The INoVA uses entity recognition models to extract models and associated readouts (outcomes) from sentences in PubMed abstracts. The following definitions are used for these entities:
Model
The experimental setup (e.g. wound healing assay, Irwin test) used to measure an outcome, or the system in which an outcome is being measured (e.g. CACO-2 cells, the liver, ob/ob mice). The following model types are included: In vitro, in vivo, ex vivo, in silico and in chemico.
Readout
What is being measured in the model. Both quantitative measures and qualitative outcomes are being retrieved.
Searching and filtering
The INoVA hub uses free text searches as well as pre-defined filtering options to guide the user in retrieving relevant publications. The various options are described below. Multiple filters and/or free text searches can be used to define your search.
Free text search
Free text searches are available for the model name, readout and species.
By typing in the name and clicking on "apply", a substring search is performed on all models and readouts in our platform.
For species, a generative AI mapping has been performed on the sentence level.
Therefore, the species has been inferred from the model and/or sentence.
To correctly handle abbreviations, an attempt is made to map a search term on its full name if an abbreviation is being used, and vice versa, abbreviations of a full name are included when possible.
Boolean queries are currently not supported in search.
Predefined filters
The models recognized have been mapped to model parameters whenever possible.
This mapping has been performed by a generative AI model on a contextual level.
This means that the whole sentence has been used to classify the models to the predefined parameters.
The model parameters can be used either to query the INoVA hub data, or to filter results.
To use the filters, select a parameter from the pulldown menu and click the apply button.
When multiple model parameters are used, the AND logic is being performed.
The following model parameters are available:
System type, e.g. in vitro, in vivo, in silico
System format, e.g. bioengineered system, organism
Inducer type, e.g. chemical, diet, genetic engineering
Health domain, e.g. cardiovascular disease
Organ system, e.g. heart, liver
For the organ system parameter, two levels of granularity are offered.
The second level offers a more detailed.
Please note that the model parameters are set independent from each other.
The user is responsible for making meaningful intersections of the parameter values.
Dynamic data
The information available in the INoVA hub interface is updated daily and contains all PubMed abstract data from the year 2015 onwards.
Selection and Download
To select and download PMIDs for further analysis, tick the box of the publication and click the download button.
The number of downloads is limited to a maximum of 100 records.
As a result, hydrogel promotes granulation tissue formation, collagen deposition, and skin regeneration in infected wound models.
In vitro and in vivo experiments demonstrate that the integrated photothermal, photodynamic, and nanozyme redox activities reduce bacterial load, attenuate inflammation, and restore oxidative balance in wounds.
This injectable, self-healing hydrogel conforms to wound surfaces, adheres to tissue, and remains localized at the injury site, enabling precise therapy upon NIR irradiation.
In this study, a nanozyme hydrogel was developed using a metal-organic framework (PCN-224) that combines CuS-mediated photothermal effects with Fe-doped graphitic carbon nitride (g-C3N4-Fe) redox activity for near-infrared (NIR) -activated targeted therapy.
Photothermal therapy and photodynamic therapy are promising nonantibiotic approaches for bacterial eradication; however, their effectiveness is often limited by restricted oxygen availability in the tissue microenvironment and uncontrolled production of reactive oxygen species (ROS).
Bacterial-infected wounds pose substantial therapeutic challenges due to persistent infection, sustained inflammation, and a hypoxic microenvironment.
Folic acid supplementation and prevention of adverse offspring outcomes among women with epilepsy: An observational study.
Folic acid (FA) is essential for fetal development, while the benefits and optimal dose in pregnant women with epilepsy (PWWE) remain unclear.
FA supplementation was associated with lower risks of composite adverse offspring outcomes in ASM-exposed pregnancies, specifically at doses exceeding.4 mg. No such associations were observed in pregnancies not exposed to ASMs.
This study explores effects of FA supplementation, dose, and initiation time on offspring outcomes in PWWE.
This multi-center cohort recruited PWWE from 58 hospitals in China.
Compared to no supplement, supplementation with.4 mg/day protected against fetal death (aOR.185, 95 % CI.078-.428); doses exceeding.4 mg/day further reduced risk of composite adverse outcomes (aOR.343, 95 % CI.162-.675), and doses above 1 mg additionally showed trends toward decreased preterm birth in ASM-exposed pregnancies (aOR.338, 95 % CI.104-.943).
Folic acid supplementation and prevention of adverse offspring outcomes among women with epilepsy: An observational study.
In ASM-exposed pregnancies, FA supplementation was associated with lower risks of composite adverse offspring outcomes (adjusted odds ratio [aOR ].59, 95 % confidence interval [ CI ].387-.911) and fetal death (aOR.127, 95 % CI.054-.296), whereas no significant differences were observed between preconception and first-trimester initiation.
