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Gharleghi R, Adikari D, Ellenberger K, Webster M, Ellis C, Sowmya A, Ooi S, Beier S. Annotated computed tomography coronary angiogram images and associated data of normal and diseased arteries. Sci Data 2023; 10:128. [PMID: 36899014 PMCID: PMC10006074 DOI: 10.1038/s41597-023-02016-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2021] [Accepted: 02/14/2023] [Indexed: 03/12/2023] Open
Abstract
Computed Tomography Coronary Angiography (CTCA) is a non-invasive method to evaluate coronary artery anatomy and disease. CTCA is ideal for geometry reconstruction to create virtual models of coronary arteries. To our knowledge there is no public dataset that includes centrelines and segmentation of the full coronary tree. We provide anonymized CTCA images, voxel-wise annotations and associated data in the form of centrelines, calcification scores and meshes of the coronary lumen in 20 normal and 20 diseased cases. Images were obtained along with patient information with informed, written consent as part of the Coronary Atlas. Cases were classified as normal (zero calcium score with no signs of stenosis) or diseased (confirmed coronary artery disease). Manual voxel-wise segmentations by three experts were combined using majority voting to generate the final annotations. Provided data can be used for a variety of research purposes, such as 3D printing patient-specific models, development and validation of segmentation algorithms, education and training of medical personnel and in-silico analyses such as testing of medical devices.
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Affiliation(s)
- R Gharleghi
- Faculty of Engineering, University of New South Wales, Kensington, NSW, 2052, Australia.
| | - D Adikari
- Prince of Wales Clinical School of Medicine, UNSW Sydney, Sydney, NSW, Australia
- Department of Cardiology, Prince of Wales Hospital, Sydney, Australia
| | - K Ellenberger
- Prince of Wales Clinical School of Medicine, UNSW Sydney, Sydney, NSW, Australia
- Department of Cardiology, Prince of Wales Hospital, Sydney, Australia
| | - M Webster
- Auckland City Hospital, 2 Park Road, Auckland, 1023, New Zealand
| | - C Ellis
- Auckland City Hospital, 2 Park Road, Auckland, 1023, New Zealand
| | - A Sowmya
- Faculty of Engineering, University of New South Wales, Kensington, NSW, 2052, Australia
| | - S Ooi
- Prince of Wales Clinical School of Medicine, UNSW Sydney, Sydney, NSW, Australia
- Department of Cardiology, Prince of Wales Hospital, Sydney, Australia
| | - S Beier
- Faculty of Engineering, University of New South Wales, Kensington, NSW, 2052, Australia
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2
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Gharleghi R, Chen N, Sowmya A, Beier S. Towards automated coronary artery segmentation: A systematic review. COMPUTER METHODS AND PROGRAMS IN BIOMEDICINE 2022; 225:107015. [PMID: 35914439 DOI: 10.1016/j.cmpb.2022.107015] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/10/2021] [Revised: 07/03/2022] [Accepted: 07/06/2022] [Indexed: 06/15/2023]
Abstract
BACKGROUND AND OBJECTIVE Vessel segmentation is the first processing stage of 3D medical images for both clinical and research use. Current segmentation methods are tedious and time consuming, requiring significant manual correction and hence are infeasible to use in large data sets. METHODS Here, we review and analyse available coronary artery segmentation methods, focusing on fully automated methods capable of handling the rapidly growing medical images available. All manuscripts published since 2010 are systematically reviewed, categorised into different groups based on the approach taken, and characteristics of the different approaches as well as trends over the past decade are explored. RESULTS The manuscripts were divided intro three broad categories, consisting of region growing, voxelwise prediction and partitioning approaches. The most common approach overall was region growing, particularly using active contour models, however these have had a sharp fall in popularity in recent years with convolutional neural networks becoming significantly more popular. CONCLUSIONS The systematic review of current coronary artery segmentation methods shows interesting trends, with rising popularity of machine learning methods, a focus on efficient methods, and falling popularity of computationally expensive processing steps such as vesselness and multiplanar reformation.
