cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.27969566.v1
title: Routine blood biochemical biomarkers in amyotrophic lateral sclerosis: Systematic review and cohort analysis

description: <i>Introduction</i>: Blood biochemical biomarkers, including urate, creatinine, albumin, and creatine kinase, have been shown to be useful in ALS. To provide further information about the roles of these four biomarkers roles we performed a systematic review. In addition, we also performed a new study of the role of these biomarkers in predicting survival, using data from our local ALS cohort. <i>Methods</i>: (1) Using established databases and other sources, we searched for papers about the use of urate, creatinine, albumin, and creatine kinase as biomarkers in ALS. Included articles were reviewed for information about biomarker levels in ALS and controls, association with markers of functional decline, and survival. (2) For our local ALS cohort, we performed survival analysis, Cox-proportionate-hazard ratio and ROC curves to investigate the use of these biomarkers in predicting survival. <i>Results</i>: (1) For systematic review, 104 papers were included. There was some variability in the findings. For urate, there was evidence of decreased levels in ALS, with higher levels associated ith longer survival. For creatinine, there was evidence of decreased levels in ALS, and higher levels correlated with longer survival. For albumin, some reports of reduced levels in ALS, but no consistent association with survival. For creatine kinase, some reports of increased levels in ALS, with inconsistent association with survival. (2) For the local ALS cohort there was evidence that urate and creatinine were associated with survival, but no significant association with survival. There was less evidence for albumin and CK. <i>Discussion</i>: This study provides support for further studies of these readily available biochemical measurement as bioamerkers in ALS.
DOI: 10.5281/zenodo.18325886
title: PRASAANALISIS KEBUTUHAN SARANA DAN PRASARANA KABUPATEN BEKASI
DOI: 10.5281/zenodo.18325887
title: PRASAANALISIS KEBUTUHAN SARANA DAN PRASARANA KABUPATEN BEKASI
DOI: 10.6084/m9.figshare.27145194
title: The predominance of teeth in the non-avian dinosaur record from Cretaceous Brazil: a review

description: Dinosaur fossils are commonly found in Brazilian Mesozoic strata, with teeth being frequently found in Cretaceous outcrops. Many studies have been made with the aim of reviewing the known diversity of Brazilian dinosaurs, mostly focusing solely on their palaeobiogeography. However, few tried to typify these body fossils in order to see which kinds were most prevalent in the fossil record. This study aims to count and identify all occurrences of non-avian dinosaur teeth (isolated or <i>in situ</i>) unearthed from Brazilian Cretaceous strata in order to objectively measure their representativity in the national fossil record. Our literature search showed that almost half of the dinosaur fossil record from the Cretaceous of Brazil is composed by teeth, those being particularly abundant in the Alcântara, Adamantina and Marília formations. Theropod teeth are more abundant in comparison to sauropod teeth, with spinosaurids, deinonychosaurs, and abelisaurids being amply found. Despite representing a large share of the Brazilian fossil record, dinosaur teeth have only recently been studied in depth, with many specimens being reassessed through the current identification methods. Other aspects besides primary taxonomic identification can also be further explored using the latest technologies on dinosaur teeth, allowing a deeper understanding of the palaeobiology of these reptiles.
DOI: 10.6084/m9.figshare.27145194.v1
title: The predominance of teeth in the non-avian dinosaur record from Cretaceous Brazil: a review

description: Dinosaur fossils are commonly found in Brazilian Mesozoic strata, with teeth being frequently found in Cretaceous outcrops. Many studies have been made with the aim of reviewing the known diversity of Brazilian dinosaurs, mostly focusing solely on their palaeobiogeography. However, few tried to typify these body fossils in order to see which kinds were most prevalent in the fossil record. This study aims to count and identify all occurrences of non-avian dinosaur teeth (isolated or <i>in situ</i>) unearthed from Brazilian Cretaceous strata in order to objectively measure their representativity in the national fossil record. Our literature search showed that almost half of the dinosaur fossil record from the Cretaceous of Brazil is composed by teeth, those being particularly abundant in the Alcântara, Adamantina and Marília formations. Theropod teeth are more abundant in comparison to sauropod teeth, with spinosaurids, deinonychosaurs, and abelisaurids being amply found. Despite representing a large share of the Brazilian fossil record, dinosaur teeth have only recently been studied in depth, with many specimens being reassessed through the current identification methods. Other aspects besides primary taxonomic identification can also be further explored using the latest technologies on dinosaur teeth, allowing a deeper understanding of the palaeobiology of these reptiles.
DOI: 10.6084/m9.figshare.28503215
title: Novel Biomarkers for Screening Retinal Detachment Associated with Choroidal Detachment Using DIA-MS-Based Proteomics

