54 results on '"Shakir NA"'
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2. An overview on pharmacological significance, phytochemical potential, traditional importance and conservation strategies of Dioscorea deltoidea: A high valued endangered medicinal plant
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Nuzhat Naseem, Tahirah Khaliq, Sami Jan, Shakir Nabi, Phalisteen Sultan, Qazi Parvaiz Hassan, and Firdous Ahmad Mir
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Biological activities ,Diosgenin ,Phytochemistry analysis ,Traditional uses ,Science (General) ,Q1-390 ,Social sciences (General) ,H1-99 - Abstract
Dioscorea deltoidea Wall. ex Griseb. is an endangered species of the Dioscoreaceae family. It is the most commonly consumed wild species as a vegetable due to its high protein, vital amino acid, vitamin, and mineral content. There are approximately 613 species in the genus Dioscorea Plum. ex L., which is found in temperate and tropical climates. Dioscorea deltoidea, a plant species widespread across tropical and sub-tropical regions, called by different names in different languages. In English, it is commonly referred to as “Wild yam” or “Elephant foot”. The Sanskrit name for this plant is “Varahikand,” while in Hindi, it is known as “Gun” or “Singly-mingly.” The Urdu language refers to it as “Qanis,” and in Nepali, it is called “Tarul,” “Bhyakur,” or “Ghunar.” Dioscorea deltoidea has been used to cure a wide range of human ailments for centuries. This plant has nutritional and therapeutic uses and also contains high amounts of steroidal saponins, allantoin, polyphenols, and most notably, polysaccharides and diosgenin. These bioactive chemicals have shown potential in providing protection against a wide spectrum of inflammatory conditions, including enteritis (inflammation of the intestines), arthritis (joint inflammation), dermatitis (skin inflammation), acute pancreatitis (inflammation of the pancreas), and neuro inflammation (inflammation in the nervous system). Furthermore, the valuable bioactive chemicals found in D. deltoidea have been associated with a range of beneficial biological activities, such as antibacterial, antioxidant, anti-inflammatory, immunomodulatory, hepatoprotective, and cytotoxic properties. Sapogenin steroidal chemicals are highly valued in the fields of medicine, manufacturing, and commerce. It has both expectorant and sedative properties. It is employed in the treatment of cardiovascular diseases, encompassing various ailments related to the heart and blood vessels, skin disease, cancer, immune deficiencies, and autoimmune diseases. Additionally, it finds application in managing disorders of the central nervous system and dysfunctional changes in the female reproductive system. Furthermore, it is valued for its role in treating bone and joint diseases. Metabolic disorders are also among the ailments for which D. deltoidea is employed. It has traditionally been used as a vermifuge, fish poison, and to kill lice. Diosgenin, a steroidal compound found in D. deltoidea, plays a crucial role as a precursor in the chemical synthesis of various hormones. Due to the presence of valuable bioactive molecule, like corticosterone and sigmasterol, D. deltoidea is cultivated specifically for the extraction of these beneficial phytochemicals. The current study aims to assess D. deltoidea's medicinal properties, ethnobotanical usage, phytochemicals, pharmacological properties, threats, and conservation techniques.
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- 2024
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3. Hybrid Intelligent Warning System for Boiler tube Leak Trips
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Singh Deshvin, Ismail Firas B., and Shakir Nasif Mohammad
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Engineering (General). Civil engineering (General) ,TA1-2040 - Abstract
Repeated boiler tube leak trips in coal fired power plants can increase operating cost significantly. An early detection and diagnosis of boiler trips is essential for continuous safe operations in the plant. In this study two artificial intelligent monitoring systems specialized in boiler tube leak trips have been proposed. The first intelligent warning system (IWS-1) represents the use of pure artificial neural network system whereas the second intelligent warning system (IWS-2) represents merging of genetic algorithms and artificial neural networks as a hybrid intelligent system. The Extreme Learning Machine (ELM) methodology was also adopted in IWS-1 and compared with traditional training algorithms. Genetic algorithm (GA) was adopted in IWS-2 to optimize the ANN topology and the boiler parameters. An integrated data preparation framework was established for 3 real cases of boiler tube leak trip based on a thermal power plant in Malaysia. Both the IWSs were developed using MATLAB coding for training and validation. The hybrid IWS-2 performed better than IWS-1.The developed system was validated to be able to predict trips before the plant monitoring system. The proposed artificial intelligent system could be adopted as a reliable monitoring system of the thermal power plant boilers.
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- 2017
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4. Development and implementation of bottom ash crushing system in Submerged Scrapper Conveyor (SSC) for Coal-fired Power Plant
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Basim Ismail Firas, Why Siew Kuan Elaine, and Shakir Nasif Mohammad
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Engineering (General). Civil engineering (General) ,TA1-2040 - Abstract
The existence of Submerged Scrapper Conveyor (SSC) in coal-fired power plant is to handle the by-product of bottom ash. However, soot-blowing will be performed sometimes, in order to remove slag formed at the boiler furnace wall. Thence, this lead to a sudden loading of large amount of slags and bottom ash at SSC after soot-blowing, causing SSC conveying system to jam and conveying chain breakage. In this paper, a new SSC design with additional crushing system is proposed. By implementing the new design proposed, it is expected to improve the overall current performances, and to reduce the trip issue of SSC in coal-fired power plant. The new 3D model of SSC is designed, and stress-strain simulation of the model is analysed by using software of PTC Creo Parametric. Final cost and safety factor analysis of model is made to prove its validation.
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- 2017
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5. Numerical investigation on effect of leaflet thickness on structural stresses developed in a bileaflet mechanical heart valve for its sustainable manufacturing
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Abbas Syed Samar, Shakir Nasif Mohammad, Meor Said Mior Azman, Al-Waked Rafat, and Khalefa Kadhim Saleem
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Engineering (General). Civil engineering (General) ,TA1-2040 - Abstract
Flow induced structural stresses can cause mechanical prosthetic aortic valve to fail due to yielding. In this study, we have performed the structural analysis, especially the effect of leaflet thickness on equivalent stresses developed in a Bileaflet mechanical heart valve (BMHV) due to blood flow through it has been investigated. The leaflet thickness varies from 0.5mm to 0.7mm, by 0.1mm. A fluid-structure interaction approach based on Arbitrary Lagrangian Eulerian (ALE) technique has been employed with the aid of an user defined function (UDF). Results of the analysis show that high von Mises stresses are developed in BMHV with leaflet thickness of 0.5mm and 0.6mm, being 75% and 13% higher than allowable equivalent stress respectively. Such thinner leaflets are therefore, not sustainable to be replaced with diseased aortic valve.
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- 2017
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6. Thermal and strength performance of reinforced self-compacting concrete slabs mixed with basalt and PVA fibers in high intensity fire
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Mohd Jani Noraniza, Shakir Nasif Mohammad, Shafiq Nasir, and Pao William
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Engineering (General). Civil engineering (General) ,TA1-2040 - Abstract
Fibers addition to concrete and the innovation of self-compacting concrete technology lead to the development of high-performance concrete. However, high intensity fire may adversely affect the performance of this type of concrete. A series of fire resistance test experiments to evaluate the performance of fiber reinforced self-compacting concrete (FR-SCC) slabs consisting of various mix of basalt and PVA fibers were carried out by subjecting the concrete slabs as an element of construction to high intensity Hydrocarbon fire heating condition. The fire testing condition was in accordance with the standard time-temperature fire curve for 120 minutes up to 1100°C heating temperature. The temperatures on the surface and within the concrete slabs were recorded and the performance of each type of FRSCC slabs were evaluated. The performance of Basalt FR-SCC was found to be more resistant to fire in comparison to PVA FRSCC. There residual compressive strength of core samples were tested and SEM analysis were carried out to determine the effect of high intensity fire on the basalt and PVA FR-SCC slabs.
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- 2017
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7. Pure intelligent monitoring system for steam economizer trips
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Basim Ismail Firas, Hamzah Abed Khalid, Singh Deshvin, and Shakir Nasif Mohammad
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Engineering (General). Civil engineering (General) ,TA1-2040 - Abstract
Steam economizer represents one of the main equipment in the power plant. Some steam economizer's behavior lead to failure and shutdown in the entire power plant. This will lead to increase in operating and maintenance cost. By detecting the cause in the early stages maintain normal and safe operational conditions of power plant. However, these methodologies are hard to be achieved due to certain boundaries such as system learning ability and the weakness of the system beyond its domain of expertise. The best solution for these problems, an intelligent modeling system specialized in steam economizer trips have been proposed and coded within MATLAB environment to be as a potential solution to insure a fault detection and diagnosis system (FDD). An integrated plant data preparation framework for 10 trips was studied as framework variables. The most influential operational variables have been trained and validated by adopting Artificial Neural Network (ANN). The Extreme Learning Machine (ELM) neural network methodology has been proposed as a major computational intelligent tool in the system. It is shown that ANN can be implemented for monitoring any process faults in thermal power plants. Better speed of learning algorithms by using the Extreme Learning Machine has been approved as well.
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- 2017
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8. Nature of recombinant human serum amyloid A1 in Escherichia coli and its preferable approach for purification.
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Ahmad S, Gardner QA, Shakir NA, Gulzar S, Azim N, and Akhtar M
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Serum amyloid A1 (SAA1) is an apolipoprotein which is involved in amyloid A amyloidosis (AA) by forming fibrils. The process of fibrillation is still being explored and holds challenges in recombinant expression and purification of SAA1. This study deals with the preferable approach for the expression and purification of SAA1 which is normally toxic and unstable to express without using any fusion-tag. Complete soluble expression of SAA1 was obtained without the use of additional tag, in terrific broth, supplemented with 3 % ethanol at 30 °C. Soluble fraction of SAA1 was initially treated with salting-out using ammonium sulphate giving 1.5 M salt concentration to avoid SAA1 protein precipitation along with unwanted proteins. The soluble fraction of SAA1 after salting-out was purified by two individual chromatographic approaches: One anion exchange and second reverse phase chromatography. The yield of purified SAA1 was 3 times greater by anion exchange than reverse phase chromatography. MALDI-TOF analysis of purified SAA1 showed 11813 Da for intact protein and proteome analysis revealed greater than 90 % sequence coverage by MASCOT. The subunit interaction showed hexamer form at basic pH which was analyzed by size exclusion chromatography. The fibrillation activity of SAA1 was found to be 10-15 times higher in basic media at 43 °C than 37 °C. Our research demonstrates successful expression and purification of wild-type human recombinant SAA1. The cost-effective radical approach employed for purification of SAA1 is crucial for thorough protein characterization particularly, mechanisms of protein aggregation involved in amyloidosis., Competing Interests: Declaration of interest None., (Copyright © 2024 Elsevier Inc. All rights reserved.)
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- 2024
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9. Structural and functional investigations of Pcal_0606, a bifunctional phosphoglucose/phosphomannose isomerase from Pyrobaculum calidifontis.
