topology, chemistry, and computer sciences. The use of molecular structure descriptors is a standard procedure that is used to correlate ... ...

Abstract	Background: Dominating David-derived networks are widely studied due to their fractal nature, with applications in topology, chemistry, and computer sciences. The use of molecular structure descriptors is a standard procedure that is used to correlate the biological activity of molecules with their chemical structures, which can be useful in the field of pharmacology. Objective: This article's goal is to develop analytically closed computing formulas for eccentricity-based descriptors of the second type of dominating David-derived derived network. Thermodynamic characteristics, physicochemical properties, and chemical and biological activities of chemical graphs are just a few of the many properties that may be determined using these computation formulas. Methods: Vertex sets were initially divided according to their degrees, eccentricities, and cardinalities of occurrence. The eccentricity-based indices are then computed using some combinatorics and these partitions. Results: Total eccentricity, average eccentricity, and the Zagreb index are distance-based topological indices utilized in this study for the second type of dominating David-derived network, denoted as D_2 (m). Conclusion: These calculations will assist the readers in estimating the fractal and difficult-to-handle thermodynamic and physicochemical aspects of chemical structure. Apart from configuration and impact resistance, the D_2 (m) design has been used for fundamental reasons in a variety of technical and scientific advancements.
Language	English
Publishing date	2023-08-31
Publishing country	United Arab Emirates
Document type	Journal Article
ZDB-ID	2064785-2
ISSN	1875-5402 ; 1386-2073
ISSN (online)	1875-5402
ISSN	1386-2073
DOI	10.2174/1386207326666230831125646
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Article ; Online: Indole-Containing Natural Products 2019-2022: Isolations, Reappraisals, Syntheses, and Biological Activities.

Umer, Syed Muhammad / Solangi, Mehwish / Khan, Khalid Mohammed / Saleem, Rahman Shah Zaib

Molecules (Basel, Switzerland)

2022 Volume 27, Issue 21

Abstract: Indole alkaloids represent a large subset of natural products, with more than 4100 known compounds. The majority of these alkaloids are biologically active, with some exhibiting excellent antitumor, antibacterial, antiviral, antifungal, and ... ...

Abstract	Indole alkaloids represent a large subset of natural products, with more than 4100 known compounds. The majority of these alkaloids are biologically active, with some exhibiting excellent antitumor, antibacterial, antiviral, antifungal, and antiplasmodial activities. Consequently, the natural products of this class have attracted considerable attention as potential leads for novel therapeutics and are routinely isolated, characterized, and profiled to gauge their biological potential. However, data on indole alkaloids, their various structures, and bioactivities are complex due to their diverse sources, such as plants, fungi, bacteria, sponges, tunicates, and bryozoans; thus, isolation methods produce an incredible trove of information. The situation is exacerbated when synthetic derivatives, as well as their structures, bioactivities, and synthetic schemes, are considered. Thus, to make such data comprehensive and inform researchers about the current field's state, this review summarizes recent reports on novel indole alkaloids. It deals with the isolation and characterization of 250 novel indole alkaloids, a reappraisal of previously reported compounds, and total syntheses of indole alkaloids. In addition, several syntheses and semi-syntheses of indole-containing derivatives and their bioactivities are reported between January 2019 and July 2022.
MeSH term(s)	Biological Products/pharmacology ; Biological Products/chemistry ; Indole Alkaloids/pharmacology ; Indole Alkaloids/chemistry ; Alkaloids/pharmacology ; Alkaloids/chemistry ; Fungi/chemistry ; Plants
Chemical Substances	Biological Products ; Indole Alkaloids ; Alkaloids
Language	English
Publishing date	2022-11-05
Publishing country	Switzerland
Document type	Journal Article ; Review
ZDB-ID	1413402-0
ISSN	1420-3049 ; 1431-5165 ; 1420-3049
ISSN (online)	1420-3049
ISSN	1431-5165 ; 1420-3049
DOI	10.3390/molecules27217586
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