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Article ; Online: Response to: Comment on: Textbook Outcomes following Open Live Donor Right Hepatectomy and Open Right Hepatic Lobectomy for Cancer in 686 patients: Re-defining the Benchmark.

Dogeas, Epameinondas / Geller, David A / Humar, Abhinav

Annals of surgery open : perspectives of surgical history, education, and clinical approaches

2023 Volume 4, Issue 1, Page(s) e264

Language	English
Publishing date	2023-02-20
Publishing country	United States
Document type	Journal Article
ISSN	2691-3593
ISSN (online)	2691-3593
DOI	10.1097/AS9.0000000000000264
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Article ; Online: Predicting metabolic modules in incomplete bacterial genomes with MetaPathPredict.

Geller-McGrath, David / Konwar, Kishori M / Edgcomb, Virginia P / Pachiadaki, Maria / Roddy, Jack W / Wheeler, Travis J / McDermott, Jason E

eLife

2024 Volume 13

Abstract: The reconstruction of complete microbial metabolic pathways using 'omics data from environmental samples remains challenging. Computational pipelines for pathway reconstruction that utilize machine learning methods to predict the presence or absence of ... ...

Abstract	The reconstruction of complete microbial metabolic pathways using 'omics data from environmental samples remains challenging. Computational pipelines for pathway reconstruction that utilize machine learning methods to predict the presence or absence of KEGG modules in incomplete genomes are lacking. Here, we present MetaPathPredict, a software tool that incorporates machine learning models to predict the presence of complete KEGG modules within bacterial genomic datasets. Using gene annotation data and information from the KEGG module database, MetaPathPredict employs deep learning models to predict the presence of KEGG modules in a genome. MetaPathPredict can be used as a command line tool or as a Python module, and both options are designed to be run locally or on a compute cluster. Benchmarks show that MetaPathPredict makes robust predictions of KEGG module presence within highly incomplete genomes.
MeSH term(s)	Genome, Bacterial ; Metabolic Networks and Pathways/genetics ; Software ; Computational Biology/methods ; Machine Learning ; Bacteria/genetics ; Bacteria/metabolism ; Bacteria/classification
Language	English
Publishing date	2024-05-02
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, U.S. Gov't, Non-P.H.S.
ZDB-ID	2687154-3
ISSN	2050-084X ; 2050-084X
ISSN (online)	2050-084X
ISSN	2050-084X
DOI	10.7554/eLife.85749
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Article ; Online: Global practice patterns of preoperative image reconstruction for liver surgery.

Panettieri, Elena / Vega, Eduardo A / Salirrosas, Oscar / Ogiso, Satoshi / Geller, David / Conrad, Claudius

Journal of gastrointestinal surgery : official journal of the Society for Surgery of the Alimentary Tract

2024 Volume 28, Issue 1, Page(s) 26–32

Abstract: Background: Three-dimensional (3-D) liver modeling is used globally; however, its actual practice is limited to a few centers. This study aimed to assess practice patterns and barriers to the use of 3-D modeling among liver surgeons worldwide.: ... ...

Abstract	Background: Three-dimensional (3-D) liver modeling is used globally; however, its actual practice is limited to a few centers. This study aimed to assess practice patterns and barriers to the use of 3-D modeling among liver surgeons worldwide. Methods: A survey approved by the International Hepato-Pancreato-Biliary Association research council consisting of 27 questions was conducted using an online questionnaire. Incomplete responses were excluded. Results: Of 235 respondents from 46 countries, 81.3% reported experience with 3-D modeling; however, only 21% used it in > 75% of cases. Surgeons using 3-D reconstruction were older (P = .025), worked more frequently at academic facilities (P = .007), and had more years of experience (P = .001), especially in minimally invasive liver surgery (MILS) (P = .038). In addition, 3-D rendering was performed by surgeons in 50.8% of cases. Liver volumetry was the most frequent indication (80.1%), and decreased postoperative complications were the main perceived benefit (53.6%). Conclusions: More experience in liver surgery because of seniority, case volume, and openness to novel technology (MILS) is associated with a greater appreciation for the value of 3-D modeling. Our results suggest the need for senior surgeons to help early-career surgeons consider 3-D modeling for the reported benefit of reduced intra- and postoperative complications.
MeSH term(s)	Humans ; Liver/diagnostic imaging ; Liver/surgery ; Surveys and Questionnaires ; Surgeons ; Postoperative Complications ; Image Processing, Computer-Assisted
Language	English
Publishing date	2024-02-14
Publishing country	United States
Document type	Journal Article
ZDB-ID	2012365-6
ISSN	1873-4626 ; 1934-3213 ; 1091-255X
ISSN (online)	1873-4626 ; 1934-3213
ISSN	1091-255X
DOI	10.1016/j.gassur.2023.11.014
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Article ; Online: Severe cutaneous adverse reactions associated with systemic ivermectin: A pharmacovigilance analysis.