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Maqsood A, Shakir NA, Aslam M, Rahman M, and Rashid N
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- Substrate Specificity, Kinetics, Hydrogen-Ion Concentration, Glucose-6-Phosphate Isomerase genetics, Glucose-6-Phosphate Isomerase chemistry, Glucose-6-Phosphate Isomerase metabolism, Cloning, Molecular, Recombinant Proteins chemistry, Recombinant Proteins metabolism, Recombinant Proteins genetics, Structure-Activity Relationship, Models, Molecular, Temperature, Amino Acid Sequence, Mannose-6-Phosphate Isomerase genetics, Mannose-6-Phosphate Isomerase metabolism, Mannose-6-Phosphate Isomerase chemistry, Pyrobaculum enzymology, Pyrobaculum genetics
- Abstract
We are investigating the glycolytic pathway in Pyrobaculum calidifontis whose genome sequence contains homologues of all the enzymes involved in this pathway. We have characterized most of them. An open reading frame, Pcal_0606, annotated as a putative phosphoglucose/phosphomannose isomerase has to be characterized yet. In silico analysis indicated the presence of more than one substrate binding pockets at the dimeric interface of Pcal_0606. The gene encoding Pcal_0606 was cloned and expressed in Escherichia coli. Recombinant Pcal_0606, produced in soluble form, exhibited highest enzyme activity at 90 °C and pH 8.5. Presence or absence of metal ions or EDTA did not significantly affect the enzyme activity. Under optimal conditions, Pcal_0606 displayed apparent K
m values of 0.33, 0.34, and 0.29 mM against glucose 6-phosphate, mannose 6-phosphate and fructose 6-phosphate, respectively. In the same order, Vmax values against these substrates were 290, 235, and 240 μmol min-1 mg-1 , indicating that Pcal_0606 catalyzed the reversible isomerization of these substrates with nearly same catalytic efficiency. These results characterize Pcal_0606 a bifunctional phosphoglucose/phosphomannose isomerase, which displayed high thermostability with a half-life of ∼50 min at 100 °C. To the best of our knowledge, Pcal_0606 is the most active and thermostable bifunctional phosphoglucose/phosphomannose isomerase characterized to date., Competing Interests: Declaration of competing interest The authors declare that they have no competing interests., (Copyright © 2024 Elsevier B.V. All rights reserved.)- Published
- 2024
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10. Editorial Comment.
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Hubbard L, Jamil ML, and Shakir NA
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- 2024
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11. Molecular cloning and characterization of Pcal_0039, an ATP-/NAD + -independent DNA ligase from hyperthermophilic archaeon Pyrobaculum calidifontis.
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Abbas Q, Muhammad MA, Shakir NA, Aslam M, and Rashid N
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- NAD metabolism, Enzyme Stability, DNA Ligase ATP metabolism, DNA Ligases genetics, DNA Ligases metabolism, Archaea metabolism, Cloning, Molecular, Adenosine Triphosphate metabolism, Pyrobaculum genetics
- Abstract
The genome sequence of hyperthermophilic archaeon Pyrobaculum calidifontis contains an open reading frame, Pcal_0039, which encodes a putative DNA ligase. Structural analysis disclosed the presence of signature sequences of ATP-dependent DNA ligases. We have heterologously expressed Pcal_0039 gene in Escherichia coli. The recombinant protein, majorly produced in soluble form, was purified and functionally characterized. Recombinant Pcal_0039 displayed nick-joining activity between 40 and 85 °C. Optimal activity was observed at 70 °C and pH 5.5. Nick-joining activity was retained even after heating for 1 h at 90 °C, indicating highly thermostable nature of Pcal_0039. The nick-joining activity, displayed by Pcal_0039, was metal ion dependent and Mg
2+ was the most preferred. NaCl and KCl inhibited the nick-joining activity at or above 200 mmol/L. The activity catalyzed by recombinant Pcal_0039 was independent of addition of ATP or NAD+ or any other nucleotide cofactor. A mismatch adjacent to the nick, either at 3'- or 5'-end, abolished the nick-joining activity. These characteristics make Pcal_0039 a potential candidate for applications in DNA diagnostics. To the best of our knowledge, Pcal_0039 is the only DNA ligase, characterized from genus Pyrobaculum, which exhibits optimum nick-joining activity at pH below 6.0 and independent of any nucleotide cofactor., Competing Interests: Declaration of competing interest The authors declare that they have no competing interests., (Copyright © 2023 Elsevier B.V. All rights reserved.)- Published
- 2023
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12. Functional analyses of a highly thermostable hexokinase from Pyrobaculum calidifontis.
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Shakir NA, Aslam M, Bibi T, Falak S, and Rashid N
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- Enzyme Stability, Kinetics, Phosphorylation, Recombinant Proteins genetics, Recombinant Proteins metabolism, Substrate Specificity, Escherichia coli genetics, Hexokinase genetics, Hexokinase metabolism, Pyrobaculum enzymology, Pyrobaculum genetics
- Abstract
The gene encoding a repressor open reading frame sugar kinase (ROK) family protein from hyperthermophilic crenarchaeon Pyrobaculum calidifontis, Pcal-HK, was cloned and expressed in Escherichia coli. The recombinant protein was produced in soluble and highly active form. Purified Pcal-HK was highly thermostable and existed in a monomeric form in solution. The enzyme was specific to ATP as phosphoryl donor but showed broad specificity to phosphoryl acceptors. It catalyzed the phosphorylation of a number of hexoses, including glucose, glucosamine, N-acetyl glucosamine, fructose and mannose, at nearly the same rate and similar affinity. The enzyme was metal ion dependent exhibiting highest activity at 90-95 °C and pH 8.5. Mg
2+ was most effective metal ion, which could be partially replaced by Mn2+ , Ni2+ or Zn2+ . Kinetic parameters were determined at 90 °C and the enzyme showed almost similar catalytic efficiency (kcat /Km ) towards the above mentioned hexoses. To the best of our knowledge, Pcal-HK is the most active thermostable ROK family hexokinase characterized to date which catalyzes the phosphorylation of various hexoses with nearly similar affinity., Competing Interests: Declaration of competing interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper., (Copyright © 2022 Elsevier Ltd. All rights reserved.)- Published
- 2023
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13. Discussion: Common Revisions after Penile Inversion Vaginoplasty: Techniques and Clinical Outcomes.
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Shakir NA, Zhao LC, and Bluebond-Langner R
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- Female, Gynecologic Surgical Procedures methods, Humans, Male, Penis surgery, Vagina surgery, Sex Reassignment Surgery methods
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- 2022
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14. Durable Treatment of Refractory Vesicourethral Anastomotic Stenosis via Robotic-assisted Reconstruction: A Trauma and Urologic Reconstructive Network of Surgeons Study.
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Shakir NA, Alsikafi NF, Buesser JF, Amend G, Breyer BN, Buckley JC, Erickson BA, Broghammer JA, Parker WP, and Zhao LC
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- Anastomosis, Surgical adverse effects, Constriction, Pathologic etiology, Constriction, Pathologic surgery, Humans, Male, Postoperative Complications etiology, Postoperative Complications surgery, Prostatectomy adverse effects, Prostatectomy methods, Retrospective Studies, Urethra surgery, Robotic Surgical Procedures adverse effects, Robotic Surgical Procedures methods, Surgeons
- Abstract
Background: Refractory vesicourethral anastomotic stenosis (VUAS) after radical prostatectomy poses challenges distinct from bladder neck contracture, due to close proximity to the sphincter mechanism. Open reconstruction is technically demanding, risking de novo stress urinary incontinence (SUI) or recurrence., Objective: To demonstrate patency and continence outcomes of robotic-assisted VUAS repair., Design, Setting and Participants: Patients with VUAS underwent robotic-assisted reconstruction from 2015 to 2020 in the Trauma and Urologic Reconstructive Network of Surgeons (TURNS) consortium of institutions. The minimum postoperative follow-up was 3 mo., Surgical Procedure: The space of Retzius is dissected and fibrotic tissue at the vesicourethral anastomosis is excised. Reconstruction is performed with either a primary anastomotic or an anterior bladder flap-based technique., Measurements: Patency was defined as either the passage of a 17 French flexible cystoscope or a peak flow on uroflowmetry of >15 ml/s. De novo SUI was defined as either more than one pad per day or need for operative intervention., Results and Limitations: A total of 32 patients met the criteria, of whom 16 (50%) had a history of pelvic radiation. Intraoperatively, 15 (47%) patients had obliterative VUAS. The median length of hospital stay was 1 d. At a median follow-up of 12 mo, 24 (75%) patients had patent repairs and 26 (81%) were voiding per urethra. Of five men with 30-d complications, four were resolved conservatively (catheter obstruction and ileus). In eight patients, recurrent stenoses were managed with redo robotic reconstruction (in two), endoscopically (in four), or catheterization (in two). Of 13 patients without preexisting SUI, 11 (85%) remained continent at last follow-up. No patients underwent urinary diversion., Conclusions: Robotic-assisted VUAS reconstruction is a viable and successful management option for refractory anastomotic stenosis following radical prostatectomy. The robotic transabdominal approach demonstrates high patency and continence rates., Patient Summary: We studied the outcomes of robotic-assisted repair for vesicourethral anastomotic stenosis. Most patients, after the procedure, were able to void per urethra and preserve existing continence., (Copyright © 2021. Published by Elsevier B.V.)
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- 2022
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15. Robotic-Assisted Testicular Autotransplantation.
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Chao BW, Shakir NA, Hyun GS, Levine JP, and Zhao LC
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- Adolescent, Humans, Male, Urologic Surgical Procedures, Male methods, Cryptorchidism surgery, Robotic Surgical Procedures, Testis transplantation, Transplantation, Autologous methods
- Abstract
Silber and Kelly first described the successful autotransplantation of an intra-abdominal testis in 1976. Subsequent authors incorporated laparoscopy and demonstrated the viability of transplanted testes based on serial postoperative exams. We sought to extend this experience with use of the da Vinci surgical robot, thereby demonstrating a novel robotic technique for the management of cryptorchidism. The procedure was performed for an 18-year-old male with a solitary left intra-abdominal testis. Following establishment of pneumoperitoneum, the robot is docked with four trocars oriented towards the left lower quadrant. Testicular dissection is carried out as shown. The gonadal and inferior epigastric vessels are isolated and mobilized; once adequate length is achieved, the former is clipped and transected, and the testicle and inferior epigastric vessels are delivered out of the body. The robot is then undocked and exchanged for the operating microscope. Arterial and venous anastomoses are completed with interrupted and running 9-0 Nylon, respectively, and satisfactory re-anastomosis is confirmed visually and with Doppler. The transplanted testicle is then fixed inferiorly and laterally within the left hemiscrotum, and all incisions are closed. We note that intraoperative testicular biopsy was not performed, for three reasons: (1) to avoid further risk to an already tenuous, solitary organ, (2) because our primary aim was to preserve testicular endocrine function, and (3) because the presence of ITGCN would neither prompt orchiectomy nor obviate the need for ongoing surveillance via periodic self-examination and ultrasonography. The patient is maintained on bed rest for two days and discharged on postoperative day seven in good condition. Over one year since autotransplantation, his now intra-scrotal testicle remains palpable and stable in size. Serum testosterone is unchanged from preoperative measurements. Robotic-assisted testicular autotransplantation is a feasible and efficacious management option for the solitary intra-abdominal testis., (Copyright © 2021 Elsevier Inc. All rights reserved.)