Among 1013 women with 1209 pregnancies, 952 received FA.
Nanoparticle-based approaches to tackling urinary tract biofilms.
This review is based on a literature search conducted in PubMed/MEDLINE, Web of Science, and Scopus, prioritizing studies employing urine-relevant models.
Geographic clustering and population structures of
Campylobacter jejuni and Campylobacter coli in South and Southeast Asian poultry systems.
Pangenome analyses were consistent with more geographically structured accessory profiles in C. coli and a more dispersed pattern in C. jejuni, compatible with broader regional dissemination.
Campylobacter jejuni and Campylobacter coli are the leading causes of human bacterial gastroenteritis worldwide, with poultry serving as a primary reservoir posing significant risks to food safety and public health.
In contrast, C. jejuni isolates clustered more diffusely into multiple clonal complexes (ST-21, ST-45 and ST-257) that were shared between countries, reflecting greater ecological adaptability and frequent gene flow.
This study investigated the genetic diversity of C. jejuni and C. coli isolates from chicken sampled in farms, along with markets (live bird markets and shops) and slaughtering facilities from Bangladesh, India, Sri Lanka and Vietnam.
An exception was Sri Lanka, where C. jejuni showed an apparent ecological segregation between markets and slaughtering facilities, albeit with a limited within-country sample size.
Geographic clustering and population structures of Campylobacter jejuni and Campylobacter coli in South and Southeast Asian poultry systems.
Microbe Profile:
Durusdinium trenchii: a thermotolerant coral symbiont.
Notably, this species displays exceptional tolerance to heat stress, enabling it to persist within the coral gastrodermis and often dominate symbiont communities under elevated temperatures.
D. trenchii can confer increased thermal tolerance and reduced bleaching susceptibility to corals, though frequently with trade-offs in host growth and calcification.
Aerobic Fermentation Strategy to Promote Nisin Production by
Lactococcus lactis.
Aerobic cultivation of L. lactis CF6 significantly increased intracellular ATP and the NAD+/NADH ratio, thus redirecting metabolic flux toward nisin production.
Evidence supporting the first secondary chromosome in Actinobacteria as a hallmark of the
Embleya genus.
Using this method, we systematically investigated close-packed metals, two-dimensional metal-organic frameworks (2D MOFs), and diverse inorganic layered materials to establish relationships between atomic structures and PXRD patterns.
Breaking Atomic Fe-N
4 Symmetry in Aerogel Catalysts by Nitrogen and Chlorine Doping for Enhancing Oxygen Reduction.
Breaking Atomic Fe-N 4 Symmetry in Aerogel Catalysts by Nitrogen and Chlorine Doping for Enhancing Oxygen Reduction.
Herein, we propose a chemical assembly strategy to engineer an asymmetrically structured Fe-N4 single-atom active site densely embedded within a hierarchical micro-nanoporous aerogel.
Complementing these experimental results, we introduced an explainable XGBoost machine-learning model to accurately predict battery power density, uncovering critical performance trends driven by voltage, catalyst atomistic architecture, and device configurations.
Furthermore, Zn-air batteries utilizing this catalyst deliver high peak power densities of 395 mW cm-2 and 161 mW cm-2 for liquid- and solid-state batteries, respectively, while maintaining excellent stability under repeated cycles and various mechanical deformations.
A treat-to-target urate management strategy does not improve kidney outcome in patients with chronic kidney disease and asymptomatic hyperuricemia: a target trial emulation.
Among patients with stage G3-G4 CKD and asymptomatic hyperuricemia in whom clinicians decide to start ULT, these findings do not support pushing to achieve this intensive urate target for improving renal outcomes.
Whether a treat-to-target urate management strategy improves kidney outcomes in patients with chronic kidney disease (CKD) and asymptomatic hyperuricemia initiating urate-lowering therapy (ULT) remains uncertain, despite current guidelines.
This target trial emulation (TTE) study included 2092 adults with stage G3-G4 CKD and asymptomatic hyperuricemia who initiated ULT at Zhejiang Provincial People 's Hospital between 2018 and 2024.
A treat-to-target urate management strategy does not improve kidney outcome in patients with chronic kidney disease and asymptomatic hyperuricemia: a target trial emulation.
Carbon Residual Chemical Shift Anisotropy as an Analytical Tool for Anomeric Differentiation and Enantiodiscrimination.
The analyses were carried out using the RCSAs measured in the isotropic phase and in the chromonic-like lyotropic liquid crystalline phase of DSF.
The RCSA data obtained in the aligned DSF liquid crystal not only enable a clear distinction between the α- and β-anomers of carbohydrates but also remarkably show that the liquid crystalline phase of DSF is capable of simultaneously accommodating both anomers in different orientations.