Bomze, David / Sprecher, Eli / Geller, Shamir

The Journal of dermatology

2022 Volume 49, Issue 8, Page(s) 769–774

Abstract: Despite poor evidence, the antiparasitic ivermectin has been advocated as a potential COVID-19 therapy. This has led to a rise in calls to poison-control centers by people self-medicating with ivermectin, which is sold over the counter for veterinary ... ...

Abstract	Despite poor evidence, the antiparasitic ivermectin has been advocated as a potential COVID-19 therapy. This has led to a rise in calls to poison-control centers by people self-medicating with ivermectin, which is sold over the counter for veterinary uses. We aimed to investigate the association between severe cutaneous adverse reactions (SCARs) and ivermectin. Postmarketing data from the FDA Adverse Event Reporting System (FAERS), gathered between 2014 and 2021, was employed to detect disproportional signals of SCARs following systemic ivermectin therapy. The reporting odds ratio (ROR) was used to quantify the strength of association, while adjusting for age, sex, and region. The search yielded 517 reports of systemic ivermectin (median age 54 years, 46.8% female), of which 25 (4.8%), 81 (15.7%), and 411 (79.5%) were classified as SCARs, nonsevere cutaneous adverse events (AEs), or noncutaneous AEs, respectively. The regional distribution differed between SCAR reports (32.0% from Africa and 12.0% from North America) compared with other AEs, which originated from North America in over half of cases. The most common SCARs were toxic epidermal necrolysis (seven cases), Stevens-Johnson syndrome (seven cases), and drug reaction with eosinophilia and systemic symptoms (four cases). Five SCAR cases (20.0%) resulted in death and 12 (48.0%) lead to hospitalization. There was a strong safety signal for any SCAR (adjusted ROR 3.34, 95% confidence interval [CI] 2.17-5.12) and toxidermias (adjusted ROR 7.08, 95% CI 4.23-11.84). This study suggests that ivermectin is associated with SCARs on rare occasions. Dermatologists should be aware of this given the increase in ivermectin misuse.
MeSH term(s)	COVID-19 ; Cicatrix ; Female ; Humans ; Ivermectin/adverse effects ; Male ; Middle Aged ; Pharmacovigilance ; Stevens-Johnson Syndrome
Chemical Substances	Ivermectin (70288-86-7)
Language	English
Publishing date	2022-04-27
Publishing country	England
Document type	Journal Article
ZDB-ID	800103-0
ISSN	1346-8138 ; 0385-2407
ISSN (online)	1346-8138
ISSN	0385-2407
DOI	10.1111/1346-8138.16398
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Article ; Online: Does Laparoscopic Liver Resection Result in Less Postoperative Bile Leakage?

Dogeas, Epameinondas / Tohme, Samer T / Geller, David A

Journal of the American College of Surgeons

2022 Volume 234, Issue 2, Page(s) 112–114

MeSH term(s)	Bile ; Hepatectomy/adverse effects ; Humans ; Incidence ; Laparoscopy ; Liver/surgery ; Propensity Score
Language	English
Publishing date	2022-02-28
Publishing country	United States
Document type	Journal Article ; Comment
ZDB-ID	1181115-8
ISSN	1879-1190 ; 1072-7515
ISSN (online)	1879-1190
ISSN	1072-7515
DOI	10.1097/XCS.0000000000000035
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Article: Anterior prosthetic knee dislocation with acute vascular injury: A case report.

Constantinescu, David / Pavlis, William / Berge, Dennis Vanden / Barnhill, Spencer / Geller, Joseph / Vilella, Fernando E

Annals of medicine and surgery (2012)

2022 Volume 75, Page(s) 103425

Abstract: Introduction: and Importance: Anterior dislocation of a prosthetic knee is rarely encountered. Acute vascular injury following anterior prosthetic dislocation has only been reported once in the literature with extremely poor outcomes.: Case ... ...

