cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7773449
title: Intraocular pressure in subjects with beta-thalassemia minor

description: ABSTRACT Purpose: Beta-thalassemia minor, a common hereditary blood disorder in Mediterranean countries such as Turkey, is associated with insulin resistance. Insulin resistance, in turn, can be associated with excessively high intraocular pressure and, therefore, intraocular pressure-induced blindness. This study aimed to investigate the intraocular pressure in subjects with beta-thalassemia minor. Methods: We conducted a cross-sectional study comprising of 203 subjects divided into two groups: beta-thalassemia minor (103) and healthy (100).Hemoglobin electrophoresis was performed and complete blood count, blood pressures, serum fasting glucose and insulin levels were measured. All subjects underwent ophthalmological examinations including intraocular pressure measurements. Results: Intraocular pressure in the subjects with beta-thalassemia minor was significantly lower than that in healthy subjects (p=0.007). Additionally, intraocular pressure was inversely correlated with hemoglobin A2 levels (p=0.001, r=-0.320). Serum insulin and systolic blood pressure were significantly higher in subjects with beta-thalassemia minor (p=0.03, p=0.009, respectively). Conclusion: Subjects with beta-thalassemia minor had lower intraocular pressure than healthy controls, suggesting beta-thalassemia minor may actually protect against high intraocular pressure.
DOI: 10.6084/m9.figshare.7773455.v1
title: PREVALENCE OF EARLY SPINAL DEFORMITY IN CHILDREN WITH GMFCS V CEREBRAL PALSY

description: ABSTRACT Objective: Spastic cerebral palsy (sCP) is a cause of early onset scoliosis, although there are no data on its prevalence. Our objective was to determine the prevalence of early onset neuromuscular spinal deformities (SD) in severely compromised children with sCP. Methods: Cross-sectional quantitative, observational, exploratory, and descriptive study. Review of clinical records. Inclusion criteria: age 2 to 5 years, sCP, level V of the GMFCS, residents in our province. X-ray blind reading by 2 observers. The Student t test was used for parametric data and the chi-square test for non-parametric data. Level of statistical significance: p &lt; 0.05. Results: Thirty-eight cases of 158 registered were included. Average age: 3 years 7 months (2 years – 5 years 2 months). Sex: 21 male/17 female. The predominant etiologies were perinatal: 21 (55.3%), and the prevalent nutritional status was eutrophic: 28 cases (73.7%). SD was very frequent: 32 patients (84.2%) without statistical differences between sexes; there were 20 kyphoscoliosis, 1 lordoscoliosis, 6 scoliosis, 5 hyperkyphosis. Mean angular values: 23.9° (10°- 50°) for the frontal plane deformities and 58° (9°- 92º) for the sagittal deformities. Seventeen patients (44.7%) had average pelvic obliquity of 15° (2°- 30°) without differences in patients with and without SD. There was no association between SD and etiology, digestive disorders, seizures, nutritional status, hip excentration, or limb deformities. Conclusions: The prevalence of SD in children up to 5 years old with severe sCP is high: 84.2% (32/38 cases). The orthopedic profile is children with sCP of any etiology at GMFCS level V, with multiple disabilities and independently of associated limb deformities. Level of evidence I; Diagnostic Studies - Investigating a Diagnostic Test: Testing of previously developed diagnostic criteria on consecutive patients (with universally applied reference “gold” standard).
DOI: 10.6084/m9.figshare.7773440
title: Objective evaluation of vision quality in pseudophakic patients with posterior capsular opacification using double-pass retinal imaging