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- 2022
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16. Long-term lower urinary tract sequelae following AUS cuff erosion.
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Chertack NA, Caldwell KM, Joice GA, Kavoussi M, Dropkin BM, Ortiz NM, Baumgarten AS, Shakir NA, Sanders SC, Hudak SJ, and Morey AF
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- Aged, Device Removal adverse effects, Humans, Male, Retrospective Studies, Urethra surgery, Urethral Stricture complications, Urinary Incontinence, Stress surgery, Urinary Sphincter, Artificial adverse effects
- Abstract
Aims: To examine the rate of lower urinary tract complications (LUTC) and urinary diversion (UD) after artificial urinary sphincter (AUS) explantation with the acute reconstruction of AUS cuff erosion defects., Methods: We performed a retrospective study of patients who underwent in-situ urethroplasty (ISU) for AUS cuff erosion from June 2007 to December 2020. Outcomes included LUTC (urethral stricture, diverticulum, fistula), AUS reimplantation, and UD. Defect size was prospectively estimated acutely and a subanalysis was performed to determine the impact of erosion severity (small erosions [<33% circumferential defect] and large erosions [≥33%]) on these outcomes. Kaplan-Meier curves were created to compare survival between the two groups., Results: A total of 40 patients underwent ISU for urethral cuff erosion. The median patient age was 76 years old with a median erosion circumference of 46%. The overall LUTC rate was 30% (12/40) with 35% (14/40) of patients requiring permanent UD. Secondary AUS placement occurred in 24/40 (60%) patients with 11/24 (46%) leading to repeat erosion. On subanalysis, small erosion was associated with improved LUTC-free and UD-free survival but not associated with AUS reimplantation., Conclusions: Lower urinary tract complications are common after AUS cuff erosion and can lead to the need for permanent UD. Patients with larger erosions are more likely to undergo UD and reach this end-stage condition earlier compared to patients with small erosions., (© 2021 Wiley Periodicals LLC.)
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- 2022
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17. Robotic Assisted Repair of Post-Ileal Conduit Parastomal Hernia: Technique and Outcomes.
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Xu AJ, Shakir NA, Jun MS, and Zhao LC
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- Aged, Female, Humans, Male, Retrospective Studies, Treatment Outcome, Incisional Hernia surgery, Laparoscopy, Ostomy, Postoperative Complications surgery, Robotic Surgical Procedures methods, Urinary Diversion
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Objective: To describe a novel method of robotic assisted laparoscopic parastomal hernia repair (RAL-PHR), including the evolving use of the Da Vinci Single Port (SP) robotic system., Methods: Demographic, intraoperative, and postoperative variables were collected for patients who underwent RAL-PHR. The technique for RAL-PHR utilizes a 3 cm incision in the contralateral upper quadrant for the robotic trocar and a 12 mm assistant port. The hernia sac is freed from the fascial defect. Dual Surface Mesh is approximated to the fascial edges with a portion excised to tailor the conduit., Results: Four patients underwent RAL-PHR and three utilized the SP robot. Median age was 74.4 (range: 69.0-76.9) and median BMI 28.6 (26.5-43.2). All patients underwent cystectomy for bladder cancer and median time from index operation to parastomal hernia repair was 47.3 (40.4-11.48) months. Concurrent operations to hernia repair included ureteroenteric stricture repair, panniculectomy, abdominal wall reconstruction, stoma revision, and incisional hernia repair. Median operative time was 3.9 (2.6-8.7) hours including concurrent operations, median EBL was 50 (10-100) cc, mesh used in 3 cases, with no intraoperative complications reported. Median length of stay was 1 day and 1 post-operative complication greater than Clavien 2 reported. At median follow up of 18.3 (3.63-38.3) months, no recurrences were reported and 1 patient had undergone stoma dilation in the OR., Conclusion: RAL-PHR using the SP system maximizes advantages of laparoscopic repair while allowing for flexibility to perform concurrent procedures and safer takedown of adhesions through just two incisions. RAL-PHR is a safe and effective alternative to open and laparoscopic parastomal hernia repair with several additional benefits., (Copyright © 2021 Elsevier Inc. All rights reserved.)
- Published
- 2021
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18. Editorial Commentary.
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Shakir NA and Zhao LC
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- 2021
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19. The emerging role of robotics in upper and lower urinary tract reconstruction.
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Zhao CC, Shakir NA, and Zhao LC
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- Humans, Urinary Bladder, Urologic Surgical Procedures, Robotics, Ureter, Ureteral Obstruction
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Purpose of Review: Developments in robotic reconstructive urology have introduced novel treatments for complex upper and lower urinary tract disease. Short-term and mid-term data demonstrates excellent outcomes and minimal morbidity, suggesting the advanced instrumentation and visualization of robotics represent a new treatment paradigm in patients that are historically difficult to treat. Here we review recent developments in the robotically assisted surgical management of urethral and ureteral strictures., Recent Findings: The minimally invasive approach, enhanced precision and reach, and near-infrared fluorescence imaging capabilities of robotic platforms have proven to be valuable additions in reconstructive urology where perfusion is often compromised, or anatomy is distorted. These benefits are leveraged heavily in recent descriptions of robotic-assisted posterior urethroplasty and ureteroplasty. Short-term to mid-term follow-up data for these procedures show excellent patency rates with low morbidity and complication rates when compared with open approaches. Long-term data for these procedures are not yet available., Summary: The role of robotics in reconstructive urology is being actively investigated. Initial findings demonstrate excellent results with low morbidity in the treatment of upper and lower urinary tract disease. Long-term data will ultimately determine the role of robotics in the reconstructive armamentarium., (Copyright © 2021 Wolters Kluwer Health, Inc. All rights reserved.)
- Published
- 2021
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20. Clinical Outcomes of a Combined Robotic, Transabdominal, and Open Transperineal Approach for Anastomotic Posterior Urethroplasty.
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Cavallo JA, Vanni AJ, Dy GW, Stair S, Shakir NA, Canes D, and Zhao LC
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- Humans, Male, Retrospective Studies, Treatment Outcome, Urethra surgery, Pelvic Bones, Robotic Surgical Procedures adverse effects, Urethral Stricture
- Abstract
Background: Robotic pelvic surgery is being increasingly utilized for reconstruction proximal to the genitourinary diaphragm. We describe a combined robotic, transabdominal, and open transperineal approach for complex anastomotic posterior urethroplasty. Materials and Methods: We performed a multi-institutional retrospective study of patients who underwent anastomotic posterior urethroplasty by a combined robotic, transabdominal, and open transperineal approach between January 2012 and December 2018. Patient demographics; preoperative, intraoperative, and postoperative clinical data; and complications were reviewed. Urethroplasty success, de novo stress urinary incontinence (SUI), and de novo erectile dysfunction (ED) were evaluated. Results: Twelve patients were identified with a mean follow-up of 596 (range 73-1618) days. Mean patient age was 65.9 (range 53.4-76.8). Reconstruction required corporal splitting, prostatectomy, and gracilis muscle flap use in one (8.3%), eight (66.7%), and four (33.3%) patients, respectively. Postoperative urinary leak, thromboembolic event, and wound abscess occurred in one (8.3%), one (8.3%), and two (16.7%) patients, respectively. Stenosis recurrence occurred in two patients (16.7%) at a mean 187.5 (20-355) postoperative days. De novo ED and de novo SUI were reported in two (16.7%) and four (33.3%) patients, respectively. Nine patients (75.0%) underwent placement of an artificial urinary sphincter at a mean interval of 359.2 (111-1456) days after the index procedure, with no subsequent erosion. Conclusions: Complex posterior urethroplasty by a combined robotic, transabdominal and open transperineal approach is associated with success and complications rates that are comparable to open techniques and may allow for adjunctive procedures such as prostatectomy. This technique allows for the reconstruction of posterior urethral stenoses that would otherwise have been managed conservatively or with urinary diversion.
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- 2021
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21. AUTHOR REPLY.
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Dy GW, Blasdel G, Shakir NA, Bluebond-Langner R, and Zhao LC
- Published
- 2021
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22. Robotic Peritoneal Flap Revision of Gender Affirming Vaginoplasty: a Novel Technique for Treating Neovaginal Stenosis.
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Dy GW, Blasdel G, Shakir NA, Bluebond-Langner R, and Zhao LC
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- Adult, Constriction, Pathologic surgery, Female, Gynecologic Surgical Procedures methods, Humans, Middle Aged, Retrospective Studies, Treatment Outcome, Peritoneum surgery, Postoperative Complications surgery, Reoperation methods, Robotic Surgical Procedures, Sex Reassignment Surgery methods, Surgical Flaps, Vagina surgery, Vaginal Diseases surgery
- Abstract
Objectives: To present the technique and early outcomes of salvage neovaginal reconstruction using robotic dissection and peritoneal flap mobilization., Methods: Twenty-four patients underwent robotic peritoneal flap revision vaginoplasty from 2017 to 2020. A canal is dissected between the bladder and rectum towards the stenosed vaginal cavity, which is incised and widened. Peritoneal flaps from the posterior bladder and pararectal fossa are advanced and sutured to edges of the stenosed cavity. Proximal peritoneal flap edges are approximated to form the neovaginal apex. Patient demographics, comorbidities, surgical indications, and operative details are described. Outcome measures include postoperative neovaginal dimensions and complications., Results: Mean age at revision was 39 years (range 27-58). All patients had previously undergone PIV, with revision surgery occurring at a median 35.3 months (range 6-252) after primary vaginoplasty. Surgical indications included short or stenotic vagina or absent canal. Average procedure length was 5 hours. At mean follow up of 410 days (range 179-683), vaginal depth and width were 13.6 cm (range 10.9-14.5) and 3.6 cm (range 2.9-3.8), respectively. There were no immediate or intraoperative complications related to peritoneal flap harvest. No patient had rectal injury. One patient had post-operative canal bleeding requiring return to the operating room for hemostasis., Conclusions: Robotic peritoneal flap vaginoplasty is a safe, novel approach to canal revision after primary PIV with minimal donor site morbidity., (Copyright © 2021 Elsevier Inc. All rights reserved.)
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- 2021
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23. Robotic-assisted genitourinary reconstruction: current state and future directions.
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Shakir NA and Zhao LC
- Abstract
With the widespread dissemination of robotic surgical platforms, pathology previously deemed insurmountable or challenging has been treated with reliable and replicable outcomes. The advantages of precise articulation for dissection and suturing, tremor reduction, three-dimensional magnified visualization, and minimally invasive trocar sites have allowed for the management of such diverse disease as recurrent or refractory bladder neck stenoses, and radiation-induced ureteral strictures, with excellent perioperative and functional outcomes. Intraoperative adjuncts such as near-infrared imaging aid in identification and preservation of healthy tissue. More recent developments include robotics via the single port platform, gender-affirming surgery, and multidisciplinary approaches to complex pelvic reconstruction. Here, we review the recent literature comprising developments in robotic-assisted genitourinary reconstruction, with a view towards emerging technologies and future trends in techniques., Competing Interests: Conflict of interest statement: The authors certify that they have no affiliations with or involvement in any organization or entity with any financial interest (such as honoraria; educational grants; participation in speakers’ bureaus; membership, employment, consultancies, stock ownership, or other equity interest; and expert testimony or patent-licensing arrangements), or non-financial interest (such as personal or professional relationships, affiliations, knowledge or beliefs) in the subject matter or materials discussed in this manuscript., (© The Author(s), 2021.)