Collectively, these findings expand the toolbox of NMR-focused analytical chemists, making it a powerful analytical tool that complements Nuclear Overhauser effects and J-couplings for the stereochemical analysis of flexible molecules in water-compatible systems.
This methodological development establishes carbon residual chemical shift anisotropy (RCSA) as an effective analytical tool for the unambiguous anomeric differentiation and enantiodiscrimination of carbohydrates and amino acids aligned in an aqueous disodium folate (DSF) liquid crystal.
Streptomyces mabaensis sp. nov., isolated from karst cave samples of ancient Ma'ba remains.
nov., isolated from karst cave samples of ancient Ma'ba remains.
Caves are generally considered to be natural subterranean spaces with nutrient-deficient conditions and represent a particular source of uncharacterized microbial diversity.
Among these culturable Streptomyces strains, two novel strains, SYSU K21746T and SYSU K217416, were identified and characterized using a polyphasic approach.
strains were harvested from the karst cave of the Maba hominins (one of the most important representatives of archaic Homo sapiens in China) in Shaoguan City.
According to these results, two isolates from the karst cave niche represent a novel species of the genus Streptomyces, for which the name Streptomyces mabaensis sp.
Clavibacter vidaverae sp. nov., Clavibacter rahimiani sp. nov. and Clavibacter davisi sp. nov.: corynebacterial plant pathogens isolated from small-grain cereals.
We synthesize data from in vitro systems, animal models, and human studies to illustrate how diverse xenobiotics converge on mitochondrial targets to trigger hepatocellular injury.
In addition, advances in experimental models including humanized mice and liver organoids are evaluated for their predictive value in drug safety assessment.
Structural Retinal and Choroidal Changes in Toxoplasmic Retinochoroiditis Assessed by Swept-Source Optical Coherence Tomography.
A parallel randomized controlled trial was conducted with 105 undergraduate nursing students.
Nursing students frequently experience high levels of clinical stress, which can impair learning, reduce clinical competence, and hinder the development of self-efficacy and professional identity.
[Solitary fibrous tumor of the prostate mimicking a tumor of the vesicoprostatic junction. Case report].
Differentiating among the various neoplasms of the urinary and reproductive system in adult patients is essential for establishing an accurate diagnosis and determining the appropriate therapeutic strategy.
71-year-old man with a history of Gleason 10 (5+5) prostate adenocarcinoma who developed a suspicious lesion at the vesicoprostatic junction, initially considered a urothelial carcinoma based on cystoscopy findings and immunohistochemistry.
[Early preeclampsia associated with hydatidiform mole and pulmonary metastasis: A case report].
The objective was to present the case of an adolescent patient with early-onset preeclampsia as the initial manifestation of a complete hydatidiform mole with pulmonary metastasis.
A 15-year-old patient without prenatal care was admitted due to vaginal bleeding, persistent nausea, and clinical signs of preeclampsia.
Adding transcriptomic features to MF prognostic models.
Coffin-Lowry syndrome (CLS, OMIM # 303600) is an X-linked dominant inherited condition caused by variants in the RPS6KA3 gene located at Xp22.12 and mainly affects men.
A 4-year-old male, son of healthy, non-consanguineous parents, who presents distinctive clinical features of CLS: global neurodevelopmental delay, hypertelorism, low-set and prominent ears, down-slanted palpebral fissures, depressed nasal bridge, anteverted nostrils, wide mouth, widely spaced teeth, and broad fingers.
Targets of senescence in cardiac muscle: insights for regenerative treatments in the aged heart.
Whether these therapies are gene, cell or pharmacological, they must be tested in pre-clinical models and experimental medicine studies which reflect the patient population they are designed to treat.
Targets of senescence in cardiac muscle: insights for regenerative treatments in the aged heart.
There are many reasons to explain the discrepancies, however a key factor is that patients in need of regenerative therapies are mostly aged, being 70 years and older.
The aging heart undergoes structural and functional changes due to biological mechanisms associated with aging.
Of these, increased senescent cell burden, inflammaging, and metabolic dysfunction are particularly relevant to the heart.
A geometry-informed continuous 3D IEQ framework enables more accurate dose estimation in stem cell-derived islet transplantation.
In vivo, streptozotocin-induced diabetic mice transplanted with islet doses based on major-axis modeling exhibited faster and more stable restoration of glycemia compared with groups receiving doses derived from overestimated approaches.
Accurate quantification of islet mass is critical for the preclinical evaluation and therapeutic application of stem cell-derived pancreatic islet organoids.
Functional assessment with glucose-stimulated insulin secretion assays across multiple size categories demonstrated consistent insulin output for clusters below 250 μm, supporting the reproducibility of our 3D differentiation system.
Adjunctive Intra-Arterial Alteplase After Successful Thrombectomy for Acute Ischemic Stroke: The CHOICE-2 Randomized Clinical Trial.