description: ABSTRACT Purpose: The purpose of this study was to objectively assess the optical vision quality of patients before and after Nd:YAG capsulotomy for posterior capsular opacification using a double-pass retinal imaging system. Methods: We retrospectively analyzed the data from 26 pseudophakic eyes with posterior capsular opacification that underwent Nd:YAG capsulotomy. The objective scatter indices, modulation transfer function cutoff frequencies, Strehl ratios, and logMAR corrected distance visual acuities were assessed before and after YAG capsulotomy with a double-pass retinal imaging system (OQAS II, Visiometrics, Spain). We also analyzed data from a subgroup of 10 patients with pre-YAG corrected distance visual acuity of 0.10 logMAR (20/25) or better. Results: Vision quality indices improved in all 26 eyes, resulting in a statistically significant improvement in the corrected distance visual acuity (p=0.007), objective scatter index (p=0.001), modulation transfer function cutoff frequency (p=0.001), and Strehl ratio (p=0.020). The overall mean improvements included 0.12 ± 0.04 logMAR for corrected distance visual acuity, 2.84 ± 0.76 for objective scatter index, 12.29 ± 2.77 for modulation transfer function cutoff frequency, and 0.06 ± 0.03 for Strehl ratio. Our sub-analysis of 10 eyes with 0.10 logMAR (20/25) corrected distance visual acuity or better also showed a statistically significant improvement in the mean objective scatter index (0.76 ± 16; p=0.001), resulting in approximately 35% decrease in intraocular light scatter. Conclusions: The objective vision quality measurements as assessed by the double-pass retinal imaging system showed a significant improvement after YAG capsulotomy. This suggests that the objective scatter index improves after YAG capsulotomy, even in eyes with pre-YAG 0.10 logMAR (Snellen 20/25) corrected distance visual acuity or better.
DOI: 10.6084/m9.figshare.7773443
title: Multisectorial changes in the ciliary muscle during accommodation measured with high-resolution optical coherence tomography

description: ABSTRACT Purpose: To measure changes in the anterior ciliary muscle during accommodation at the nasal, superior, temporal, and inferior sectors by means of an anterior chamber optical coherence tomographer, and correlate them with vergence changes. Methods: Twenty-four subjects with healthy, phakic eyes, whose mean age was 27.1 ± 8.9 years, underwent measurement with an anterior chamber optical coherence tomographer. The anterior ciliary muscle was measured at the nasal, temporal, superior, and inferior sectors for 0, -1, -2, and -3 D of vergence. A linear model was used to assess the correlation of each eye parameter with the accommodative demand. Results: The anterior ciliary muscle area significantly increased with accommodation for each sector, with a maximum increase of about 30% for the nasal-temporal sectors and about 25% for the inferior-temporal sectors. The linear model showed a tendency toward a positive relationship between change in the ciliary muscle area of each sector and vergence. Conclusion: The anterior ciliary muscle area tends to increase with accommodation, although the increase has been shown to be symmetric between the pair sectors superior-nasal and inferior-temporal. These results may help to increase understanding of accommodation biometry and biomechanics.
DOI: 10.6084/m9.figshare.7773440.v1
title: Objective evaluation of vision quality in pseudophakic patients with posterior capsular opacification using double-pass retinal imaging

description: ABSTRACT Purpose: The purpose of this study was to objectively assess the optical vision quality of patients before and after Nd:YAG capsulotomy for posterior capsular opacification using a double-pass retinal imaging system. Methods: We retrospectively analyzed the data from 26 pseudophakic eyes with posterior capsular opacification that underwent Nd:YAG capsulotomy. The objective scatter indices, modulation transfer function cutoff frequencies, Strehl ratios, and logMAR corrected distance visual acuities were assessed before and after YAG capsulotomy with a double-pass retinal imaging system (OQAS II, Visiometrics, Spain). We also analyzed data from a subgroup of 10 patients with pre-YAG corrected distance visual acuity of 0.10 logMAR (20/25) or better. Results: Vision quality indices improved in all 26 eyes, resulting in a statistically significant improvement in the corrected distance visual acuity (p=0.007), objective scatter index (p=0.001), modulation transfer function cutoff frequency (p=0.001), and Strehl ratio (p=0.020). The overall mean improvements included 0.12 ± 0.04 logMAR for corrected distance visual acuity, 2.84 ± 0.76 for objective scatter index, 12.29 ± 2.77 for modulation transfer function cutoff frequency, and 0.06 ± 0.03 for Strehl ratio. Our sub-analysis of 10 eyes with 0.10 logMAR (20/25) corrected distance visual acuity or better also showed a statistically significant improvement in the mean objective scatter index (0.76 ± 16; p=0.001), resulting in approximately 35% decrease in intraocular light scatter. Conclusions: The objective vision quality measurements as assessed by the double-pass retinal imaging system showed a significant improvement after YAG capsulotomy. This suggests that the objective scatter index improves after YAG capsulotomy, even in eyes with pre-YAG 0.10 logMAR (Snellen 20/25) corrected distance visual acuity or better.
DOI: 10.6084/m9.figshare.7773431
title: Optical biometry-based axial length alterations after intravitreal dexamethasone implant