- Published
- 2021
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24. Letter to the Editor.
- Author
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Shakir NA
- Published
- 2021
25. Robotic-assisted Vaginectomy During Staged Gender-affirming Penile Reconstruction Surgery: Technique and Outcomes.
- Author
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Jun MS, Shakir NA, Blasdel G, Cohen O, Levine JP, Bluebond-Langner R, and Zhao LC
- Subjects
- Adult, Female, Humans, Male, Postoperative Complications, Retrospective Studies, Surgical Flaps, Vagina surgery, Young Adult, Robotic Surgical Procedures, Sex Reassignment Surgery methods
- Abstract
Objective: To report our novel technique and mid-term follow-up for robotic-assisted laparoscopic vaginectomy (RALV), a component procedure of staged gender-affirming penile reconstructive surgery., Materials and Methods: The records of patients seeking gender-affirming penile reconstructive surgery who underwent RALV, performed by a single surgeon at our institution, between May 2016 and January 2020 were reviewed retrospectively for demographic and perioperative data. Patients were included irrespective of history of previous phalloplasty. A subset of these patients elected to have urethral lengthening during second stage phalloplasty for which an anterior vaginal mucosa flap urethroplasty was performed. Postoperative complications and outcomes and most recent follow-up were obtained., Results: A total of 42 patients were reviewed, of whom 19 (45%) patients ultimately had radial forearm free flap, 15 (41%) had anterolateral thigh flap, 5 (12%) had metoidioplasty, and 1 (2.4%) had abdominal phalloplasty. A vaginal mucosa and gracilis flap was used in all of 36 (86%) patients in whom a pars fixa was created. Average operative time was 299 minutes (range 153-506). Median estimated blood loss was 200 mL (range 100-400). Median length of stay was 3 days (range 1-7). Complications within 30 days from surgery occurred in 15 patients (36%), of whom 12/15 were Clavien-Dindo grade 1 or 2, and 11/15 had complications unrelated to vaginectomy. Of the 4 patients who had vaginectomy-related complications, all resolved with conservative management. Median overall follow-up was 15.8 months., Conclusion: RALV offers a safe and efficient approach during staged gender-affirming penile reconstruction and may mitigate the subsequent risk of urethral complications., (Copyright © 2021 Elsevier Inc. All rights reserved.)
- Published
- 2021
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26. ADP-dependent glucose/glucosamine kinase from Thermococcus kodakarensis: cloning and characterization.
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Shakir NA, Aslam M, Bibi T, and Rashid N
- Subjects
- Adenosine Diphosphate metabolism, Adenosine Diphosphate Glucose metabolism, Amino Acid Sequence, Archaeal Proteins genetics, Archaeal Proteins metabolism, Binding Sites, Biocatalysis, Cloning, Molecular, Escherichia coli genetics, Escherichia coli metabolism, Gene Expression, Genetic Vectors chemistry, Genetic Vectors metabolism, Glucokinase genetics, Glucokinase metabolism, Glucosamine metabolism, Glucose metabolism, Kinetics, Molecular Docking Simulation, Protein Binding, Protein Conformation, alpha-Helical, Protein Conformation, beta-Strand, Protein Interaction Domains and Motifs, Recombinant Proteins chemistry, Recombinant Proteins genetics, Recombinant Proteins metabolism, Sequence Alignment, Sequence Homology, Amino Acid, Substrate Specificity, Thermococcus chemistry, Thermodynamics, Adenosine Diphosphate chemistry, Adenosine Diphosphate Glucose chemistry, Archaeal Proteins chemistry, Glucokinase chemistry, Glucosamine chemistry, Glucose chemistry, Thermococcus enzymology
- Abstract
The genome sequence of Thermococcus kodakarensis contains an open reading frame, TK1110, annotated as ADP-dependent glucokinase. The encoding gene was expressed in Escherichia coli and the gene product, TK-GLK, was produced in soluble and active form. The recombinant enzyme was extremely thermostable. Thermostability was increased significantly in the presence of ammonium sulfate. ADP was the preferred co-factor for TK-GLK, which could be replaced with CDP but with a 60% activity. TK-GLK was a metal ion-dependent enzyme which exhibited glucokinase, glucosamine kinase and glucose 6-phosphatase activities. It catalyzed the phosphorylation of both glucose and glucosamine with nearly the same rate and affinity. The apparent K
m values for glucose and glucosamine were 0.48 ± 0.03 and 0.47 ± 0.09 mM, respectively. The catalytic efficiency (kcat /Km ) values against these two substrates were 6.2 × 105 ± 0.25 and 5.8 × 105 ± 0.75 M-1 s-1 . The apparent Km value for dephosphorylation of glucose 6-phosphate was ~14-fold higher than that of glucose phosphorylation. Similarly, catalytic efficiency (kcat /Km ) for phosphatase reaction was ~19-fold lower than that for the kinase reaction. To the best of our knowledge, this is the first report that describes the reversible nature of a euryarchaeal ADP-dependent glucokinase., (Copyright © 2021 Elsevier B.V. All rights reserved.)- Published
- 2021
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27. Propeller Flap Perineal Urethrostomy Revision.
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Schulster ML, Dy GW, Vranis NM, Jun MS, Shakir NA, Levine JP, and Zhao LC
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- Humans, Male, Middle Aged, Reoperation, Urologic Surgical Procedures, Male methods, Ostomy, Perforator Flap, Perineum surgery, Urethra surgery, Urethral Stricture surgery
- Abstract
Objective: To describe a technique for perineal urethrostomy (PU) revision using a posterior thigh propeller flap for a complex repair at high risk for stenosis., Methods: Our technique utilizes the consistent posterior thigh perforators for a local flap with ideal length and thickness for repair. The stenotic PU is incised. Potential flaps are marked around a perforator blood supply closest to the defect. The flap is then elevated and rotated on its pedicle with its apex placed directly in the defect. Absorbable sutures partially tubularize the flap apex at the level of the urethrotomy which is calibrated to 30 Fr. We subsequently monitored the patient's clinical progress., Results: With 17 months of follow-up the patient is voiding well without complaint, reports improved quality of life with a patent PU. Post void residuals have been less than 100cc. The patient, who has had a long history of urinary tract infections requiring hospitalization, has only reported one infection during follow up which was treated as an out-patient., Conclusion: For challenging PU revisions a distant local propeller flap of healthy tissue outside the zone of injury is the ideal choice for length, thickness, and minimal morbidity resulting in excellent clinical results for our patient., (Copyright © 2020. Published by Elsevier Inc.)
- Published
- 2021
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28. EDITORIAL COMMENT.
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Shakir NA and Zhao LC
- Published
- 2020
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29. Multidimensional outcomes of suburethral synthetic midurethral sling removal.
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Shakir NA, Wang C, Singla N, Alhalabi F, Christie A, Lemack GE, and Zimmern PE
- Subjects
- Aged, Female, Humans, Middle Aged, Prosthesis Design, Recurrence, Retrospective Studies, Treatment Outcome, Device Removal adverse effects, Dyspareunia etiology, Pain, Postoperative etiology, Postoperative Complications etiology, Suburethral Slings, Urinary Incontinence, Stress surgery, Urinary Tract Infections etiology
- Abstract
Purpose: To report multidimensional outcomes encompassing pain, dyspareunia, and recurrent urinary tract infections (UTIs), following suburethral sling removal (SSR) of synthetic midurethral slings (MUS) placed for female stress urinary incontinence., Methods: We reviewed a prospectively maintained, IRB-approved database of women undergoing SSR at our institution. Demographic data, type of sling, and symptoms along with Urogenital Distress Inventory-Short Form (UDI-6) scores both before and after SSR were analyzed. Success was defined using several modalities including patient-reported symptoms (ideal outcome) and UDI-6 questionnaire., Results: From 3/2006-2/2017, 443 women underwent SSR of which 230 met study criteria with median overall follow-up of 23 months (mean 30 months). 180/230 (78%) patients reported 3 or more symptoms at presentation. Median most recent post-SSR total UDI-6 score was 38 vs. 50 at baseline (p < 0.0001). By UDI-6, 53% of patients achieved success post-SSR. An ideal outcome was attained in 22/230 (10%) patients. A modified outcome allowing for one minimally invasive anti-incontinence procedure and excluding sexual activity classified 112/230 (49%) patients as successes., Conclusions: While patients with MUS present with multiple symptoms, following SSR, there is sustained improvement in multiple symptom domains, including pain and urinary incontinence. Allowing for minimally invasive anti-incontinence procedures (not inclusive of subsequent suburethral sling), the rate of success was 49%, which was comparable to that derived from UDI-6 scores (53%).
- Published
- 2020
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30. Comparison of 3.5 cm and transcorporal cuffs in high-risk artificial urinary sphincter populations.
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Davenport MT, Akhtar AM, Shakir NA, Baumgarten AS, Yi YA, Bergeson RL, Ward EE, and Morey AF
- Abstract
Background: The transcorporal (TC) artificial urinary sphincter (AUS) has traditionally been utilized in high-risk patients with urethral atrophy or prior urethral erosion. The 3.5 cm AUS cuff has been developed for use in a similar population. We compared the outcomes of TC AUS and 3.5 cm cuff patients to assess whether the TC approach was protective against urethral complications., Methods: We performed a retrospective review for all men who underwent TC AUS and 3.5 cm AUS implantation by a single surgeon from 2007 to 2018 at a tertiary medical center. Demographic and outcomes data were collected and analyzed after database review to evaluate for rates of urethral erosion. Multivariate logistic regression was performed to identify co-morbid factors associated with urethral erosion., Results: In our database of 625 AUS patients, we identified 59 (9%) men with TC AUS and 168 (27%) having a 3.5 cm cuff. Over a median follow-up time of 49 months, 28 (47%) men with TC cuffs developed urethral erosion compared with 25 (15%) men with a 3.5 cm cuff. On univariate analysis, a TC cuff was associated with increased odds of erosion (OR 6.65, 95% CI: 3.20-14.4, P<0.0001) when compared with a 3.5 cm cuff. On multivariate analysis, TC cuffs continued to portend significantly increased odds of cuff erosion., Conclusions: With longer follow up, TC AUS may not be as protective against urethral complications as previously described., Competing Interests: Conflicts of Interest: Dr. Allen F. Morey receives honoraria for being a guest lecturer/meeting participant for Boston Scientific and Coloplast Corp. The other authors have no conflicts of interest to declare., (2020 Translational Andrology and Urology. All rights reserved.)
- Published
- 2020
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31. An update on oxidized regenerated cellulose (fibrillar™) in reducing postoperative corporal bleeding following inflatable penile prosthesis surgery.