description: Rhegmatogenous retinal detachment associated with choroidal detachment (RRDCD) is known for its rapid progression and poor prognosis, making it a subject of significant clinical interest due to its complex pathogenesis. This study aims to utilize mass spectrometry for proteomic analysis of vitreous humor to identify proteins and biomarkers critical to the pathophysiology of RRDCD. Data-independent acquisition (DIA) mass spectrometry was employed to analyze vitreous humor samples from RRDCD and Rhegmatogenous retinal detachment (RRD) patients. The analysis focused on identifying differentially expressed proteins (DEPs) and determining their functional roles. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses were performed to explore the biological processes and pathways associated with these DEPs. DEPs were validated using ELISA to confirm the reliability of the mass spectrometry results. A total of 237 DEPs were identified, including 63 upregulated and 174 downregulated proteins. GO functional analysis showed enrichment in terms related to molecular function regulators, biological adhesion, and the extracellular region. KEGG pathway analysis revealed significant associations with the Extracellular environment (ECM)-receptor interaction, complement and coagulation cascades, and lysosome pathways. Receiver operating characteristic (ROC) analysis further confirmed that Serum amyloid A-4 protein (SAA4), Inter-alpha-trypsin inhibitor heavy chain H1 (ITIH1), and Vitronectin (VTN) exhibit excellent performance in the diagnosis of RRDCD. Both VTN and SAA4 showed positive correlations with BCVA at 6 months post-surgery. RRDCD activates a variety of cellular pathways, not only complement and inflammation, but also the remodeling of the extracellular matrix and the activation of lysosome-related pathways disrupt normal retinal cell function. SAA4, ITIH1, and VTN in vitreous fluid can serve as effective biomarkers for diagnosing patients with RRDCD. Additionally, both VTN and SAA4 are correlated with post-operative visual outcomes.
DOI: 10.6084/m9.figshare.28503215.v1
title: Novel Biomarkers for Screening Retinal Detachment Associated with Choroidal Detachment Using DIA-MS-Based Proteomics

description: Rhegmatogenous retinal detachment associated with choroidal detachment (RRDCD) is known for its rapid progression and poor prognosis, making it a subject of significant clinical interest due to its complex pathogenesis. This study aims to utilize mass spectrometry for proteomic analysis of vitreous humor to identify proteins and biomarkers critical to the pathophysiology of RRDCD. Data-independent acquisition (DIA) mass spectrometry was employed to analyze vitreous humor samples from RRDCD and Rhegmatogenous retinal detachment (RRD) patients. The analysis focused on identifying differentially expressed proteins (DEPs) and determining their functional roles. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses were performed to explore the biological processes and pathways associated with these DEPs. DEPs were validated using ELISA to confirm the reliability of the mass spectrometry results. A total of 237 DEPs were identified, including 63 upregulated and 174 downregulated proteins. GO functional analysis showed enrichment in terms related to molecular function regulators, biological adhesion, and the extracellular region. KEGG pathway analysis revealed significant associations with the Extracellular environment (ECM)-receptor interaction, complement and coagulation cascades, and lysosome pathways. Receiver operating characteristic (ROC) analysis further confirmed that Serum amyloid A-4 protein (SAA4), Inter-alpha-trypsin inhibitor heavy chain H1 (ITIH1), and Vitronectin (VTN) exhibit excellent performance in the diagnosis of RRDCD. Both VTN and SAA4 showed positive correlations with BCVA at 6 months post-surgery. RRDCD activates a variety of cellular pathways, not only complement and inflammation, but also the remodeling of the extracellular matrix and the activation of lysosome-related pathways disrupt normal retinal cell function. SAA4, ITIH1, and VTN in vitreous fluid can serve as effective biomarkers for diagnosing patients with RRDCD. Additionally, both VTN and SAA4 are correlated with post-operative visual outcomes.
DOI: 10.6084/m9.figshare.28262481
title: Meta-Analysis of the Association Between <i>VEGF</i>-2578C/A Polymorphism and Susceptibility to Type 2 Diabetic Retinopathy