description: ABSTRACT Purpose: To investigate changes in axial length after intravitreal dexamethasone implantation in patients with macular edema. Methods: We performed a prospective comparative study of 46 patients with unilateral macular edema, due to diabetic retinopathy, retinal vein occlusion, and non-infectious uveitis, who underwent dexamethasone implantation. The fellow eyes of the patients were considered the control group. The central macular thickness was measured by spectral-domain optical coherence tomography, and axial length was measured by IOLMaster 700 optical coherence biometry. We compared axial length and central macular thickness values within the groups. Results: In the study group, the baseline central macular thickness was 460.19 ± 128.64 mm, significantly decreasing to 324.00 ± 79.84 mm after dexamethasone implantation (p=0.000). No significant change in central macular thickness measurements was seen in the control group (p=0.244). In the study group, the baseline axial length was 23.16 ± 0.68 mm, significantly increasing to 23.22 ± 0.65 mm after dexamethasone implantation (p=0.039). However, the control group exhibited no significant change in axial length (p=0.123). Conclusions: In addition to significantly reducing central macular thickness measurements, intravitreal dexamethasone implantation also significantly changes optical biometry-based axial length measurements.
DOI: 10.6084/m9.figshare.7773434
title: DEVELOPMENT OF CLOUD POINT EXTRACTION-SCANOMETRY, FOR THE PRECONCENTRATION AND DETERMINATION OF COLORLESS SPECIES: APPLICATION FOR THE DETERMINATION OF PHENYLALANINE

description: In this study, a simple, fast, portable, environment-friendly and inexpensive method, CPE-scanometry, is applied for the determination of Phenylalanine (Phe) amino acid. The extraction of analytes from water samples (15 ml) was performed in the presence of Triton X-114 as a non-ionic surfactant in a water bath environment, diluting the extracted surfactant-rich phase with alkali ethanol as a suitable solvent to 0.5 mL and transferring an appropriate volume to a special cell. The individually cylindrical cavities in the sheet of Plexiglas serve as reaction chambers. These cylindrical cavities in the sheet of Plexiglas are fabricated with a laser beam. The cells containing the analyte solution were scanned with a scanner, then the color of each cell was analyzed, by software written in Visual Basic (VB 6), to obtain the red, green and blue values. The influence of operation parameters including pH, concentrations of surfactant and electrolyte on the cloud point extraction of analyte were studied and optimum conditions were established. Under optimum condition, limit of detection (LOD), relative standard deviation (RSD) and linear range for the proposed method are obtained 0.06, 3.42 and 0.2-10.0 mg L-1 respectively. Finally, the proposed method was utilized successfully for the determination of Phenylalanine in some water and waste water samples in recoveries range 94.1–107.7%.
DOI: 10.6084/m9.figshare.7773449.v1
title: Intraocular pressure in subjects with beta-thalassemia minor

description: ABSTRACT Purpose: Beta-thalassemia minor, a common hereditary blood disorder in Mediterranean countries such as Turkey, is associated with insulin resistance. Insulin resistance, in turn, can be associated with excessively high intraocular pressure and, therefore, intraocular pressure-induced blindness. This study aimed to investigate the intraocular pressure in subjects with beta-thalassemia minor. Methods: We conducted a cross-sectional study comprising of 203 subjects divided into two groups: beta-thalassemia minor (103) and healthy (100).Hemoglobin electrophoresis was performed and complete blood count, blood pressures, serum fasting glucose and insulin levels were measured. All subjects underwent ophthalmological examinations including intraocular pressure measurements. Results: Intraocular pressure in the subjects with beta-thalassemia minor was significantly lower than that in healthy subjects (p=0.007). Additionally, intraocular pressure was inversely correlated with hemoglobin A2 levels (p=0.001, r=-0.320). Serum insulin and systolic blood pressure were significantly higher in subjects with beta-thalassemia minor (p=0.03, p=0.009, respectively). Conclusion: Subjects with beta-thalassemia minor had lower intraocular pressure than healthy controls, suggesting beta-thalassemia minor may actually protect against high intraocular pressure.
DOI: 10.6084/m9.figshare.7773443.v1
title: Multisectorial changes in the ciliary muscle during accommodation measured with high-resolution optical coherence tomography