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Affiliation(s)
- Ramtin Gharleghi
- School of Mechanical and Manufacturing Engineering, UNSW, Sydney NSW 2053, Australia.
| | - Nanway Chen
- School of Mechanical and Manufacturing Engineering, UNSW, Sydney NSW 2053, Australia
| | - Arcot Sowmya
- School of Computer Science and Engineering, UNSW, Sydney NSW 2053, Australia; Tyree Foundation Institute of Health Engineering (Tyree IHealthE), Sydney, Australia
| | - Susann Beier
- School of Mechanical and Manufacturing Engineering, UNSW, Sydney NSW 2053, Australia
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Long Non-Coding RNAs Might Regulate Phenotypic Switch of Vascular Smooth Muscle Cells Acting as ceRNA: Implications for In-Stent Restenosis. Int J Mol Sci 2022; 23:ijms23063074. [PMID: 35328496 PMCID: PMC8952224 DOI: 10.3390/ijms23063074] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2022] [Revised: 03/07/2022] [Accepted: 03/09/2022] [Indexed: 02/01/2023] Open
Abstract
Coronary in-stent restenosis is a late complication of angioplasty. It is a multifactorial process that involves vascular smooth muscle cells (VSMCs), endothelial cells, and inflammatory and genetic factors. In this study, the transcriptomic landscape of VSMCs’ phenotypic switch process was assessed under stimuli resembling stent injury. Co-cultured contractile VSMCs and endothelial cells were exposed to a bare metal stent and platelet-derived growth factor (PDGF-BB) 20 ng/mL. Migratory capacity (wound healing assay), proliferative capacity, and cell cycle analysis of the VSMCs were performed. RNAseq analysis of contractile vs. proliferative VSMCs was performed. Gene differential expression (DE), identification of new long non-coding RNA candidates (lncRNAs), gene ontology (GO), and pathway enrichment (KEGG) were analyzed. A competing endogenous RNA network was constructed, and significant lncRNA–miRNA–mRNA axes were selected. VSMCs exposed to “stent injury” conditions showed morphologic changes, with proliferative and migratory capacities progressing from G0-G1 cell cycle phase to S and G2-M. RNAseq analysis showed DE of 1099, 509 and 64 differentially expressed mRNAs, lncRNAs, and miRNAs, respectively. GO analysis of DE genes showed significant enrichment in collagen and extracellular matrix organization, regulation of smooth muscle cell proliferation, and collagen biosynthetic process. The main upregulated nodes in the lncRNA-mediated ceRNA network were PVT1 and HIF1-AS2, with downregulation of ACTA2-AS1 and MIR663AHG. The PVT1 ceRNA axis appears to be an attractive target for in-stent restenosis diagnosis and treatment.
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Gharleghi R, Adikari D, Ellenberger K, Ooi SY, Ellis C, Chen CM, Gao R, He Y, Hussain R, Lee CY, Li J, Ma J, Nie Z, Oliveira B, Qi Y, Skandarani Y, Wang X, Yang S, Sowmya A, Beier S. Automated Segmentation of Normal and Diseased Coronary Arteries - The ASOCA Challenge. Comput Med Imaging Graph 2022; 97:102049. [DOI: 10.1016/j.compmedimag.2022.102049] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2021] [Revised: 02/07/2022] [Accepted: 02/10/2022] [Indexed: 12/19/2022]
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Dessalles CA, Ramón-Lozano C, Babataheri A, Barakat AI. Luminal flow actuation generates coupled shear and strain in a microvessel-on-chip. Biofabrication 2021; 14. [PMID: 34592728 DOI: 10.1088/1758-5090/ac2baa] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2021] [Accepted: 09/30/2021] [Indexed: 12/12/2022]
Abstract
In the microvasculature, blood flow-derived forces are key regulators of vascular structure and function. Consequently, the development of hydrogel-based microvessel-on-chip systems that strive to mimic thein vivocellular organization and mechanical environment has received great attention in recent years. However, despite intensive efforts, current microvessel-on-chip systems suffer from several limitations, most notably failure to produce physiologically relevant wall strain levels. In this study, a novel microvessel-on-chip based on the templating technique and using luminal flow actuation to generate physiologically relevant levels of wall shear stress and circumferential stretch is presented. Normal forces induced by the luminal pressure compress the surrounding soft collagen hydrogel, dilate the channel, and create large circumferential strain. The fluid pressure gradient in the system drives flow forward and generates realistic pulsatile wall shear stresses. Rigorous characterization of the system reveals the crucial role played by the poroelastic behavior of the hydrogel in determining the magnitudes of the wall shear stress and strain. The experimental measurements are combined with an analytical model of flow in both the lumen and the porous hydrogel to provide an exceptionally versatile user manual for an application-based choice of parameters in microvessels-on-chip. This unique strategy of flow actuation adds a dimension to the capabilities of microvessel-on-chip systems and provides a more general framework for improving hydrogel-basedin vitroengineered platforms.