description: to investigate the association between vascular endothelial growth factor (<i>VEGF)</i>-2578C/A polymorphism and susceptibility to type 2 diabetic retinopathy (T2DR) by meta-analysis. According to the search strategy, Four databases were retrieved to identify the literature on the relationship between <i>VEGF</i> polymorphism and the risk of T2DR from inception to July 2024. Stata 15.0 was used for data processing. Ten articles were involved in this review, covering 1390 cases and 1306 controls. The pooled results exhibited that the risk of T2DR was associated with <i>VEGF</i>-2578C/A polymorphism under the allele model (A/C: OR= 1.33, 95%CI: 1.04–1.72, <i>p</i> = 0.025) and dominant models (AA+CA/CC: OR= 1.38, 95%CI: 1.00–1.91, <i>p</i> = 0.047). However, in recessive, homozygous, and heterozygous models, no significant difference was observed (all <i>p</i> &gt; 0.05). The <i>VEGF</i>-2578C/A polymorphism is associated with susceptibility to T2DR. In particular, allele A and genotype AA+CA at the <i>VEGF</i>-2578C/A locus were significantly associated with an increased risk of T2DR.
DOI: 10.6084/m9.figshare.28262481.v1
title: Meta-Analysis of the Association Between <i>VEGF</i>-2578C/A Polymorphism and Susceptibility to Type 2 Diabetic Retinopathy

description: to investigate the association between vascular endothelial growth factor (<i>VEGF)</i>-2578C/A polymorphism and susceptibility to type 2 diabetic retinopathy (T2DR) by meta-analysis. According to the search strategy, Four databases were retrieved to identify the literature on the relationship between <i>VEGF</i> polymorphism and the risk of T2DR from inception to July 2024. Stata 15.0 was used for data processing. Ten articles were involved in this review, covering 1390 cases and 1306 controls. The pooled results exhibited that the risk of T2DR was associated with <i>VEGF</i>-2578C/A polymorphism under the allele model (A/C: OR= 1.33, 95%CI: 1.04–1.72, <i>p</i> = 0.025) and dominant models (AA+CA/CC: OR= 1.38, 95%CI: 1.00–1.91, <i>p</i> = 0.047). However, in recessive, homozygous, and heterozygous models, no significant difference was observed (all <i>p</i> &gt; 0.05). The <i>VEGF</i>-2578C/A polymorphism is associated with susceptibility to T2DR. In particular, allele A and genotype AA+CA at the <i>VEGF</i>-2578C/A locus were significantly associated with an increased risk of T2DR.
DOI: 10.6084/m9.figshare.28546647
title: Tear Global Metabolomic Differences in Pre-Operative Cataract Patients With and Without Dry Eye Disease

description: The primary aim of this article was to investigate differences in the metabolomic profile of tear fluid obtained from pre-operative cataract patients, with or without dry eye disease. The objective was to look for metabolomic signatures that might discriminate between the two groups. A total of 222 patients were enrolled in the study. Eighty-one were randomly selected for metabolomic analysis from both dry eye positive and dry eye negative groups, categorized prior to cataract surgery. Tear film was collected using Schirmer-1 strips and analyzed using an optimized method developed for low-volume Schirmer samples and allowing for repeated analyses, including other -omics approaches at a later stage. Metabolomic data were collected using a global liquid chromatography–mass spectrometry method. Samples were compared using principal component analysis and volcano plots to look for overall global differences as well as group-specific metabolic signatures. All samples were analyzed with a high number of features identified. No group-specific clustering was observed in principal component analysis for the dry eye positive or dry eye negative groups. However, volcano plots revealed that a majority of the metabolomic features had lower concentration in the dry eye positive group compared to the dry eye negative group. Four of these features had a Log<sub>2</sub>-fold change ≤ −1 and <i>p</i> value ≤.05. These warrant further study. Although no overall global difference was observed on the principal component analysis plots, a general trend of lower metabolite concentrations in the dry eye disease group was shown. Moreover, several metabolites of interest were discovered with significantly different signal intensities between the groups. These metabolites may aid future diagnostics and serve as possible biomarkers and therapeutic targets for dry eye disease in pre-operative cataract patients.
DOI: 10.6084/m9.figshare.28546647.v1
title: Tear Global Metabolomic Differences in Pre-Operative Cataract Patients With and Without Dry Eye Disease