Abstract	Introduction: and Importance: Anterior dislocation of a prosthetic knee is rarely encountered. Acute vascular injury following anterior prosthetic dislocation has only been reported once in the literature with extremely poor outcomes. Case presentation: The authors report the case of a 70-year-old woman who presented with anterior prosthetic knee dislocation after a fall from slipping. After closed reduction, CT angiography found transection and active extravasation of the left popliteal artery. An emergent fasciotomy and popliteal bypass were performed with concurrent external fixation of the joint. Recovery was complicated by bacteremia requiring eventual explant of total knee arthroplasty (TKA). Clinical discussion: We report the only case of successful vascular repair after acute vascular injury from traumatic anterior prosthetic dislocation. External fixation of the knee allowed for better stabilization of the joint and preservation of the repaired vascular injury; however, it carries a risk for infection, as seen in this case. Conclusions: While there are no clear guidelines for management, we highlight the importance of rapid diagnosis with CT angiography and shared decision making with the vascular surgery team to repair the injury and stabilize the joint.
Language	English
Publishing date	2022-03-01
Publishing country	England
Document type	Case Reports
ZDB-ID	2745440-X
ISSN	2049-0801
ISSN	2049-0801
DOI	10.1016/j.amsu.2022.103425
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Article ; Online: The application of landiolol in the cardiovascular and intensive care

Radics, Péter / Kiss, Boldizsár / Kovács, Enikő / Pilecky, Dávid / Ruzsa, Zoltán / Straub, Éva / Fejér, Csaba / Gellér, László / Merkely, Béla / Zima, Endre

Orvosi hetilap

2022 Volume 163, Issue 2, Page(s) 53–62

Abstract: Összefoglaló. A landiolol intravénásan alkalmazandó, kifejezetten cardioselectiv, gyors hatású és rövid felezési idejű béta-1-receptor-blokkoló, mely elsősorban negatív chronotrop és inotrop hatással bír, vérnyomáscsökkentő hatása elhanyagolható. Főleg ... ...

Title translation	A landiolol alkalmazási lehetőségei a kardiológiai és intenzív terápiás ellátásban.
Abstract	Összefoglaló. A landiolol intravénásan alkalmazandó, kifejezetten cardioselectiv, gyors hatású és rövid felezési idejű béta-1-receptor-blokkoló, mely elsősorban negatív chronotrop és inotrop hatással bír, vérnyomáscsökkentő hatása elhanyagolható. Főleg hemodinamikailag instabil állapotú, supraventricularis ritmuszavarban szenvedő betegek kamrafrekvenciájának csökkentésére használható. Nagy esetszámú, randomizált vizsgálatok igazolták hatékonyságát szívműtétek után jelentkező pitvarfibrilláció megelőzésében, valamint súlyos akut szívelégtelenségben és szívműtétek posztoperatív szakában jelentkező pitvari tachyarrhythmiák kezelésében. Ezek mellett kisebb vizsgálatok alapján a használata biztonságosnak tűnik akut myocardialis infarctusban, hatékony szeptikus állapotú, pitvarfibrillációban szenvedő betegek kamrafrekvencia- és ritmuskontrolljára, valamint nem cardialis műtétek esetén a pitvarfibrilláció prevenciójára és kezelésére. Sikerrel alkalmazható elektromos vihar esetén is, és jól használható angiográfiás coronaria-CT-vizsgálat előtt az optimális szívfrekvencia elérésére. A gyógyszer 2016 óta Európában, 2018 óta Magyarországon is elérhető. Orv Hetil. 2022; 163(2): 53-62. Summary. Landiolol is an intravenous, selective beta-1-receptor blocking agent with rapid onset of action and ultra-short half-life that has a predominant negative chronotropic and only mild negative inotropic effect without significant reduction of blood pressure. Landiolol is indicated to control the ventricular heart rate predominantly in patients with hemodynamic instability due to supraventricular tachyarrhythmia. Large randomized controlled trials have proven the efficacy of landiolol in the prevention of atrial fibrillation and atrial tachyarrhythmias in severe acute heart failure or post-cardiac surgery. Based on lower case-number studies, the administration of landiolol has been proven to be efficient and safe in rhythm and rate control in atrial fibrillation complicating acute myocardial infarction, sepsis, and in the prevention of atrial fibrillation in non-cardiac surgery. Landiolol may be used in electrical storm, and even during coronary CT-angiography to achieve an optimal heart rate for imaging. The drug is available in Europe since 2016 and in Hungary since 2018. Orv Hetil. 2022; 163(2): 53-62.
MeSH term(s)	Atrial Fibrillation ; Critical Care ; Heart Rate ; Humans ; Morpholines ; Myocardial Infarction ; Urea/analogs & derivatives
Chemical Substances	Morpholines ; landiolol (62NWQ924LH) ; Urea (8W8T17847W)
Language	Hungarian
Publishing date	2022-01-09
Publishing country	Hungary
Document type	Journal Article
ZDB-ID	123879-6
ISSN	1788-6120 ; 0030-6002
ISSN (online)	1788-6120
ISSN	0030-6002
DOI	10.1556/650.2022.32347
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Article: Centering Equity in the Nation's Weather, Water, and Climate Services.