description: ABSTRACT Purpose: To measure changes in the anterior ciliary muscle during accommodation at the nasal, superior, temporal, and inferior sectors by means of an anterior chamber optical coherence tomographer, and correlate them with vergence changes. Methods: Twenty-four subjects with healthy, phakic eyes, whose mean age was 27.1 ± 8.9 years, underwent measurement with an anterior chamber optical coherence tomographer. The anterior ciliary muscle was measured at the nasal, temporal, superior, and inferior sectors for 0, -1, -2, and -3 D of vergence. A linear model was used to assess the correlation of each eye parameter with the accommodative demand. Results: The anterior ciliary muscle area significantly increased with accommodation for each sector, with a maximum increase of about 30% for the nasal-temporal sectors and about 25% for the inferior-temporal sectors. The linear model showed a tendency toward a positive relationship between change in the ciliary muscle area of each sector and vergence. Conclusion: The anterior ciliary muscle area tends to increase with accommodation, although the increase has been shown to be symmetric between the pair sectors superior-nasal and inferior-temporal. These results may help to increase understanding of accommodation biometry and biomechanics.
DOI: 10.6084/m9.figshare.7773431.v1
title: Optical biometry-based axial length alterations after intravitreal dexamethasone implant

description: ABSTRACT Purpose: To investigate changes in axial length after intravitreal dexamethasone implantation in patients with macular edema. Methods: We performed a prospective comparative study of 46 patients with unilateral macular edema, due to diabetic retinopathy, retinal vein occlusion, and non-infectious uveitis, who underwent dexamethasone implantation. The fellow eyes of the patients were considered the control group. The central macular thickness was measured by spectral-domain optical coherence tomography, and axial length was measured by IOLMaster 700 optical coherence biometry. We compared axial length and central macular thickness values within the groups. Results: In the study group, the baseline central macular thickness was 460.19 ± 128.64 mm, significantly decreasing to 324.00 ± 79.84 mm after dexamethasone implantation (p=0.000). No significant change in central macular thickness measurements was seen in the control group (p=0.244). In the study group, the baseline axial length was 23.16 ± 0.68 mm, significantly increasing to 23.22 ± 0.65 mm after dexamethasone implantation (p=0.039). However, the control group exhibited no significant change in axial length (p=0.123). Conclusions: In addition to significantly reducing central macular thickness measurements, intravitreal dexamethasone implantation also significantly changes optical biometry-based axial length measurements.
DOI: 10.34740/kaggle/dsv/7030341
title: Trending Youtube Video Statistics (113 Countries)
DOI: 10.5281/zenodo.10198952
title: GPTCloneBench: A comprehensive benchmark of semantic clones and cross-language clones using GPT-3 model and SemanticCloneBench

description: This is the full dataset of GPTCloneBench (version 2)
DOI: 10.5281/zenodo.8259987
title: GPTCloneBench: A comprehensive benchmark of semantic clones and cross-language clones using GPT-3 model and SemanticCloneBench

description: This is the full dataset of GPTCloneBench (version 2)
DOI: 10.5281/zenodo.8259988
title: GPTCloneBench: A comprehensive benchmark of semantic clones and cross-language clones using GPT-3 model and SemanticCloneBench

description: This is the dataset of GPTCloneBench
DOI: 10.5281/zenodo.10120360
title: Phospho-seq: Integrated, multi-modal profiling of intracellular protein dynamics in single cells

description:  
Datasets to go along with the publication listed:
full_object.rds: Brain Organoid Phospho-Seq dataset with ATAC, Protein and imputed RNA data
rna_object.rds: Reference whole cell scRNA-Seq object on Brain organoids
multiome_object.rds: Bridge dataset containing RNA and ATAC modalities for Brain organoids
metacell_allnorm.rds: Metacell object for finding gene-peak-protein linkages in Brain organoid dataset
fullobject_fragments.tsv.gz: fragment file to go with the full object
fullobject_fragments.tsv.gz.tbi:index file for the full object fragment file
multiome_fragments.tsv.gz: fragment file to go with the multiome object
multiome_fragments.tsv.gz.tbi:index file for the multiome object fragment file
K562_Stem.rds : object corresponding to the pilot experiment including K562 cells and iPS cells
K562_stem_fragments.tsv.gz:  fragment file to go with the K562_stem object
K562_stem_fragments.tsv.gz.tbi: index file for the K562_stem object fragment file
retina.rds : object corresponding to the retinal organoid phospho-seq experiment
retina_fragments.tsv.gz:  fragment file to go with the retina object
retina_fragments.tsv.gz.tbi: index file for the retina object fragment file
retina_multi.rds : object corresponding to the retinal organoid phospho-seq-multiome experiment
retina_multi_fragments.tsv.gz:  fragment file to go with the retina_multi object
retina_multi_fragments.tsv.gz.tbi: index file for the retina_multi object fragment file
To use the K562, multiome, retina and retina_multiome datasets provided, please use these lines of code to import the object into Signac/Seurat and change the fragment file path to the corresponding downloaded fragment file:
obj <- readRDS("obj.rds")
# remove fragment file information
Fragments(obj) <- NULL
# Update the path of the fragment file 
Fragments(obj) <- CreateFragmentObject(path = "download/obj_fragments.tsv.gz", cells = Cells(obj))
To use the K562 and multiome datasets provided, please use these lines of code to import the object into Signac/Seurat and change the fragment file path to the corresponding downloaded fragment file:
obj <- readRDS("obj.rds") # remove fragment file information Fragments(obj) <- NULL # Update the path of the fragment file Fragments(obj) <- CreateFragmentObject(path = "download/obj_fragments.tsv.gz", cells = Cells(obj))
To use the "fullobject" dataset provided, please use these lines of code to import the object into Signac/Seurat and change the fragment file path to the corresponding downloaded fragment file: 
#load the stringr package
library(stringr)
#load the object
obj <- readRDS("obj.rds")
# remove fragment file information
Fragments(obj) <- NULL
#Remove unwanted residual information and rename cells
obj@reductions$norm.adt.pca <- NULL
obj@reductions$norm.pca <- NULL
obj <- RenameCells(obj, new.names = str_remove(Cells(obj), "atac_"))
# Update the path of the fragment file 
Fragments(obj) <- CreateFragmentObject(path = "download/obj_fragments.tsv.gz", cells = Cells(obj))
DOI: 10.5281/zenodo.7754314
title: Phospho-seq: Integrated, multi-modal profiling of intracellular protein dynamics in single cells