A total of 440 patients with acute ischemic stroke due to large vessel occlusion treated with thrombectomy within 24 hours and achieving an expanded Treatment in Cerebral Ischemia score of 2b50 to 3 were randomized.
Among patients with acute ischemic stroke and successful thrombectomy, adjunctive intra-arterial alteplase increased the proportion achieving excellent functional outcome at 90 days without a significant increase in symptomatic intracranial hemorrhage.
Mortality at 90 days was 12.1 % (26/214) in the thrombectomy plus intra-arterial alteplase group vs 6.4 % (14/219) in the thrombectomy alone group (adjusted risk difference, 5.9 % [ 95 % CI, 0.5 % to 11.3 % ]; P =.03).
Of 3786 patients treated with thrombectomy, 2776 (73 %) fulfilled angiographic criteria and 440 (12 %) were randomized.
At 90 days, 57.5 % of patients (123/214) in the thrombectomy plus intra-arterial alteplase group had a modified Rankin Scale score of 0 or 1 vs 42.5 % of patients (93/219) in the thrombectomy alone group (adjusted risk difference, 15.0 % [ 95 % CI, 5.7 % to 24.3 % ]; P =.002).
Residual hypoperfusion occurred in 28.6 % (55/192) of patients in the thrombectomy plus intra-arterial alteplase group vs 50.5 % (96/190) of patients in the thrombectomy alone group (adjusted risk difference, -22.0 % [ 95 % CI, -31.5 % to -12.4 % ]; P <.001) and symptomatic intracranial hemorrhage occurred in 1.4 % (3/214) vs 0.5 % (1/219), respectively (adjusted odds ratio, 3.10 [ 95 % CI, 0.32 to 30.0 ]; P =.33).
Tumor-Infiltrating Clonal Hematopoiesis and Pan-Cancer Prognosis in Patients With Solid Tumors.
TI-CH was associated with worse survival in patients with solid tumors, specifically implicating GATA2(pan-cancers) and TET2 (breast cancer) variants.
Among 10 571 patients with solid tumors (mean [ SD ] age, 64.68 [ 12.18 ] years; 6430 [ 60.83 % ] female), TI-CH was detected in 1943 patients (18.38 %), with the highest frequency observed in patients with TET2 variants (212 patients [ 10.91 % ]) and in patients with endometrial cancer (251 patients [ 32 % ]).
The primary outcome was the prevalence of TI-CH, defined by somatic variants in 74 driver genes (variant allele frequency 2 % to 30 %) in tumor tissue.
These findings suggest TI-CH may serve as a prognostic biomarker in patients with solid tumors.
Tumor-Infiltrating Clonal Hematopoiesis and Pan-Cancer Prognosis in Patients With Solid Tumors.
This retrospective cohort study analyzed whole-genome sequencing data of a large cohort of patients with solid tumors from the Genomics England 100 000 Genomes Project between 2015 and 2019.
To characterize the prevalence of TI-CH in solid tumors and evaluate its association with clinical factors and overall survival (OS).
Mobile Application as a Digital Therapeutic for Chronic Tinnitus: A Randomized Clinical Trial.
At week 16, the therapeutic app group showed significantly greater improvement in THI scores compared with the sham-control app group (between-group difference in change in THI, -20.4; 95 % CI, -28.2 to -12.6).
Tinnitus worsened in 1 patient in the sham-control app group.
The therapeutic app may serve as an effective and standardized intervention for individuals with chronic tinnitus.
A total of 60 participants (33 [ 55 % ] female; median [ IQR ] age, 58.5 [ 52.0-64.0 ] years) were assessed, including 30 participants in the therapeutic app group and 30 participants in the sham-control app group.
This double-blind, sham-controlled randomized clinical trial was conducted from September 2023 to February 2025 in individuals diagnosed with mild to severe chronic tinnitus.
To develop a prototype digital therapeutic mobile app that provides educational counseling and CBT elements for treating chronic tinnitus symptoms and test its efficacy and safety for 16 weeks in patients reporting distressing chronic tinnitus.
Patients who receive cognitive behavioral therapy (CBT) and hearing aid therapy for chronic tinnitus accompanied by hearing loss have shown some improvement, but access to these interventions is limited.
Amblyopia is the leading cause of monocular decreased best-corrected vision in children.
Through this work and the development of the forthcoming free, web-based application version, Amblyopia Navigator Decision-Support Instrument, the Pediatric Eye Disease Investigator Group has created decision support tools designed to assist optometrists and ophthalmologists in the care of children aged 3 to 17 years with amblyopia.
Given the shortage of specialty-trained eye care professionals in the US, there is need to support comprehensive eye care professionals who are willing to examine and treat children with amblyopia.