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Affiliation(s)
- Claire A Dessalles
- LadHyX, CNRS, Ecole polytechnique, Institut polytechnique de Paris, 91120 Palaiseau, France
| | - Clara Ramón-Lozano
- LadHyX, CNRS, Ecole polytechnique, Institut polytechnique de Paris, 91120 Palaiseau, France
| | - Avin Babataheri
- LadHyX, CNRS, Ecole polytechnique, Institut polytechnique de Paris, 91120 Palaiseau, France
| | - Abdul I Barakat
- LadHyX, CNRS, Ecole polytechnique, Institut polytechnique de Paris, 91120 Palaiseau, France
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Nguyen DT, Smith AF, Jiménez JM. Stent strut streamlining and thickness reduction promote endothelialization. J R Soc Interface 2021; 18:20210023. [PMID: 34404229 PMCID: PMC8371379 DOI: 10.1098/rsif.2021.0023] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2021] [Accepted: 07/22/2021] [Indexed: 12/15/2022] Open
Abstract
Stent thrombosis (ST) carries a high risk of myocardial infarction and death. Lack of endothelial coverage is an important prognostic indicator of ST after stenting. While stent strut thickness is a critical factor in ST, a mechanistic understanding of its effect is limited and the role of haemodynamics is unclear. Endothelialization was tested using a wound-healing assay and five different stent strut models ranging in height between 50 and 150 µm for circular arc (CA) and rectangular (RT) geometries and a control without struts. Under static conditions, all stent strut surfaces were completely endothelialized. Reversing pulsatile disturbed flow caused full endothelialization, except for the stent strut surfaces of the 100 and 150 µm RT geometries, while fully antegrade pulsatile undisturbed flow with a higher mean wall shear stress caused only the control and the 50 µm CA geometries to be fully endothelialized. Modest streamlining and decrease in height of the stent struts improved endothelial coverage of the peri-strut and stent strut surfaces in a haemodynamics dependent manner. This study highlights the impact of the stent strut height (thickness) and geometry (shape) on the local haemodynamics, modulating reendothelialization after stenting, an important factor in reducing the risk of stent thrombosis.
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Affiliation(s)
- Duy T. Nguyen
- Department of Mechanical and Industrial Engineering, University of Massachusetts Amherst, Amherst, MA 01003, USA
| | - Alexander F. Smith
- Department of Biomedical Engineering, University of Massachusetts Amherst, Amherst, MA 01003, USA
| | - Juan M. Jiménez
- Department of Mechanical and Industrial Engineering, University of Massachusetts Amherst, Amherst, MA 01003, USA
- Department of Biomedical Engineering, University of Massachusetts Amherst, Amherst, MA 01003, USA
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Gharleghi R, Dessalles CA, Lal R, McCraith S, Sarathy K, Jepson N, Otton J, Barakat AI, Beier S. 3D Printing for Cardiovascular Applications: From End-to-End Processes to Emerging Developments. Ann Biomed Eng 2021; 49:1598-1618. [PMID: 34002286 PMCID: PMC8648709 DOI: 10.1007/s10439-021-02784-1] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2020] [Accepted: 04/24/2021] [Indexed: 12/16/2022]
Abstract
3D printing as a means of fabrication has seen increasing applications in medicine in the last decade, becoming invaluable for cardiovascular applications. This rapidly developing technology has had a significant impact on cardiovascular research, its clinical translation and education. It has expanded our understanding of the cardiovascular system resulting in better devices, tools and consequently improved patient outcomes. This review discusses the latest developments and future directions of generating medical replicas ('phantoms') for use in the cardiovascular field, detailing the end-to-end process from medical imaging to capture structures of interest, to production and use of 3D printed models. We provide comparisons of available imaging modalities and overview of segmentation and post-processing techniques to process images for printing, detailed exploration of latest 3D printing methods and materials, and a comprehensive, up-to-date review of milestone applications and their impact within the cardiovascular domain across research, clinical use and education. We then provide an in-depth exploration of future technologies and innovations around these methods, capturing opportunities and emerging directions across increasingly realistic representations, bioprinting and tissue engineering, and complementary virtual and mixed reality solutions. The next generation of 3D printing techniques allow patient-specific models that are increasingly realistic, replicating properties, anatomy and function.
