René Speck
A5078789866- Topic Modeling
- HIV/AIDS Research and Interventions
- Semantic Web and Ontologies
- Natural Language Processing Techniques
- Data Quality and Management
- HIV-related health complications and treatments
- HIV Research and Treatment
- HIV/AIDS drug development and treatment
- HIV, Drug Use, Sexual Risk
- Hepatitis C virus research
- Hepatitis B Virus Studies
- Sex work and related issues
- Advanced Text Analysis Techniques
- Caching and Content Delivery
- Pneumocystis jirovecii pneumonia detection and treatment
- Web Data Mining and Analysis
- Pharmaceutical Practices and Patient Outcomes
- Biomedical Text Mining and Ontologies
- Complex Network Analysis Techniques
- CNS Lymphoma Diagnosis and Treatment
- Mosquito-borne diseases and control
- Machine Learning and Algorithms
- Syphilis Diagnosis and Treatment
- Bioinformatics and Genomic Networks
- SARS-CoV-2 and COVID-19 Research
University Hospital of Zurich
2014-2024
University Hospital of Bern
2013-2023
University of Bern
2015-2022
University of Zurich
2020-2022
Leipzig University
2011-2021
University of Basel
2020-2021
Swiss Tropical and Public Health Institute
2021
Paderborn University
2018-2020
University Hospital of Basel
2011-2020
University of Liverpool
2020
We present GERBIL, an evaluation framework for semantic entity annotation. The rationale behind our is to provide developers, end users and researchers with easy-to-use interfaces that allow the agile, fine-grained uniform of annotation tools on multiple datasets. By these means, we aim ensure both tool developers can derive meaningful insights pertaining extension, integration use applications. In particular, GERBIL provides comparable results so as them easily discover strengths weaknesses...
Abstract Background Advancements in access to antiretroviral therapy (ART) and human immunodeficiency virus (HIV) care have led a decline AIDS-related deaths among people with HIV (PWH) Switzerland. However, data on the ongoing changes causes of death PWH over past 15 years are scarce. Methods We investigated all reported Swiss Cohort Study between 2005 2022. Causes were categorized using Coding Death protocol. The statistical analysis included demographic stratification identify time trends...
To compare the use of co-medication, potential drug–drug interactions (PDDIs) and effect on antiretroviral therapy (ART) tolerability efficacy in HIV-infected individuals according to age, ≥50 years or <50 years. All ART-treated participants were prospectively included once during a follow-up visit Swiss HIV Cohort Study. Information any current medication was obtained by participant self-report medical prescription history. The complete treatment subsequently screened for PDDIs using...
A growing number of case reports have described tenofovir (TDF)-related proximal renal tubulopathy and impaired calculated glomerular filtration rates (cGFR). We assessed TDF-associated changes in cGFR a large observational HIV cohort.We compared treatment-naive patients or with treatment interruptions > = 12 months starting either TDF-based combination antiretroviral therapy (cART) (n 363) TDF-sparing regime 715). The predefined primary endpoint was the time to 10 ml/min reduction cGFR,...
Hepatitis B virus (HBV) infection is a major cause of morbidity and mortality in human immunodeficiency (HIV)–infected patients worldwide. It unclear whether HIV-related outcomes are affected by HBV coinfection. We compared virological suppression immunological recovery during antiretroviral therapy (ART) different serological status the Swiss HIV Cohort Study. CD4 cell ART was significantly impaired hepatitis surface antigen–positive those with anti-hepatitis core antigen alone...
Antiretroviral therapy has transformed HIV infection from a deadly into chronic condition. Aging people with (PWH) are at higher risk of polypharmacy, potential drug-drug interactions (DDIs), and potentially inappropriate medications (PIMs). This study aims to compare prescribed drugs, DDIs between young (<65 years old) elderly (≥65 PWH. The prevalence PIMs was assessed in elderly.PWH 2 centers within the Swiss Cohort Study were asked fill form all their current medications. Polypharmacy...
Background: HCV coinfection remains a major cause of morbidity and mortality among HIV-infected individuals its incidence has increased dramatically in men who have sex with men(MSM). Methods: Hepatitis C virus (HCV) the Swiss HIV Cohort Study(SHCS) was studied by combining clinical data HIV-1 pol-sequences from SHCS Drug Resistance Database(DRDB). We inferred maximum-likelihood phylogenetic trees, determined HIV-transmission pairs as monophyletic patient pairs, then considered distribution...