Tripati, Aradhna / Shepherd, Marshall / Morris, Vernon / Andrade, Karen / Whyte, Kyle Powys / David-Chavez, Dominique M / Hosbey, Justin / Trujillo-Falcón, Joseph E / Hunter, Brandon / Hence, Deanna / Carlis, DaNa / Brown, Vankita / Parker, William L / Geller, Andrew / Reich, Alex / Glackin, Mary

Environmental justice (Print)

2024 Volume 17, Issue 1, Page(s) 45–53

Abstract: Water, weather, and climate affect everyone. However, their impacts on various communities can be very different based on who has access to essential services and environmental knowledge. Structural discrimination, including racism and other forms of ... ...

Abstract	Water, weather, and climate affect everyone. However, their impacts on various communities can be very different based on who has access to essential services and environmental knowledge. Structural discrimination, including racism and other forms of privileging and exclusion, affects people's lives and health, with ripples across all sectors of society. In the United States, the need to equitably provide weather, water, and climate services is uplifted by the Justice40 Initiative (Executive Order 14008), which mandates 40% of the benefits of certain federal climate and clean energy investments flow to disadvantaged communities. To effectively provide such services while centering equity, systemic reform is required. Reform is imperative given increasing weather-related disasters, public health impacts of climate change, and disparities in infrastructure, vulnerabilities, and outcomes. It is imperative that those with positional authority and resources manifest responsibility through (1) recognition, inclusion, and prioritization of community expertise; (2) the development of a stronger and more representative and equitable workforce; (3) communication about climate risk in equitable, relevant, timely, and culturally responsive ways; and (4) the development and implementation of new models of relationships between communities and the academic sector.
Language	English
Publishing date	2024-02-07
Publishing country	United States
Document type	Journal Article
ZDB-ID	2436611-0
ISSN	1937-5174 ; 1939-4071
ISSN (online)	1937-5174
ISSN	1939-4071
DOI	10.1089/env.2022.0048
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Article ; Online: Identification of type VI secretion system effector-immunity pairs using structural bioinformatics.

Geller, Alexander M / Shalom, Maor / Zlotkin, David / Blum, Noam / Levy, Asaf

Molecular systems biology

2024

Abstract: ... immunity pairs using basic experiments in E. coli. In particular, we showed that the Pfam domain DUF3289 is ...

Abstract	The type VI secretion system (T6SS) is an important mediator of microbe-microbe and microbe-host interactions. Gram-negative bacteria use the T6SS to inject T6SS effectors (T6Es), which are usually proteins with toxic activity, into neighboring cells. Antibacterial effectors have cognate immunity proteins that neutralize self-intoxication. Here, we applied novel structural bioinformatic tools to perform systematic discovery and functional annotation of T6Es and their cognate immunity proteins from a dataset of 17,920 T6SS-encoding bacterial genomes. Using structural clustering, we identified 517 putative T6E families, outperforming sequence-based clustering. We developed a logistic regression model to reliably quantify protein-protein interaction of new T6E-immunity pairs, yielding candidate immunity proteins for 231 out of the 517 T6E families. We used sensitive structure-based annotation which yielded functional annotations for 51% of the T6E families, again outperforming sequence-based annotation. Next, we validated four novel T6E-immunity pairs using basic experiments in E. coli. In particular, we showed that the Pfam domain DUF3289 is a homolog of Colicin M and that DUF943 acts as its cognate immunity protein. Furthermore, we discovered a novel T6E that is a structural homolog of SleB, a lytic transglycosylase, and identified a specific glutamate that acts as its putative catalytic residue. Overall, this study applies novel structural bioinformatic tools to T6E-immunity pair discovery, and provides an extensive database of annotated T6E-immunity pairs.
Language	English
Publishing date	2024-04-24
Publishing country	England
Document type	Journal Article
ZDB-ID	2193510-5
ISSN	1744-4292 ; 1744-4292
ISSN (online)	1744-4292
ISSN	1744-4292
DOI	10.1038/s44320-024-00035-8
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Article: Laparoscopic liver resection: Global diffusion and learning curve.

Dogeas, Epameinondas / Tohme, Samer / Geller, David A

Annals of the Academy of Medicine, Singapore

2021 Volume 50, Issue 10, Page(s) 736–738

MeSH term(s)	Hepatectomy ; Humans ; Laparoscopy ; Learning Curve ; Liver ; Retrospective Studies
Language	English
Publishing date	2021-10-29
Publishing country	Singapore
Document type	Editorial
ZDB-ID	604527-3
ISSN	0304-4602
ISSN	0304-4602
DOI	10.47102/annals-acadmedsg.2021371
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