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Wolfe AR, Davenport MT, Rozanski AT, Shakir NA, Ward EE, West ML, and Morey AF
- Abstract
Background: Scrotal hematoma formation is a dreaded complication of penile prosthesis surgery that increases patient pain and healthcare costs, as well the risk for eventual device infection and failure. The efficacy of hemostatic agents in reducing the incidence of scrotal hematoma development has not been extensively studied in urologic prosthetic surgery. In this paper we further evaluate our experience with oxidized regenerated cellulose (ORC; Surgicel Fibrillar™) as an adjunct to standard hemostatic practices in inflatable penile prosthesis (IPP) implantation., Methods: From April 2016 onward, intracorporal ORC pledgets were placed during corporotomy closure in all patients undergoing IPP implantation or revision by a single surgeon using an identical surgical technique. Perioperative parameters and outcomes-primarily postoperative cumulative drain output, secondarily patient phone calls in the postoperative period-were compared among successive cases with ORC (April 2016 to February 2019) and without ORC (April 2013 to March 2016)., Results: A total of 274 men underwent IPP implantation during the study period; 175 (64%) had ORC included in their corporotomy closures. Median drain output was significantly reduced in the ORC patients relative to the non-ORC group (50 vs. 65 mL; P=0.0001). A significant reduction in patient-initiated phone calls regarding scrotal pain, swelling, or discomfort in the first 4 weeks following surgery was also observed in the ORC group (average 0.69 vs. 1.1 calls per patient; P=0.03). A total of 9 patients underwent IPP explantation during the study period, all due to device infection; 5 of these were in the ORC group, while 4 were in the non-ORC group (P=0.73). ORC use did not constitute any additional infection risk., Conclusions: Bilateral incorporation of ORC pledgets during corporotomy closure in IPP surgery significantly decreases postoperative scrotal drain output, a well-documented risk factor for scrotal hematoma formation., Competing Interests: Conflicts of Interest: Dr. Allen F. Morey receives honoraria for being a guest lecturer/meeting participant for Boston Scientific and Coloplast Corp. The other authors have no conflicts of interest to declare., (2020 Translational Andrology and Urology. All rights reserved.)
- Published
- 2020
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32. Balloon dilation performs poorly as a salvage management strategy for recurrent bulbar urethral strictures following failed urethroplasty.
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Yi YA, Rozanski AT, Shakir NA, Viers BR, Ward EE, Bergeson RL, and Morey AF
- Abstract
Background: The optimal management strategy for recurrent urethral stricture disease (USD) following urethroplasty remains undefined. We aim to evaluate the role and efficacy of endoscopic urethral balloon dilation in temporizing recurrent USD after failed urethroplasty., Methods: Between 2007-2018 at our institution, 80 patients underwent balloon dilation procedures for bulbomembranous urethral strictures. Balloon dilation was performed with an 8-cm, 24-French UroMax Ultra™ balloon dilator, under direct vision, guided by a 16-French flexible cystoscope. Patients who underwent concomitant open or endoscopic urethral procedures were excluded. Treatment failure was defined as the need for subsequent surgical intervention for stricture recurrence. Stricture characteristics including etiology, length, location, severity stage, and prior surgical procedures were compared between patients with and without treatment failure., Results: Failure cases were more likely to have strictures following urethroplasty (21/27, 78%) [ vs . the no-failure group (27/53, 51%)]. Among the 27/80 (33.8%) failures with a median follow-up of 8.4 months (IQR, 3.9-22.5 months), median time to recurrence was 4 months (IQR, 2-12 months). These patients had a greater incidence of prior stricture intervention in general (P=0.01) and prior urethroplasty specifically (P=0.03). On multivariable analysis, the number of prior treatments specifically independently remained associated with treatment failure. Complications of balloon dilation were uncommon (6/80, 7.5%) and minor in nature., Conclusions: Endoscopic balloon dilation performs poorly as a salvage strategy after failed open urethral reconstruction in addition to prior urethral dilations., Competing Interests: Conflicts of Interest: Dr. AF Morey receives honoraria for being a guest lecturer/meeting participant for Boston Scientific and Coloplast Corp. The other authors have no conflicts of interest to declare., (2020 Translational Andrology and Urology. All rights reserved.)
- Published
- 2020
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33. Outpatient buccal mucosal graft urethroplasty outcomes are comparable to inpatient procedures.
- Author
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McKibben MJ, Davenport MT, Mukherjee P, Shakir NA, West ML, Fuchs JS, Ward EE, Bergeson RL, Scott JM, and Morey AF
- Abstract
Background: We sought to compare outcomes between inpatient and outpatient buccal mucosal graft (BMG) urethroplasty among a large tertiary referral center series., Methods: A retrospective review of consecutive patients who underwent BMG urethroplasty between 2007 and 2018 was performed, including only first stage and one stage graft procedures. Patients were divided into inpatient and outpatient groups. Demographic and outcome data were collected and analyzed, with success defined as no need for further endoscopic or open reoperative management., Results: Of 143 patients undergoing BMG urethroplasty during the study period, 87 cases (60.8%) were performed on an inpatient basis, and 56 (39.2%) on an outpatient basis. Patient characteristics such as age, BMI, prior endoscopic procedures and co-morbid factors were similar between inpatient and outpatient groups. Perioperative characteristics such as estimated blood loss were also similar between groups, but the inpatient cohort had a longer operative time (157.6 vs. 123.1 min, P<0.0001). Operative success was comparable in the two groups (74.7% inpatient vs. 76.8% outpatient, P=0.7) as were rates of complications (29.9% inpatient vs. 26.8% outpatient, P=0.07)., Conclusions: BMG urethroplasty can be safely performed in an ambulatory setting without increased complications or compromised outcomes., Competing Interests: Conflicts of Interest: Dr. AF Morey receives honoraria for being a guest lecturer/meeting participant for Boston Scientific and Coloplast Corp. The other authors declare that they have no relevant financial interests., (2020 Translational Andrology and Urology. All rights reserved.)
- Published
- 2020
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34. Biochemical characterization of a highly active ADP-dependent phosphofructokinase from Thermococcus kodakarensis.
- Author
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Shakir NA, Bibi T, Aslam M, and Rashid N
- Subjects
- Archaeal Proteins genetics, Enzyme Stability, Fructosephosphates metabolism, Glucose metabolism, Hydrogen-Ion Concentration, Kinetics, Phosphorylation, Phosphotransferases (Alcohol Group Acceptor) genetics, Recombinant Proteins metabolism, Thermococcus chemistry, Thermococcus genetics, Thermococcus metabolism, Archaeal Proteins chemistry, Archaeal Proteins metabolism, Phosphotransferases (Alcohol Group Acceptor) chemistry, Phosphotransferases (Alcohol Group Acceptor) metabolism, Thermococcus enzymology
- Abstract
The genome sequence of Thermococcus kodakarensis contains an open reading frame, TK0376, annotated as ADP-dependent phosphofructokinase belonging to pfkC family. The encoding gene was expressed in Escherichia coli and the gene product was characterized. The recombinant protein was produced in soluble and active form. Phosphofructokinase activity of TK0376 was metal-ion dependent and the highest activity (5090 μmol min
-1 mg-1 ) was found in the presence of Co2+ followed by Mg2+ (3280 μmol min-1 mg-1 ) at 90°C and pH 7.5. TK0376 preferred ADP as phosphoryl donor, however, it could be replaced by ATP but with a 5-fold lower activity. It catalyzed the phosphorylation of fructose 6-phosphate and dephosphorylation of fructose 1,6-bisphosphate. In addition, it was able to phosphorylate glucose and nucleosides but with a much lower rate compared to that of fructose 6-phosphate. The apparent kcat and Km values against fructose 6-phosphate were 4238 s-1 and 0.74 mM, respectively. The rate of dephosphorylation of fructose 1,6-bisphosphate was 3-times lower at 50°C than the phosphorylation of fructose 6-phosphate. Similarly, the rate of phosphorylation of glucose was 450-fold lower than that of fructose 6-phosphate. Phosphofructokinase activity was not allosterically regulated, but it was slightly enhanced by phosphoenol pyruvate, and inhibited by ATP and AMP in a competitive manner., (Copyright © 2019 The Society for Biotechnology, Japan. Published by Elsevier B.V. All rights reserved.)- Published
- 2020
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35. Excision and Primary Anastomosis Reconstruction for Traumatic Strictures of the Pendulous Urethra.
- Author
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Shakir NA, Fuchs JS, Haney N, Viers BR, Cordon BH, McKibben M, Scott J, Armenakas NA, and Morey AF
- Subjects
- Adult, Anastomosis, Surgical, Humans, Male, Middle Aged, Urologic Surgical Procedures, Male methods, Urethra surgery, Urethral Stricture surgery
- Abstract
Objectives: To present a multi-institutional experience with functional and patient-reported outcomes among men undergoing excision and primary anastomosis (EPA) urethroplasty for pendulous urethral strictures., Methods: We describe the technique and present our experience with EPA for focal penile strictures. Patients undergoing urethroplasty (2004-2017) at 2 tertiary referral centers were reviewed, of whom 14 (0.7%) underwent EPA of radiographically confirmed pendulous urethral strictures. Validated questionnaires were utilized to evaluate overall improvement (Patient Global Impression of Improvement), urinary bother (International Prostate Symptom Score), and sexual function (International Index of Erectile Function-5). Treatment success was defined as urethral patency without need for subsequent reconstruction., Results: Among 14 men undergoing penile EPA, 13/14 (93%) had durable treatment success over a median follow-up of 43 months. No patient reported penile curvature postoperatively. Stricture etiology in most cases was posttraumatic (12/14), of which 4 had a history of urethral disruption secondary to penile fracture and 8 iatrogenic trauma. Median age was 51 years (IQR 30-60) and stricture length 1.0 cm (IQR 1.0-1.4). Erectile function was normal in 8/14 patients preoperatively, and postoperative median International Index of Erectile Function was 21. Most men reported significant global improvement in condition (median Patient Global Impression of Improvement 2, IQR 1-3) and most had only mild urinary bother (median International Prostate Symptom Score 4, quality of life 1). The single treatment failure had a history of hypospadias with multiple prior urethral procedures., Conclusion: For men with short strictures of the pendulous urethra, EPA has a high success rate, without adverse sequelae such as erectile function or penile curvature., (Copyright © 2018 Elsevier Inc. All rights reserved.)
- Published
- 2019
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36. Assessment of Renal Deterioration and Associated Risk Factors in Patients With Multiple Sclerosis.