This study was performed to investigate the efficacy and safety of grazoprevir-elbasvir guided by baseline resistance-associated substitutions (RASs) in Swiss HCVree Trial. We hepatitis C virus (HCV) RNA screening among all men who have sex with (MSM) enrolled HIV Cohort Study. Individuals replicating HCV genotype 1 or 4 infection were eligible for treatment. Genotype 1a–infected individuals RASs 4–infected prior failure treatment received 16 weeks combined ribavirin. All other 12 alone....
Background & AimsHepatitis B virus (HBV) coinfection is common among people living with HIV (PLWH) and the most important cause of hepatocellular carcinoma (HCC). Whereas risk prediction tools for HCC exist patients HBV monoinfection, they have not been evaluated in PLWH. We performed an external validation PAGE-B HIV/HBV coinfection.MethodsWe included PLWH a positive HBsAg without before starting tenofovir from four European cohorts, estimated predictive performance on occurrence over 15...
Abstract Background Incomplete antiretroviral therapy (ART) adherence, even if sufficient to maintain viral suppression, is associated with enhanced inflammation in persons HIV (PWH). However, its clinical implications remain unknown. Methods PWH enrolled the Swiss Cohort Study without a history of cardiovascular disease (CVD) who initiated ART between 2003 and 2018 had suppression (&lt;50 copies/mL) for ≥6 months were evaluated. The association incomplete self-reported adherence (≥1 or...
In human immunodeficiency virus (HIV)–infected individuals, the immune response over time to yellow fever vaccination (YFV) and necessity for booster are not well understood. We studied 247 participants of Swiss HIV Cohort Study (SHCS) with a first YFV after diagnosis determined their responses at 1 year, 5 years, 10 years postvaccination by plaque reduction neutralization titers (PRNTs) in stored blood samples. A PRNT 1:≥10 was regarded as reactive protective. Predictors were analyzed...
Syphilis is re-emerging globally in general and HIV-infected populations, repeated syphilis episodes may play a central role transmission among core groups. Besides sexual behavioral factors, little known about determinants of individuals-including the potential impact preceding on subsequent risk.In prospective Swiss HIV cohort study, with routine testing since 2004, we analyzed men who have sex (MSM). Our primary outcome was first episodes. We used univariable multivariable Andersen-Gill...
Objective To assess the characteristics of combination antiretroviral therapy (cART) administered concomitantly with chemotherapy and to establish prognostic determinants patients AIDS-related non-Hodgkin's lymphoma. Methods The study included 91 lymphoma from Swiss HIV Cohort Study enrolled between January 1997 October 2003, excluding lymphomas brain. We extracted lymphoma- HIV-specific variables at time diagnosis as well treatment changes over charts database. Cox regression analyses were...
Abstract Background. The hepatitis C virus (HCV) epidemic is evolving rapidly in patients infected with human immunodeficiency (HIV). We aimed to describe changes treatment uptake and outcomes of incident HCV infections before after 2006, the time-point at which major became apparent. Methods. included all adults an infection June 2012 Swiss HIV Cohort Study, a prospective nationwide representative cohort individuals HIV. assessed following by time period: proportion starting therapy,...
Abstract Age-mixing patterns are of key importance for understanding the dynamics human immunodeficiency virus (HIV)-epidemics and target public health interventions. We use densely sampled Swiss HIV Cohort Study (SHCS) resistance database to study age difference at infection in transmission pairs using phylogenetic methods. In addition, we investigate whether mean tree is influenced by sampling as well additional distance thresholds including pairs. HIV-1 pol-sequences 11,922 SHCS patients...
Abstract Background The extent of inappropriate prescribing observed in geriatric medicine has not been thoroughly evaluated people ageing with HIV. We determined the prevalence and risk factors for individuals aged ≥75 years enrolled Swiss HIV Cohort Study. Methods Retrospective review medical records was performed to gain more insights into non-HIV comorbidities. Inappropriate screened using Beers criteria, STOPP/START criteria Liverpool drug–drug interactions (DDIs) database. Results For...
Abstract Background Identifying local outbreaks and their drivers is a key step toward curbing human immunodeficiency virus (HIV) transmission potentially achieving HIV elimination. Such can be identified as clusters extracted from phylogenetic trees constructed of densely sampled viral sequences. In this study, we combined with extensive data on virological suppression behavioral risk cluster members to quantify the ongoing over 10 years. Methods Using comprehensive Swiss Cohort Study its...
Abstract Background Hypercholesterolemia is a well established risk factor for coronary heart disease and highly prevalent among human immunodeficiency virus (HIV)-positive persons. Antiretroviral therapy (ART) can both directly modify total cholesterol have drug-drug interactions with statins. This makes investigating modifiable behavioral predictors of pertinent task. Methods To explore the association between diet physical activity cross-sectionally measured cholesterol, we administered...