description: The primary aim of this article was to investigate differences in the metabolomic profile of tear fluid obtained from pre-operative cataract patients, with or without dry eye disease. The objective was to look for metabolomic signatures that might discriminate between the two groups. A total of 222 patients were enrolled in the study. Eighty-one were randomly selected for metabolomic analysis from both dry eye positive and dry eye negative groups, categorized prior to cataract surgery. Tear film was collected using Schirmer-1 strips and analyzed using an optimized method developed for low-volume Schirmer samples and allowing for repeated analyses, including other -omics approaches at a later stage. Metabolomic data were collected using a global liquid chromatography–mass spectrometry method. Samples were compared using principal component analysis and volcano plots to look for overall global differences as well as group-specific metabolic signatures. All samples were analyzed with a high number of features identified. No group-specific clustering was observed in principal component analysis for the dry eye positive or dry eye negative groups. However, volcano plots revealed that a majority of the metabolomic features had lower concentration in the dry eye positive group compared to the dry eye negative group. Four of these features had a Log<sub>2</sub>-fold change ≤ −1 and <i>p</i> value ≤.05. These warrant further study. Although no overall global difference was observed on the principal component analysis plots, a general trend of lower metabolite concentrations in the dry eye disease group was shown. Moreover, several metabolites of interest were discovered with significantly different signal intensities between the groups. These metabolites may aid future diagnostics and serve as possible biomarkers and therapeutic targets for dry eye disease in pre-operative cataract patients.
DOI: 10.6084/m9.figshare.28680928
title: Risk Factors for Development of Limbal Stem Cell Deficiency After Acute Ocular Burns

description: To identify the risk factors predictive of limbal stem cell deficiency (LSCD) in eyes with acute ocular burns (AOB). This was a retrospective, comparative case series which included 112 eyes of 96 patients with AOB of severity &gt; Dua grade II who had follow-up until complete epithelization. Data on injury details, clinical features, and treatment were collected. Logistic regression analysis was performed to identify risk factors for (i) LSCD following AOB, (ii) LSCD &gt;6 clock hours, and (iii) LSCD requiring surgical intervention. Of the 112 eyes, 61 eyes (54%) of 56 patients developed LSCD. The final median best-corrected visual acuity (BCVA) was poorer in eyes with LSCD [logMAR 0.9 (IQR: 0.5–1.5)] when compared to the non-LSCD group [logMAR 0.1 (IQR: 0–0.3); <i>p</i> &lt; .00001]. Regression analysis revealed lime injury (OR: 7.5, <i>p</i> = .002), conjunctival defect of &gt;50% area (OR = 7.6, <i>p</i> = .0001), limbal epithelial defect of &gt;6 clock hours (OR = 3.5, <i>p</i> = .02), and undergoing repeat AMT (OR: 15.3, <i>p</i> = .01) to be risk factors for the development of LSCD. For “LSCD of &gt;6 clock hours”, both conjunctival defect of &gt;50% area [OR: 4.5 (CI: 1.2–16.9), <i>p</i> = .03] and limbal epithelial defect of &gt;6 clock hours [OR: 9.6 (CI: 1.9–48.6), <i>p</i> = .006] were significant risk factors; while for the outcome “LSCD necessitating a surgical intervention”, conjunctival defect of &gt;50% area [OR: 4.1 (CI: 1.2–13.6), <i>p</i> = .03] was a risk factor. Patients with lime injury, limbal epithelial defects, and conjunctival epithelial defects involving a larger area are at a higher risk of development of LSCD post AOB. Larger conjunctival defects indicate the development of more severe LSCD and a greater need for surgical intervention. Eyes with LSCD have poorer visual outcomes. Thus, preventing this entity by addressing the risk factors can alleviate the socioeconomic burden on the affected individuals and the healthcare system.
DOI: 10.6084/m9.figshare.28680928.v1
title: Risk Factors for Development of Limbal Stem Cell Deficiency After Acute Ocular Burns