- Author
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Shakir NA, Satyanarayan A, Eastman J, Greenberg BM, and Lemack GE
- Subjects
- Adult, Female, Follow-Up Studies, Humans, Kidney Diseases epidemiology, Male, Middle Aged, Retrospective Studies, Risk Factors, Kidney Diseases etiology, Multiple Sclerosis complications
- Abstract
Objective: To evaluate predictors of renal deterioration (RD) in patients with multiple sclerosis (MS) at a tertiary referral center., Methods: We reviewed adult patients with MS presenting for evaluation of lower urinary tract symptoms, with baseline urodynamic study (UDS) and either serum creatinine (SCr) or renal ultrasound, from a prospectively maintained database, and excluded patients with abnormal renal function. RD was defined as doubled SCr, new hydronephrosis, or renal atrophy on follow-up ultrasound. Demographic and UDS parameters were evaluated in multivariable models of RD., Results: From 1999 to 2016, 660 patients were evaluated, and 355 met criteria with median follow-up of 79 months. SCr doubled in 8 patients, 4 had decline by renal ultrasound, and 1 by both (3%). Overall, 46 patients met less strict criteria of decrease in estimated glomerular filtration rate by ≥30%. Using the less rigid criterion, detrusor overactivity (DO) remained associated with RD on multivariable analysis. Eleven of 355 patients had RD by either imaging or doubled Cr, with which only history of diabetes mellitus and nephrolithiasis were associated., Conclusion: By strict criteria, the rate of RD in patients with neurogenic bladder due to MS was low (3%) at intermediate-term follow-up and was not associated with UDS parameters. Using more liberal criteria, DO was associated with deterioration, suggesting that study of the impact of more aggressive control of DO in this population may be warranted., (Copyright © 2018 Elsevier Inc. All rights reserved.)
- Published
- 2019
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37. Reply by Authors.
- Author
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Viers BR, VanDyke ME, Pagliara TJ, Shakir NA, Scott JM, and Morey AF
- Published
- 2018
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38. Refined nomogram incorporating standing cough test improves prediction of male transobturator sling success.
- Author
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Shakir NA, Fuchs JS, McKibben MJ, Viers BR, Pagliara TJ, Scott JM, and Morey AF
- Subjects
- Aged, Area Under Curve, Humans, Logistic Models, Male, Middle Aged, Multivariate Analysis, Nomograms, Outcome Assessment, Health Care, Postoperative Complications surgery, Prostatectomy, ROC Curve, Radiotherapy, Transurethral Resection of Prostate, Treatment Failure, Treatment Outcome, Urinary Incontinence, Stress physiopathology, Cough, Suburethral Slings, Urinary Incontinence, Stress surgery
- Abstract
Aims: To develop a decision aid in predicting sling success, incorporating the Male Stress Incontinence Grading Scale (MSIGS) into existing treatment algorithms., Methods: We reviewed men undergoing first-time transobturator sling for stress urinary incontinence (SUI) from 2007 to 2016 at our institution. Patient demographics, reported pads per day (PPD), and Standing Cough Test (SCT) results graded 0-4, according to MSIGS, were assessed. Treatment failure was defined as subsequent need for >1 PPD or further procedures. Parameters associated with failure were included in multivariable logistic models, compared by area under the receiver-operating characteristic curves. A nomogram was generated from the model with greatest AUC and internally validated., Results: Overall 203 men (median age 67 years, IQR 63-72) were evaluated with median follow-up of 45 months (IQR 11-75 months). A total of 185 men (91%) were status-post radical prostatectomy and 29 (14%) had pelvic radiation history. Median PPD and SCT grade were both two. Eighty men (39%) failed treatment (use of ≥1 PPD or subsequent anti-incontinence procedures) at a median of 9 months. History of radiation (P = 0.03), increasing MSIGS (P < 0.0001) and increasing preoperative PPD (P < 0.0001) were associated with failure on univariate analysis. In a multivariable model with AUC 0.81, MSIGS, and PPD remained associated (P = 0.002 and <0.0001 respectively, and radiation history P = 0.06), and was superior to models incorporating PPD and radiation alone (AUC 0.77, P = 0.02), PPD alone (AUC 0.76, P = 0.02), and a cutpoint of >2 PPD alone (AUC 0.71, P = 0.0001)., Conclusions: MSIGS adds prognostic value to PPD in assessing success of transobturator sling for treatment of SUI., (© 2018 Wiley Periodicals, Inc.)
- Published
- 2018
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39. Improving Male Sling Selectivity and Outcomes-A Potential Role for Physical Demonstration of Stress Urinary Incontinence Severity?
- Author
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Viers BR, VanDyke ME, Pagliara TJ, Shakir NA, Scott JM, and Morey AF
- Abstract
Introduction: We reviewed our 9-year experience with AdVance™ Male Sling System cases to determine clinical features associated with treatment success and to refine procedure selectivity. We hypothesized that preoperative physical demonstration of stress urinary incontinence by the standing cough test improves patient selection for male sling surgery., Methods: Retrospective review of primary AdVance sling surgeries between 2008 and 2016 was performed. Patients without standing cough test results were excluded from study. Success was defined as 1 pad per day or less postoperatively and no further intervention. Standing cough test was performed during preoperative consultation and objectively graded using the MSIGS (Male Stress Incontinence Grading Scale)., Results: Of the 203 male patients who underwent sling placement 80 (39%) experienced treatment failure during a median followup of 63.5 months. From 2008 to 2016 the proportion of AdVance slings performed as a surgical treatment modality for stress urinary incontinence decreased from 66% to 13%. Increasing selectivity correlated with greater treatment success. Success was greater among men using 2 pads per day or less preoperatively (77% vs 36%, p <0.0001), having physical findings of mild stress urinary incontinence (MSIGS grade 0-2 on standing cough test, 67% vs 26%, p <0.0001) and without a history of radiation (64% vs 41%, p=0.02). In combination, men without prior radiation with mild stress urinary incontinence and favorable standing cough test were "ideal patients" with an 81% success rate. Incremental increases in pad per day use (OR 1.8 per pad, p <0.0001) and MSIGS grade (OR 1.7 per grade, p=0.005) were independently associated with treatment failure., Conclusions: Increasing selectivity has improved sling outcomes for men with stress urinary incontinence. Ideal sling candidates have not received radiation therapy, and have history and physical findings suggestive of mild stress urinary incontinence.
- Published
- 2018
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40. Challenges of Multidimensional Outcome Reporting after Suburethral Mid Urethral Sling Removal.
- Author
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Shakir NA, Wang C, Singla N, Alhalabi F, Christie A, Lemack GE, and Zimmern PE
- Subjects
- Aged, Dyspareunia etiology, Dyspareunia surgery, Female, Humans, Middle Aged, Postoperative Complications etiology, Postoperative Complications surgery, Prospective Studies, Recurrence, Self Report statistics & numerical data, Treatment Outcome, Urinary Incontinence, Stress surgery, Urologic Surgical Procedures instrumentation, Device Removal, Dyspareunia diagnosis, Patient Reported Outcome Measures, Postoperative Complications diagnosis, Suburethral Slings adverse effects, Urologic Surgical Procedures adverse effects
- Abstract
Purpose: We sought to determine the types and frequency of presenting symptoms in women undergoing suburethral mid urethral sling removal to improve outcome reporting after removal., Materials and Methods: Following institutional review board approval women who underwent suburethral mid urethral sling removal of 1 mid urethral sling were evaluated for their presenting symptoms and correlation with the UDI-6 (Urogenital Distress Inventory-Short Form) questionnaire. Demographic data were recorded. Patient reported presenting symptoms were categorized into 5 domains, including storage symptoms, voiding symptoms, pain, recurrent urinary tract infections or urinary incontinence. The UDI-6 was reviewed preoperatively and 6 to 12 months postoperatively. We also calculated an ideal outcome, defined as resolution of incontinence, pain, resumption of sexual activity and no need for further anti-incontinence procedures., Results: A total of 230 women from 2006 to 2017 met study inclusion criteria, including 116 who completed the UDI-6 postoperatively. Of the women 80% had 3 or more presenting symptoms with pain as the most common symptom. The most common combination of symptoms was all 5 domains, which was noted in 46 of the 230 women (20%). An increasing number of symptoms correlated with the total preoperative UDI-6 score. Symptom domains were associated with the corresponding UDI-6 subdomain questions. Domains not covered by the UDI-6, ie recurrent urinary tract infections and dyspareunia, accounted for 27% of reported symptoms. Due to limited data on sexual activity an ideal outcome was reached in 10% of patients but this rate was 40% after sexual activity information was excluded., Conclusions: In this series the presenting symptoms were manifold in women undergoing suburethral mid urethral sling removal. The UDI-6 questionnaire correlated with many of these complaints. It may be used in outcome analysis in conjunction with self-reported symptoms., (Copyright © 2018 American Urological Association Education and Research, Inc. Published by Elsevier Inc. All rights reserved.)
- Published
- 2018
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41. Is Removal of the Pressure-regulating Balloon Necessary After Artificial Urinary Sphincter Cuff Erosion?
- Author
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Rozanski AT, Viers BR, Shakir NA, Pagliara TJ, Scott JM, and Morey AF
- Subjects
- Aged, Aged, 80 and over, Databases, Factual, Follow-Up Studies, Humans, Male, Middle Aged, Penile Implantation methods, Penile Prosthesis, Prosthesis Implantation adverse effects, Retrospective Studies, Treatment Outcome, Urinary Incontinence, Stress etiology, Device Removal, Erectile Dysfunction surgery, Penile Implantation adverse effects, Prosthesis Failure, Urinary Incontinence, Stress surgery, Urinary Sphincter, Artificial
- Abstract
Objective: To characterize the risk of delayed infectious complications from retained pressure-regulating balloons (PRBs) after artificial urinary sphincter (AUS) cuff erosion., Methods: From our database of 530 AUS cases between 2007 and 2016, we identified 40 total AUS cuff erosions. Twenty-four (60%) presented without evidence of gross device infection and underwent explant of cuff and pump without removal of the PRB. Space of Retzius (SoR) and high submuscular (HSM) balloon locations were analyzed to assess for ease of removal. Presenting clinical features and retained balloon-related outcomes are reported., Results: Of the 24 AUS cuff erosions with retained balloons, 6 (25%) men subsequently required PRB removal for infection during the median follow-up of 36 months (interquartile range 29-53). The median time to balloon infection after AUS erosion surgery was 4 months (interquartile range 4-16). Infection risk was reduced in those without concurrent inflatable penile prosthesis (20%) and in those who underwent "drain and retain" of the PRB (13%). The most common presenting clinical symptoms with retained PRB infection were pain and erythema near the site of the PRB (83%). No patient developed sepsis-related complications. The location of the PRB in this subcohort included 2 SoR and 4 HSM placements. The median operative time for balloon removal in the SoR was 3.5 times greater than that for HSM PRBs (133 minutes vs 38 minutes)., Conclusion: With extended follow-up, three-quarters of the men with retained PRBs after AUS cuff erosion experienced no infectious complications. Removal of infected SoR PRBs was associated with greater operative times and surgical complexity relative to HSM PRBs., (Copyright © 2017 Elsevier Inc. All rights reserved.)
- Published
- 2018
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42. Delayed Reconstruction of Bulbar Urethral Strictures is Associated with Multiple Interventions, Longer Strictures and More Complex Repairs.
