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Specialty: Molecular Biology
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Total 140396 results found since Jan 2013.
Approximate search for known gene clusters in new genomes using PQ-trees
We report on 29 chromosomal gene clusters that are rearranged in plasmids, where the rearrangements are guided by the corresponding PQ-trees. One of these results, coding for a heavy metal efflux pump, is further analysed to exemplify how PQFinder can be harnessed to reveal interesting new structural variants of known gene clusters.PMID:34243815 | PMC:PMC8272295 | DOI:10.1186/s13015-021-00190-9
Source: Algorithms for Molecular Biology : AMB - July 10, 2021 Category: Molecular Biology Authors: Galia R Zimerman Dina Svetlitsky Meirav Zehavi Michal Ziv-Ukelson Source Type: research
An optimized FM-index library for nucleotide and amino acid search
CONCLUSIONS: AWFM-index is easy to incorporate into bioinformatics software, offers run-time performance parameterization, and provides clients with FM-index functionality at both a high-level (count or locate all instances of a query string) and low-level (step-wise control of the FM-index backward-search process). The open-source library is available for download at https://github.com/TravisWheelerLab/AvxWindowFmIndex.PMID:34972525 | PMC:PMC8719400 | DOI:10.1186/s13015-021-00204-6
Source: Algorithms for Molecular Biology : AMB - January 1, 2022 Category: Molecular Biology Authors: Tim Anderson Travis J Wheeler Source Type: research
Vascular age based on coronary calcium burden and carotid intima media thickness (a comparative study)
CONCLUSION: Calcium score is as helpful as CIMT for vascular age estimation.PMID:35874297 | PMC:PMC9301091
Source: Molecular Medicine - July 25, 2022 Category: Molecular Biology Authors: Maryam Moradi Mahnaz Fosouli Jalil Khataei Source Type: research
A ketogenic diet improves vascular hyperpermeability in type 2 diabetic mice by downregulating vascular pescadillo1 expression
This study probes the role of PES1 and its mediated molecular mechanism in modulating vascular hyperpermeability in diabetic mice. Male C57BL/6J and db/db mice were fed a standard diet and a ketogenic diet (KD). Meanwhile, mouse vascular endothelial cells (MVECs) were treated with β-hydroxybutyric acid (β-HB), Pes1 siRNA or a Pes1 overexpression plasmid. Additionally, knockout (KO) of Pes1 in mice was applied. After 12 weeks of feedings, enhanced vascular PES1 expression in diabetic mice was inhibited by the KD. The suppression of PES1 was also observed in β-HB-treated MVECs. In mice with Pes1 KO, the levels of vascular...
Source: Molecular Medicine - April 15, 2023 Category: Molecular Biology Authors: Song Wang Jielin Zhou Jing Lu Yan Lin Shuaishuai Liu Keyang Chen Source Type: research
Approximate search for known gene clusters in new genomes using PQ-trees
We report on 29 chromosomal gene clusters that are rearranged in plasmids, where the rearrangements are guided by the corresponding PQ-trees. One of these results, coding for a heavy metal efflux pump, is further analysed to exemplify how PQFinder can be harnessed to reveal interesting new structural variants of known gene clusters.PMID:34243815 | DOI:10.1186/s13015-021-00190-9
Source: Algorithms for Molecular Biology : AMB - July 10, 2021 Category: Molecular Biology Authors: Galia R Zimerman Dina Svetlitsky Meirav Zehavi Michal Ziv-Ukelson Source Type: research
On-Site Differentiation of Human Mesenchymal Stem Cells into Vascular Cells on Extracellular Matrix Scaffold Under Mechanical Stimulations for Vascular Tissue Engineering
Methods Mol Biol. 2022;2375:35-46. doi: 10.1007/978-1-0716-1708-3_4.ABSTRACTSmall-diameter vascular grafts are considered to be a promising strategy to treat late-stage vascular diseases, one of the largest causes of morbidity and mortality worldwide. However, limited sources of functional vascular cells remain a major obstacle in vascular tissue engineering. Here we describe a novel approach whereby functional vascular cells were obtained by on-site differentiation of human mesenchymal stem cells on a vascular extracellular matrix scaffold under mechanical stimulations in a rotary bioreactor, which has the potential to wo...
Source: Mol Biol Cell - September 30, 2021 Category: Molecular Biology Authors: Na Li Alex P Rickel Zhongkui Hong Source Type: research
Methods for Differentiating hiPSCs into Vascular Smooth Muscle Cells
Methods Mol Biol. 2022;2375:21-34. doi: 10.1007/978-1-0716-1708-3_3.ABSTRACTDespite numerous efforts to generate vascular tissues that recapitulate the physiological characteristics of native vessels, vascular cell source remains one of the principal challenges in the construction of tissue-engineered vascular grafts (TEVGs). Human pluripotent stem cells, therefore, represent an indispensable source to supply a large production of vascular smooth muscle cells (VSMCs) for cell-based therapy. In particular, human induced pluripotent stem cells (hiPSCs) generated from the same individual have opened up new avenues of achievin...
Source: Mol Biol Cell - September 30, 2021 Category: Molecular Biology Authors: Mei-Lan Li Jiesi Luo Matthew W Ellis Muhammad Riaz Yasmeen Ajaj Yibing Qyang Source Type: research
On-Site Differentiation of Human Mesenchymal Stem Cells into Vascular Cells on Extracellular Matrix Scaffold Under Mechanical Stimulations for Vascular Tissue Engineering
Methods Mol Biol. 2022;2375:35-46. doi: 10.1007/978-1-0716-1708-3_4.ABSTRACTSmall-diameter vascular grafts are considered to be a promising strategy to treat late-stage vascular diseases, one of the largest causes of morbidity and mortality worldwide. However, limited sources of functional vascular cells remain a major obstacle in vascular tissue engineering. Here we describe a novel approach whereby functional vascular cells were obtained by on-site differentiation of human mesenchymal stem cells on a vascular extracellular matrix scaffold under mechanical stimulations in a rotary bioreactor, which has the potential to wo...
Source: Mol Biol Cell - September 30, 2021 Category: Molecular Biology Authors: Na Li Alex P Rickel Zhongkui Hong Source Type: research
Methods for Differentiating hiPSCs into Vascular Smooth Muscle Cells
Methods Mol Biol. 2022;2375:21-34. doi: 10.1007/978-1-0716-1708-3_3.ABSTRACTDespite numerous efforts to generate vascular tissues that recapitulate the physiological characteristics of native vessels, vascular cell source remains one of the principal challenges in the construction of tissue-engineered vascular grafts (TEVGs). Human pluripotent stem cells, therefore, represent an indispensable source to supply a large production of vascular smooth muscle cells (VSMCs) for cell-based therapy. In particular, human induced pluripotent stem cells (hiPSCs) generated from the same individual have opened up new avenues of achievin...
Source: Mol Biol Cell - September 30, 2021 Category: Molecular Biology Authors: Mei-Lan Li Jiesi Luo Matthew W Ellis Muhammad Riaz Yasmeen Ajaj Yibing Qyang Source Type: research