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Affiliation(s)
- Ramtin Gharleghi
- Faculty of Engineering, School of Mechanical and Manufacturing, UNSW, Sydney, Australia
| | | | - Ronil Lal
- Faculty of Engineering, School of Mechanical and Manufacturing, UNSW, Sydney, Australia
| | - Sinead McCraith
- Faculty of Engineering, School of Mechanical and Manufacturing, UNSW, Sydney, Australia
| | | | - Nigel Jepson
- Prince of Wales Hospital, Sydney, Australia
- Prince of Wales Clinical School of Medicine, UNSW, Sydney, Australia
| | - James Otton
- Department of Cardiology, Liverpool Hospital, Sydney, Australia
| | | | - Susann Beier
- Faculty of Engineering, School of Mechanical and Manufacturing, UNSW, Sydney, Australia.
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eG Coated Stents Exhibit Enhanced Endothelial Wound Healing Characteristics. Cardiovasc Eng Technol 2021; 12:515-525. [PMID: 34008078 PMCID: PMC8481217 DOI: 10.1007/s13239-021-00542-x] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 11/15/2020] [Accepted: 05/05/2021] [Indexed: 11/06/2022]
Abstract
Purpose Despite their widespread use, a significant fraction of coronary stents suffer from in-stent restenosis and stent thrombosis. Stent deployment induces extensive injury to the vascular endothelium. Rapid endothelial wound closure is essential for the success of a stenting procedure. A recent study has demonstrated that the BuMA Supreme® sirolimus-eluting stent exhibits particularly attractive strut coverage characteristics. A unique feature of this stent is the presence of a thin brush layer of poly-butyl methacrylate (PBMA), covalently bonded to the stent’s cobalt-chromium frame via electro-grafting (eG™). The present study aimed to determine whether the PBMA coating has an effect on endothelial cell wound healing and stent strut coverage. Methods We used an in vitro coronary artery model whose wall consisted of an annular collagen hydrogel and whose luminal surface was lined with a monolayer of endothelial cells. Mechanical wounding of the endothelial lining was preformed prior to deployment of a bare cobalt-chromium stent either with or without the PBMA layer. The migration of fluorescently labeled endothelial cells was monitored automatically over a period of 48 h to determine endothelial wound healing rates. Results Quantitative assessment of endothelial wound healing rates within the simulated arterial model is achievable using automated image analysis. Wound healing is significantly faster (44% faster at 48 h) for stents with the PBMA eG Coating™ compared to bare metal stents. Conclusion The PBMA eG Coating™ has the effect of promoting endothelial wound healing. Future studies will focus on elucidating the mechanistic basis of this observation. Supplementary Information The online version contains supplementary material available at 10.1007/s13239-021-00542-x.
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Bussooa A, Hoare D, Kirimi MT, Mitra S, Mirzai N, Neale SL, Mercer JR. Impedimetric Detection and Electromediated Apoptosis of Vascular Smooth Muscle Using Microfabricated Biosensors for Diagnosis and Therapeutic Intervention in Cardiovascular Diseases. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2020; 7:1902999. [PMID: 32999823 DOI: 10.1002/advs.2019029991902999] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Subscribe] [Scholar Register] [Received: 10/25/2019] [Revised: 01/17/2020] [Indexed: 05/23/2023]
Abstract
Cardiovascular diseases remain a significant global burden with 1-in-3 of all deaths attributable to the consequences of the disease. The main cause is blocked arteries which often remain undetected. Implantable medical devices (IMDs) such as stents and grafts are often used to reopen vessels but over time these too will re-block. A vascular biosensor is developed that can report on cellularity and is amenable to being mounted on a stent or graft for remote reporting. Moreover, the device is designed to also receive currents that can induce a controlled form of cell death, apoptosis. A combined diagnostic and therapeutic biosensor would be transformational for the treatment of vascular diseases such as atherosclerosis and central line access. In this work, a cell sensing and cell apoptosing system based on the same interdigitated electrodes (IDEs) is developed. It is shown that the device is scalable and that by miniaturizing the IDEs, the detection sensitivity is increased. Apoptosis of vascular smooth muscle cells is monitored using continuous impedance measurements at a frequency of 10 kHz and rates of cell death are tracked using fluorescent dyes and live cell imaging.