- Author
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Viers BR, Pagliara TJ, Shakir NA, Rew CA, Folgosa-Cooley L, Scott JM, and Morey AF
- Subjects
- Adult, Humans, Kaplan-Meier Estimate, Male, Middle Aged, Proportional Hazards Models, Reoperation statistics & numerical data, Time Factors, Treatment Outcome, Urethra pathology, Urethral Stricture pathology, Urologic Surgical Procedures, Male adverse effects, Plastic Surgery Procedures methods, Urethra surgery, Urethral Stricture surgery, Urologic Surgical Procedures, Male methods
- Abstract
Purpose: Prior to urethral reconstruction many patients with stricture undergo a variable period during which endoscopic treatments are performed for recurrent obstructive symptoms. We evaluated the association among urethroplasty delay, endoscopic treatments and subsequent reconstructive outcomes., Materials and Methods: We reviewed the records of men who underwent primary bulbar urethroplasty from 2007 to 2014. Those with prior urethroplasty, penile and/or membranous strictures and incomplete data were excluded from analysis. Men were stratified by a urethroplasty delay of less than 5, 5 to 10 or greater than 10 years from diagnosis., Results: A total of 278 primary bulbar urethroplasty cases with complete data were evaluated. Median time between stricture diagnosis and reconstruction was 5 years (IQR 2-10). Patients underwent an average ± SD of 0.9 ± 2.4 endoscopic procedures per year of delay. Relative to less than 5 and 5 to 10 years a delay of greater than 10 years was associated with more endoscopic treatments (median 1 vs 2 vs 5), repeat self-dilations (13% vs 14% vs 34%), strictures longer than 2 cm (40% vs 39% vs 56%) and complex reconstructive techniques (17% vs 17% vs 34%). An increasing number of endoscopic treatments was independently associated with strictures longer than 2 cm (OR 1.06, p = 0.003), which had worse 24-month stricture-free survival than shorter strictures (83% vs 96%, p = 0.0003). Each consecutive direct vision internal urethrotomy was independently associated with the risk of urethroplasty failure (HR 1.19, p = 0.02)., Conclusions: Urethroplasty delay is common and often associated with symptomatic events managed by repeat urethral manipulations. Endoscopic treatments appear to lengthen strictures and increase the complexity of repair., (Copyright © 2018 American Urological Association Education and Research, Inc. Published by Elsevier Inc. All rights reserved.)
- Published
- 2018
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43. Oxidized Regenerated Cellulose (Fibrillar) Reduces Risk of Postoperative Corporal Bleeding Following Inflatable Penile Prosthesis Surgery.
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Rozanski AT, Viers BR, Liu AG, Shakir NA, Pagliara TJ, Scott JM, West ML, and Morey AF
- Subjects
- Aged, Follow-Up Studies, Humans, Incidence, Male, Middle Aged, Patient Satisfaction, Penis surgery, Postoperative Hemorrhage epidemiology, Postoperative Hemorrhage etiology, Prosthesis Design, Prosthesis Failure, Retrospective Studies, Risk Factors, Texas epidemiology, Cellulose, Oxidized administration & dosage, Hemostatic Techniques, Penile Prosthesis adverse effects, Penis blood supply, Postoperative Hemorrhage prevention & control, Risk Assessment
- Abstract
Objective: To report our initial experience with oxidized regenerated cellulose (ORC; Surgicel Fibrillar) as a hemostatic adjunct during inflatable penile prosthesis (IPP) surgery., Materials and Methods: Beginning in April 2016, ORC pledgets were placed within the corporotomy closures of all men undergoing IPP insertion. Perioperative characteristics and outcomes including cumulative postoperative drain output were evaluated among consecutive cases with (April 2016 to October 2016) and without ORC (December 2015 to March 2016) using an identical surgical technique by a single surgeon., Results: During the study period, 64 men underwent IPP implantation, of whom 32 (50%) received ORC. There was a significant reduction in median drain output relative to controls (33 mL vs 65 mL; P = .01). Postoperatively, ORC use was associated with a reduction in the number of patient phone calls for scrotal-related concerns in the immediate postoperative period (average 0.5 vs 1.1; P = .03). There were 3 IPP explantations in the non-ORC group (2/3 for infection)-one of which was directly related to an infected hematoma. After controlling for other clinical features, the use of ORC (β -32, 95% confidence interval: -61 to -5; P = .02) was independently associated with a reduction in drain output., Conclusion: ORC use during IPP corporotomy closure reduces postoperative drain output, a known risk factor for hematoma-related complications., (Copyright © 2017 Elsevier Inc. All rights reserved.)
- Published
- 2017
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44. Should Hypoechoic Lesions on Transrectal Ultrasound Be Sampled During Magnetic Resonance Imaging-targeted Prostate Biopsy?
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Shakir NA, Siddiqui MM, George AK, Kongnyuy M, Ho R, Fascelli M, Merino MJ, Turkbey B, Choyke PL, Wood BJ, and Pinto PA
- Subjects
- Aged, Humans, Male, Middle Aged, Neoplasm Grading, Patient Selection, Predictive Value of Tests, Retrospective Studies, Image-Guided Biopsy, Magnetic Resonance Imaging, Interventional, Prostatic Neoplasms diagnostic imaging, Prostatic Neoplasms pathology, Ultrasonography, Interventional
- Abstract
Objective: To determine whether supplemental biopsy of hypoechoic ultrasound lesions (HUL) incidentally found during magnetic resonance imaging (MRI)-transrectal ultrasound (TRUS) fusion-targeted prostate biopsy results in improved prostate cancer (PCa) detection., Methods: Patients underwent MRI-TRUS-targeted biopsy as part of an ongoing prospective trial from August 2007 to February 2015. For men with HUL, the biopsy pathology of HUL and MRI lesions was classified according to the updated 2014 International Society of Urological Pathology (ISUP) grading system. The detection of PCa by MRI-targeted biopsy with and without HUL biopsy was compared., Results: Of 1260 men in the trial, 106 underwent biopsy of 119 HULs. PCa was diagnosed in 52 out of 106 men (49%) by biopsy of either MRI lesions or HUL. Biopsy of HUL in addition to MRI lesions resulted in 4 additional diagnoses of high-grade (ISUP grades 3-5) PCa versus biopsy of MRI lesions alone (20 vs 16 men, P = .046). Three of these cases were upgraded from lower grade (ISUP grades 1-2) PCa on MRI-guided biopsy alone, and only 1 case (1% of cohort) was diagnosed that would have been missed by MRI-guided biopsy alone. Supplemental biopsy of HUL did not change the PCa risk category in 96% (102 out of 106) of men with HUL., Conclusion: Supplemental biopsy of HUL yields a small increase in the detection of higher grade PCa as compared with biopsy of MRI lesions alone. As upgrading is rare, routinely screening for HUL during MRI-targeted biopsy remains controversial., (Copyright © 2016. Published by Elsevier Inc.)
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- 2017
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45. Comparative Effects of Irreversible Electroporation, Radiofrequency Ablation, and Partial Nephrectomy on Renal Function Preservation in a Porcine Solitary Kidney Model.
- Author
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Morgan MS, Ozayar A, Lucas E, Friedlander JI, Shakir NA, and Cadeddu JA
- Subjects
- Animals, Disease Models, Animal, Female, Kidney physiopathology, Kidney surgery, Kidney Function Tests, Swine, Catheter Ablation, Electroporation, Kidney abnormalities, Nephrectomy methods, Urogenital Abnormalities physiopathology, Urogenital Abnormalities surgery
- Abstract
Objective: To evaluate kidney function preservation or regeneration and pathological changes post-irreversible electroporation (IRE) in comparison with partial nephrectomy and radiofrequency ablation (RFA) in a solitary kidney porcine model. Tissue ablation using IRE has been reported to spare critical anatomic structures within or near the ablation zone with associated regeneration of adjacent parenchyma, possibly offering functional preservation., Methods: Fifteen pigs initially underwent laparoscopic nephrectomy. The lower third of the remaining kidney was then ablated or removed with either IRE, RFA, or partial nephrectomy. Serum creatinine (SCr) was measured at baseline, 24 hours, 3, 7, 14, and 28 days postoperatively. The impact of the type of procedure on SCr over time was evaluated. Acute and chronic histological changes were analyzed and cellular viability was assessed using nicotinamide adenine dinucleotide staining in the IRE ablations., Results: Ten ablations (5 IRE, 5 RFA) and 5 partial nephrectomies of the entire lower third of a solitary kidney were performed. The type of procedure did not affect SCr significantly at baseline (P = .14) or change in SCr over time (P = .48). Histologically, IRE and RFA lesions showed similar findings including coagulative necrosis that progressively was replaced by reparative stromal changes and fibrous tissue. Nicotinamide adenine dinucleotide staining of the IRE lesions at 14 and 28 days showed no viability in the necrotic areas with viable tissue at the margins demonstrating reparative changes., Conclusion: Large volume IRE ablation of normal renal parenchyma in the porcine model does not provide a functional advantage as compared with conventional renal tumor treatments., (Copyright © 2016 Elsevier Inc. All rights reserved.)
- Published
- 2016
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46. Preoperative Multiparametric Magnetic Resonance Imaging Predicts Biochemical Recurrence in Prostate Cancer after Radical Prostatectomy.
- Author
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Ho R, Siddiqui MM, George AK, Frye T, Kilchevsky A, Fascelli M, Shakir NA, Chelluri R, Abboud SF, Walton-Diaz A, Sankineni S, Merino MJ, Turkbey B, Choyke PL, Wood BJ, and Pinto PA
- Subjects
- Aged, Biopsy, Clinical Decision-Making, Humans, Kaplan-Meier Estimate, Male, Middle Aged, Neoplasm Grading, Neoplasm Staging, Preoperative Care, Prognosis, Proportional Hazards Models, Prostate-Specific Antigen, Prostatectomy methods, Prostatic Neoplasms mortality, Prostatic Neoplasms surgery, Recurrence, Magnetic Resonance Imaging methods, Prostatic Neoplasms diagnosis
- Abstract
Objectives: To evaluate the utility of preoperative multiparametric magnetic resonance imaging (MP-MRI) in predicting biochemical recurrence (BCR) following radical prostatectomy (RP)., Materials/methods: From March 2007 to January 2015, 421 consecutive patients with prostate cancer (PCa) underwent preoperative MP-MRI and RP. BCR-free survival rates were estimated using the Kaplan-Meier method. Cox proportional hazards models were used to identify clinical and imaging variables predictive of BCR. Logistic regression was performed to generate a nomogram to predict three-year BCR probability., Results: Of the total cohort, 370 patients met inclusion criteria with 39 (10.5%) patients experiencing BCR. On multivariate analysis, preoperative prostate-specific antigen (PSA) (p = 0.01), biopsy Gleason score (p = 0.0008), MP-MRI suspicion score (p = 0.03), and extracapsular extension on MP-MRI (p = 0.03) were significantly associated with time to BCR. A nomogram integrating these factors to predict BCR at three years after RP demonstrated a c-index of 0.84, outperforming the predictive value of Gleason score and PSA alone (c-index 0.74, p = 0.02)., Conclusion: The addition of MP-MRI to standard clinical factors significantly improves prediction of BCR in a post-prostatectomy PCa cohort. This could serve as a valuable tool to support clinical decision-making in patients with moderate and high-risk cancers.