description: To identify the risk factors predictive of limbal stem cell deficiency (LSCD) in eyes with acute ocular burns (AOB). This was a retrospective, comparative case series which included 112 eyes of 96 patients with AOB of severity &gt; Dua grade II who had follow-up until complete epithelization. Data on injury details, clinical features, and treatment were collected. Logistic regression analysis was performed to identify risk factors for (i) LSCD following AOB, (ii) LSCD &gt;6 clock hours, and (iii) LSCD requiring surgical intervention. Of the 112 eyes, 61 eyes (54%) of 56 patients developed LSCD. The final median best-corrected visual acuity (BCVA) was poorer in eyes with LSCD [logMAR 0.9 (IQR: 0.5–1.5)] when compared to the non-LSCD group [logMAR 0.1 (IQR: 0–0.3); <i>p</i> &lt; .00001]. Regression analysis revealed lime injury (OR: 7.5, <i>p</i> = .002), conjunctival defect of &gt;50% area (OR = 7.6, <i>p</i> = .0001), limbal epithelial defect of &gt;6 clock hours (OR = 3.5, <i>p</i> = .02), and undergoing repeat AMT (OR: 15.3, <i>p</i> = .01) to be risk factors for the development of LSCD. For “LSCD of &gt;6 clock hours”, both conjunctival defect of &gt;50% area [OR: 4.5 (CI: 1.2–16.9), <i>p</i> = .03] and limbal epithelial defect of &gt;6 clock hours [OR: 9.6 (CI: 1.9–48.6), <i>p</i> = .006] were significant risk factors; while for the outcome “LSCD necessitating a surgical intervention”, conjunctival defect of &gt;50% area [OR: 4.1 (CI: 1.2–13.6), <i>p</i> = .03] was a risk factor. Patients with lime injury, limbal epithelial defects, and conjunctival epithelial defects involving a larger area are at a higher risk of development of LSCD post AOB. Larger conjunctival defects indicate the development of more severe LSCD and a greater need for surgical intervention. Eyes with LSCD have poorer visual outcomes. Thus, preventing this entity by addressing the risk factors can alleviate the socioeconomic burden on the affected individuals and the healthcare system.
DOI: 10.6084/m9.figshare.28521718
title: Tear-Driven Phase Transition Microemulsion for Ocular Delivery of Dexamethasone in the Effective Treatment of Uveitis

description: The goal of this study was to develop dexamethasone-loaded tear-driven phase transition microemulsions (PTMEs) to effectively treat uveitis. PTMEs were prepared using the oil titration method. Physicochemical parameters, <i>in vitro</i> release, and ocular irritation studies were performed. The <i>in vivo</i> study, total cell count, and total protein content were estimated on the rabbit eye model. The study revealed that developed PTMEs had nanoglobule sizes, acceptable physicochemical properties, and prolonged drug release. Ex-vivo and in-vivo studies concluded that higher permeability and improved anti-inflammatory properties were observed for PTMEs compared to marketed formulation. The prepared PTMEs showed a sustained release pattern and enhanced therapeutic effectiveness, making them a promising alternative to conventional eye drops for treating uveitis.
DOI: 10.6084/m9.figshare.28521718.v1
title: Tear-Driven Phase Transition Microemulsion for Ocular Delivery of Dexamethasone in the Effective Treatment of Uveitis

description: The goal of this study was to develop dexamethasone-loaded tear-driven phase transition microemulsions (PTMEs) to effectively treat uveitis. PTMEs were prepared using the oil titration method. Physicochemical parameters, <i>in vitro</i> release, and ocular irritation studies were performed. The <i>in vivo</i> study, total cell count, and total protein content were estimated on the rabbit eye model. The study revealed that developed PTMEs had nanoglobule sizes, acceptable physicochemical properties, and prolonged drug release. Ex-vivo and in-vivo studies concluded that higher permeability and improved anti-inflammatory properties were observed for PTMEs compared to marketed formulation. The prepared PTMEs showed a sustained release pattern and enhanced therapeutic effectiveness, making them a promising alternative to conventional eye drops for treating uveitis.