description:  
Datasets to go along with the publication listed:
full_object.rds: Brain Organoid Phospho-Seq dataset with ATAC, Protein and imputed RNA data
rna_object.rds: Reference whole cell scRNA-Seq object on Brain organoids
multiome_object.rds: Bridge dataset containing RNA and ATAC modalities for Brain organoids
metacell_allnorm.rds: Metacell object for finding gene-peak-protein linkages in Brain organoid dataset
fullobject_fragments.tsv.gz: fragment file to go with the full object
fullobject_fragments.tsv.gz.tbi:index file for the full object fragment file
multiome_fragments.tsv.gz: fragment file to go with the multiome object
multiome_fragments.tsv.gz.tbi:index file for the multiome object fragment file
K562_Stem.rds : object corresponding to the pilot experiment including K562 cells and iPS cells
K562_stem_fragments.tsv.gz:  fragment file to go with the K562_stem object
K562_stem_fragments.tsv.gz.tbi: index file for the K562_stem object fragment file
retina.rds : object corresponding to the retinal organoid phospho-seq experiment
retina_fragments.tsv.gz:  fragment file to go with the retina object
retina_fragments.tsv.gz.tbi: index file for the retina object fragment file
retina_multi.rds : object corresponding to the retinal organoid phospho-seq-multiome experiment
retina_multi_fragments.tsv.gz:  fragment file to go with the retina_multi object
retina_multi_fragments.tsv.gz.tbi: index file for the retina_multi object fragment file
To use the K562, multiome, retina and retina_multiome datasets provided, please use these lines of code to import the object into Signac/Seurat and change the fragment file path to the corresponding downloaded fragment file:
obj <- readRDS("obj.rds")
# remove fragment file information
Fragments(obj) <- NULL
# Update the path of the fragment file 
Fragments(obj) <- CreateFragmentObject(path = "download/obj_fragments.tsv.gz", cells = Cells(obj))
To use the K562 and multiome datasets provided, please use these lines of code to import the object into Signac/Seurat and change the fragment file path to the corresponding downloaded fragment file:
obj <- readRDS("obj.rds") # remove fragment file information Fragments(obj) <- NULL # Update the path of the fragment file Fragments(obj) <- CreateFragmentObject(path = "download/obj_fragments.tsv.gz", cells = Cells(obj))
To use the "fullobject" dataset provided, please use these lines of code to import the object into Signac/Seurat and change the fragment file path to the corresponding downloaded fragment file: 
#load the stringr package
library(stringr)
#load the object
obj <- readRDS("obj.rds")
# remove fragment file information
Fragments(obj) <- NULL
#Remove unwanted residual information and rename cells
obj@reductions$norm.adt.pca <- NULL
obj@reductions$norm.pca <- NULL
obj <- RenameCells(obj, new.names = str_remove(Cells(obj), "atac_"))
# Update the path of the fragment file 
Fragments(obj) <- CreateFragmentObject(path = "download/obj_fragments.tsv.gz", cells = Cells(obj))