- Published
- 2016
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47. Magnetic Resonance Imaging/Transrectal Ultrasonography Fusion Prostate Biopsy Significantly Outperforms Systematic 12-Core Biopsy for Prediction of Total Magnetic Resonance Imaging Tumor Volume in Active Surveillance Patients.
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Okoro C, George AK, Siddiqui MM, Rais-Bahrami S, Walton-Diaz A, Shakir NA, Rothwax JT, Raskolnikov D, Stamatakis L, Su D, Turkbey B, Choyke PL, Merino MJ, Parnes HL, Wood BJ, and Pinto PA
- Subjects
- Aged, Aged, 80 and over, Humans, Male, Middle Aged, Prospective Studies, Prostate diagnostic imaging, Reproducibility of Results, Retrospective Studies, Sensitivity and Specificity, Tumor Burden, Biopsy methods, Magnetic Resonance Imaging methods, Prostate-Specific Antigen blood, Prostatic Neoplasms blood, Prostatic Neoplasms pathology, Ultrasonography methods
- Abstract
Objective: To correlate the highest percentage core involvement (HPCI) and corresponding tumor length (CTL) on systematic 12-core biopsy (SBx) and targeted magnetic resonance imaging/transrectal ultrasonography (MRI/TRUS) fusion biopsy (TBx), with total MRI prostate cancer (PCa) tumor volume (TV)., Patients and Methods: Fifty patients meeting criteria for active surveillance (AS) based on outside SBx, who underwent 3.0T multiparametric prostate MRI (MP-MRI), followed by SBx and TBx during the same session at our institution were examined. PCa TVs were calculated using MP-MRI and then correlated using bivariate analysis with the HPCI and CTL for SBx and TBx., Results: For TBx, HPCI and CTL showed a positive correlation (R(2)=0.31, P<0.0001 and R(2)=0.37, P<0.0001, respectively) with total MRI PCa TV, whereas for SBx, these parameters showed a poor correlation (R(2)=0.00006, P=0.96 and R(2)=0.0004, P=0.89, respectively). For detection of patients with clinically significant MRI derived tumor burden greater than 500 mm(3), SBx was 25% sensitive, 90.9% specific (falsely elevated because of missed tumors and extremely low sensitivity), and 54% accurate in comparison with TBx, which was 53.6% sensitive, 86.4% specific, and 68% accurate., Conclusions: HPCI and CTL on TBx positively correlates with total MRI PCa TV, whereas there was no correlation seen with SBx. TBx is superior to SBx for detecting tumor burden greater than 500 mm(3). When using biopsy positive MRI derived TVs, TBx better reflects overall disease burden, improving risk stratification among candidates for active surveillance.
- Published
- 2015
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48. The Role of Magnetic Resonance Image Guided Prostate Biopsy in Stratifying Men for Risk of Extracapsular Extension at Radical Prostatectomy.
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Raskolnikov D, George AK, Rais-Bahrami S, Turkbey B, Siddiqui MM, Shakir NA, Okoro C, Rothwax JT, Walton-Diaz A, Sankineni S, Su D, Stamatakis L, Merino MJ, Choyke PL, Wood BJ, and Pinto PA
- Subjects
- Aged, Humans, Image-Guided Biopsy, Male, Middle Aged, Neoplasm Invasiveness, Prospective Studies, Risk Assessment, Magnetic Resonance Imaging, Prostate pathology, Prostatectomy methods, Prostatic Neoplasms pathology, Prostatic Neoplasms surgery
- Abstract
Purpose: Magnetic resonance imaging detects extracapsular extension by prostate cancer with excellent specificity but low sensitivity. This limits surgical planning, which could be modified to account for focal extracapsular extension with image directed guidance for wider excision. In this study we evaluate the performance of multiparametric magnetic resonance imaging in extracapsular extension detection and determine which preoperative variables predict extracapsular extension on final pathology when multiparametric magnetic resonance imaging predicts organ confined disease., Materials and Methods: From May 2007 to March 2014, 169 patients underwent pre-biopsy multiparametric magnetic resonance imaging, magnetic resonance imaging/transrectal ultrasound fusion guided biopsy, extended sextant 12-core biopsy and radical prostatectomy at our institution. A subset of 116 men had multiparametric magnetic resonance imaging negative for extracapsular extension and were included in the final analysis., Results: The 116 men with multiparametric magnetic resonance imaging negative for extracapsular extension had a median age of 61 years (IQR 57-66) and a median prostate specific antigen of 5.51 ng/ml (IQR 3.91-9.07). The prevalence of extracapsular extension was 23.1% in the overall population. Sensitivity, specificity, and positive and negative predictive values of multiparametric magnetic resonance imaging for extracapsular extension were 48.7%, 73.9%, 35.9% and 82.8%, respectively. On multivariate regression analysis only patient age (p=0.002) and magnetic resonance imaging/transrectal ultrasound fusion guided biopsy Gleason score (p=0.032) were independent predictors of extracapsular extension on final radical prostatectomy pathology., Conclusions: Because of the low sensitivity of multiparametric magnetic resonance imaging for extracapsular extension, further tools are necessary to stratify men at risk for occult extracapsular extension that would otherwise only become apparent on final pathology. Magnetic resonance imaging/transrectal ultrasound fusion guided biopsy Gleason score can help identify which men with prostate cancer have extracapsular extension that may not be detectable by imaging., (Copyright © 2015 American Urological Association Education and Research, Inc. Published by Elsevier Inc. All rights reserved.)
- Published
- 2015
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49. Single- versus dual-console robot-assisted radical prostatectomy: impact on intraoperative and postoperative outcomes in a teaching institution.
- Author
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Morgan MS, Shakir NA, Garcia-Gil M, Ozayar A, Gahan JC, Friedlander JI, Roehrborn CG, and Cadeddu JA
- Subjects
- Adult, Aged, Anastomotic Leak epidemiology, Blood Loss, Surgical, Cohort Studies, Education, Medical, Graduate methods, Hospitals, Teaching, Humans, Laparoscopy, Linear Models, Logistic Models, Lymph Node Excision methods, Male, Middle Aged, Multivariate Analysis, Operative Time, Pelvis, Prostatectomy education, Retrospective Studies, Robotic Surgical Procedures education, Robotic Surgical Procedures instrumentation, Treatment Outcome, Urology education, Erectile Dysfunction epidemiology, Intraoperative Complications epidemiology, Postoperative Complications epidemiology, Prostatectomy methods, Prostatic Neoplasms surgery, Robotic Surgical Procedures methods, Urinary Incontinence epidemiology
- Abstract
Objective: To compare the outcomes of robotic-assisted laparoscopic prostatectomy (RALP) using a dual versus single-console system in a resident training program using intraoperative, perioperative and postoperative measures., Methods: Patients with PCa who underwent RALP prior to and after implementing a dual-console system at an academic institution were reviewed from 2006-2012. All surgeries were performed by a single-faculty surgeon well after the learning curve was established. In all cases, chief residents participated in the surgery and performed progressively more portions. Demographic, intraoperative and pathologic parameters were obtained. Continence and erectile function were assessed at 6 and 12 months. Postoperative complications were graded using the Clavien-Dindo classification. Predictors of outcomes on univariate analysis were included in multivariate logistic or linear models., Results: Of 381 patients, 185 and 196 underwent single- or dual-console RALP, respectively. There was a significant decrease in mean operative time using the dual-console system (222 vs. 171 min, p < 0.0001) as well as in the incidence of intraoperative complications (8.65 vs. 1.53%, p < 0.0001) and postoperative complications (14.1 vs. 6.63%, p = 0.03.) Complications of Clavien grade ≥3a occurred more frequently with a single-console system (7 vs. 1%, p = 0.003.) Differences persisted when controlling for potential confounders by multivariate regression. Postoperative measures of continence, erectile function and the rate of biochemical recurrence were similar between cohorts., Conclusions: When training resident surgeons to perform RALP, a dual-console system may improve intraoperative and perioperative outcomes. The dual-console may represent a safer, more efficient modality for robotic surgical education as compared to a single-console system.
- Published
- 2015
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50. Use of serial multiparametric magnetic resonance imaging in the management of patients with prostate cancer on active surveillance.
- Author
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Walton Diaz A, Shakir NA, George AK, Rais-Bahrami S, Turkbey B, Rothwax JT, Stamatakis L, Hong CW, Siddiqui MM, Okoro C, Raskolnikov D, Su D, Shih J, Han H, Parnes HL, Merino MJ, Simon RM, Wood BJ, Choyke PL, and Pinto PA
- Subjects
- Adult, Aged, Disease Management, Humans, Male, Middle Aged, Prostatic Neoplasms pathology, Public Health Surveillance, Retrospective Studies, Magnetic Resonance Imaging methods, Prostatic Neoplasms diagnostic imaging, Prostatic Neoplasms radiotherapy, Ultrasonography, Interventional methods
- Abstract
Introduction: We evaluated the performance of multiparametric prostate magnetic resonance imaging (mp-MRI) and MRI/transrectal ultrasound (TRUS) fusion-guided biopsy (FB) for monitoring patients with prostate cancer on active surveillance (AS)., Materials and Methods: Patients undergoing mp-MRI and FB of target lesions identified on mp-MRI between August 2007 and August 2014 were reviewed. Patients meeting AS criteria (Clinical stage T1c, Gleason grade ≤ 6, prostate-specific antigen density ≤ 0.15, tumor involving ≤ 2 cores, and ≤ 50% involvement of any single core) based on extended sextant 12-core TRUS biopsy (systematic biopsy [SB]) were included. They were followed with subsequent 12-core biopsy as well as mp-MRI and MRI/TRUS fusion biopsy at follow-up visits until Gleason score progression (Gleason ≥ 7 in either 12-core or MRI/TRUS fusion biopsy). We evaluated whether progression seen on mp-MRI (defined as an increase in suspicion level, largest lesion diameter, or number of lesions) was predictive of Gleason score progression., Results: Of 152 patients meeting AS criteria on initial SB (mean age of 61.4 years and mean prostate-specific antigen level of 5.26 ng/ml), 34 (22.4%) had Gleason score ≥ 7 on confirmatory SB/FB. Of the 118 remaining patients, 58 chose AS and had at least 1 subsequent mp-MRI with SB/FB (median follow-up = 16.1 months). Gleason progression was subsequently documented in 17 (29%) of these men, in all cases to Gleason 3+4. The positive predictive value and negative predictive value of mp-MRI for Gleason progression was 53% (95% CI: 28%-77%) and 80% (95% CI: 65%-91%), respectively. The sensitivity and specificity of mp-MRI for increase in Gleason were also 53% and 80%, respectively. The number needed to biopsy to detect 1 Gleason progression was 8.74 for SB vs. 2.9 for FB., Conclusions: Stable findings on mp-MRI are associated with Gleason score stability. mp-MRI appears promising as a useful aid for reducing the number of biopsies in the management of patients on AS. A prospective evaluation of mp-MRI as a screen to reduce biopsies in the follow-up of men on AS appears warranted., (Published by Elsevier Inc.)
- Published
- 2015
- Full Text
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