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Affiliation(s)
- Anubhav Bussooa
- BHF Cardiovascular Research Centre University of Glasgow Glasgow G12 8TA UK
| | - Daniel Hoare
- BHF Cardiovascular Research Centre University of Glasgow Glasgow G12 8TA UK
| | - Mahmut T Kirimi
- BHF Cardiovascular Research Centre University of Glasgow Glasgow G12 8TA UK
| | - Srinjoy Mitra
- Scottish Microelectronics Centre Kings Buildings Campus University of Edinburgh Edinburgh EH9 3FF Scotland
| | - Nosrat Mirzai
- Bioelectronics Unit University of Glasgow Glasgow G12 8TA UK
| | - Steve L Neale
- James Watt School of Engineering University of Glasgow Glasgow G12 8QQ UK
| | - John R Mercer
- BHF Cardiovascular Research Centre University of Glasgow Glasgow G12 8TA UK
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Bussooa A, Hoare D, Kirimi MT, Mitra S, Mirzai N, Neale SL, Mercer JR. Impedimetric Detection and Electromediated Apoptosis of Vascular Smooth Muscle Using Microfabricated Biosensors for Diagnosis and Therapeutic Intervention in Cardiovascular Diseases. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2020; 7:1902999. [PMID: 32999823 PMCID: PMC7509665 DOI: 10.1002/advs.201902999] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/25/2019] [Revised: 01/17/2020] [Indexed: 05/23/2023]
Abstract
Cardiovascular diseases remain a significant global burden with 1-in-3 of all deaths attributable to the consequences of the disease. The main cause is blocked arteries which often remain undetected. Implantable medical devices (IMDs) such as stents and grafts are often used to reopen vessels but over time these too will re-block. A vascular biosensor is developed that can report on cellularity and is amenable to being mounted on a stent or graft for remote reporting. Moreover, the device is designed to also receive currents that can induce a controlled form of cell death, apoptosis. A combined diagnostic and therapeutic biosensor would be transformational for the treatment of vascular diseases such as atherosclerosis and central line access. In this work, a cell sensing and cell apoptosing system based on the same interdigitated electrodes (IDEs) is developed. It is shown that the device is scalable and that by miniaturizing the IDEs, the detection sensitivity is increased. Apoptosis of vascular smooth muscle cells is monitored using continuous impedance measurements at a frequency of 10 kHz and rates of cell death are tracked using fluorescent dyes and live cell imaging.
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Affiliation(s)
- Anubhav Bussooa
- BHF Cardiovascular Research CentreUniversity of GlasgowGlasgowG12 8TAUK
| | - Daniel Hoare
- BHF Cardiovascular Research CentreUniversity of GlasgowGlasgowG12 8TAUK
| | - Mahmut T. Kirimi
- BHF Cardiovascular Research CentreUniversity of GlasgowGlasgowG12 8TAUK
| | - Srinjoy Mitra
- Scottish Microelectronics CentreKings Buildings CampusUniversity of EdinburghEdinburgh EH9 3FFScotland
| | - Nosrat Mirzai
- Bioelectronics UnitUniversity of GlasgowGlasgowG12 8TAUK
| | - Steve L. Neale
- James Watt School of EngineeringUniversity of GlasgowGlasgowG12 8QQUK
| | - John R. Mercer
- BHF Cardiovascular Research CentreUniversity of GlasgowGlasgowG12 8TAUK
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Venezuela J, Dargusch M. The influence of alloying and fabrication techniques on the mechanical properties, biodegradability and biocompatibility of zinc: A comprehensive review. Acta Biomater 2019; 87:1-40. [PMID: 30660777 DOI: 10.1016/j.actbio.2019.01.035] [Citation(s) in RCA: 145] [Impact Index Per Article: 29.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2018] [Revised: 01/14/2019] [Accepted: 01/16/2019] [Indexed: 01/14/2023]
Abstract
Zinc has been identified as one of the most promising biodegradable metals along with magnesium and iron. Zinc appears to address some of the core engineering problems associated with magnesium and iron when applied to biomedical implant applications; hence the increase in the amount of research investigations on the metal in the last few years. In this review, the current state-of-the-art on biodegradable Zn, including recent developments, current opportunities and future directions of research are discussed. The discussions are presented with a specific focus on reviewing the relationships that exist between mechanical properties, biodegradability, and biocompatibility of zinc with alloying and fabrication techniques. This work hopes to guide future studies on biodegradable Zn that will help in advancing this field of research. STATEMENT OF SIGNIFICANCE: (i) The review offers an up-to-date and comprehensive review of the influence of alloying and fabrication technique on mechanical properties, biodegradability and biocompatibility of Zn; (ii) the work cites the most relevant biodegradable Zn fabrication processes including additive manufacturing techniques; (iii) the review includes a listing of research gap and future research directions for the field of biodegradable Zn.
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