cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.22721890.v1
title: Comparison of bacterial profile of gallbladder with gallstones from patients undergoing cholecystectomy due to complicated and uncomplicated cholelithiasis: changes in the epidemiological scenario

description: ABSTRACT Introduction: cholelithiasis is a highly prevalent disease of the digestive system in the world. In Brazil, it is a routine condition, whose studies suggest a prevalence of around 10% of adults. Colonization of bile and gallstone pathogens can occur when there is bacterial stasis and proliferation. This proliferation is facilitated by the adhesion and biofilm formation capacity of some bacteria. There are also lithogenic processes that involve bacterial participation. Studies have shown changes in the microbiota of the gallbladder of patients undergoing cholecystectomy, which may impact empirical treatment with antibiotics. Methodology: microbiological analyzes of the sonication fluid of the gallstones and of two samples with bile were performed. Identification and antimicrobial susceptibility testing were performed according to a standard routine. Results: of the 34 patients, 76.4% were female. The age group was 48 years +/- 16.61. Acute cholecystitis occurred in 50% of cases. Bactobilia was evidenced in 32.1% of the cases. Klebisiella pneumoniae was noted as the most prevalent pathogen in acute cholecystitis; and Enterobacter sp, in cases of uncomplicated cholelithiasis. Greater sensitivity was obtained in the search for microorganisms in the sonication fluid samples of the stones in relation to the bile samples (p=0.0058). Conclusion: there was a higher prevalence of bactobilia in patients with acute cholecystitis compared to those with uncomplicated cholelithiasis. The use of sonication in bacterial investigation proved to be superior to the conventional method and can be considered.
DOI: 10.6084/m9.figshare.22774592
title: Development of an intervertebral disc prosthesis prototype for the canine cervical spine

description: ABSTRACT: Cervical arthroplasty with disc prosthesis has been proposed as a treatment option for dogs with Cervical Spondylomyelopathy. The present study developed a novel vertebral disc prosthesis for dogs. Sixteen Functional Spinal Units (C5-C6) were collected from dog cadavers with body weights ranging between 25 and 35 kg, and their vertebral measurements were used to design a prosthetic disc. The sizing of the prosthesis was performed based on the averages of the measurements of width, height, and length of the vertebral bodies from C5-C6 of all specimens. The prosthesis was developed using the Rhinoceros 3D® and SolidWorks® programs, and 3D prototyping was carried out to define the best design. The developed prosthesis consisted of two independent parts that are fixed to the cranial and caudal vertebral bodies, in the intervertebral space, and fitted together by metal-to-metal surfaces capable of moving in the lateral, ventral, and dorsal directions. Each part of the prosthesis is angled in two portions: vertically, in the intervertebral space, and horizontally, in contact with the ventral surface of the vertebral bodies, both of which are fixed by means of monocortical locking screws. The design of the developed prototype allowed a good fit in the intervertebral space between C4-C5, C5-C6, and C6-C7.
DOI: 10.6084/m9.figshare.22774592.v1
title: Development of an intervertebral disc prosthesis prototype for the canine cervical spine

description: ABSTRACT: Cervical arthroplasty with disc prosthesis has been proposed as a treatment option for dogs with Cervical Spondylomyelopathy. The present study developed a novel vertebral disc prosthesis for dogs. Sixteen Functional Spinal Units (C5-C6) were collected from dog cadavers with body weights ranging between 25 and 35 kg, and their vertebral measurements were used to design a prosthetic disc. The sizing of the prosthesis was performed based on the averages of the measurements of width, height, and length of the vertebral bodies from C5-C6 of all specimens. The prosthesis was developed using the Rhinoceros 3D® and SolidWorks® programs, and 3D prototyping was carried out to define the best design. The developed prosthesis consisted of two independent parts that are fixed to the cranial and caudal vertebral bodies, in the intervertebral space, and fitted together by metal-to-metal surfaces capable of moving in the lateral, ventral, and dorsal directions. Each part of the prosthesis is angled in two portions: vertically, in the intervertebral space, and horizontally, in contact with the ventral surface of the vertebral bodies, both of which are fixed by means of monocortical locking screws. The design of the developed prototype allowed a good fit in the intervertebral space between C4-C5, C5-C6, and C6-C7.
DOI: 10.6084/m9.figshare.22721944
title: Long-term evaluation of patients with BMI = 50kg/m2 who underwent Bariatric Surgery

description: ABSTRACT Purpose: to determine the risks and benefits of bariatric surgery in patients with super obesity (SO) in comparison with obesity grades II and III. Methods: retrospective cohort that included a study group of 178 patients with SO and a control group of 181 patients with BMI 35-49.9Kg/m2. The groups were formed in a 1:1 nearest neighbor matching. The main variables were pre- and postoperative BMI and comorbidities, occurrence of severe postoperative complications, bowel obstruction, marginal ulcer, fistulae and 30-day death, besides the necessity of emergency room (ER) admission and abdominal computed tomography (CT) scans in the postoperative period due to acute abdomen. Results: the study group comprised 74.0% of women while the control group had 56.7%. The mean follow-up time was similar between both groups (5.48 x 6.09 years, p=0.216). There was no statistically significant difference on the prevalence of hypertension and T2D between the groups according to the surgical technique. All deaths occurred in the Study group (BMI = 50kg/m2) who underwent RYGB. There was no difference between the groups regarding the occurrence of severe complications. Data on ER admissions and the need for abdominal CT to investigate postoperative abdominal pain did not show statistically significant difference between the groups. Conclusion: despite the high risk related to bariatric surgery in patients with SO, the benefits related to the remission of comorbidities are significant; although being lower than those found in patients with milder grades of obesity.
DOI: 10.6084/m9.figshare.22721944.v1
title: Long-term evaluation of patients with BMI = 50kg/m2 who underwent Bariatric Surgery

description: ABSTRACT Purpose: to determine the risks and benefits of bariatric surgery in patients with super obesity (SO) in comparison with obesity grades II and III. Methods: retrospective cohort that included a study group of 178 patients with SO and a control group of 181 patients with BMI 35-49.9Kg/m2. The groups were formed in a 1:1 nearest neighbor matching. The main variables were pre- and postoperative BMI and comorbidities, occurrence of severe postoperative complications, bowel obstruction, marginal ulcer, fistulae and 30-day death, besides the necessity of emergency room (ER) admission and abdominal computed tomography (CT) scans in the postoperative period due to acute abdomen. Results: the study group comprised 74.0% of women while the control group had 56.7%. The mean follow-up time was similar between both groups (5.48 x 6.09 years, p=0.216). There was no statistically significant difference on the prevalence of hypertension and T2D between the groups according to the surgical technique. All deaths occurred in the Study group (BMI = 50kg/m2) who underwent RYGB. There was no difference between the groups regarding the occurrence of severe complications. Data on ER admissions and the need for abdominal CT to investigate postoperative abdominal pain did not show statistically significant difference between the groups. Conclusion: despite the high risk related to bariatric surgery in patients with SO, the benefits related to the remission of comorbidities are significant; although being lower than those found in patients with milder grades of obesity.
DOI: 10.6084/m9.figshare.22774594
title: Enhanced expression of OsNAC5 leads to up-regulation of OsNAC6 and changes rice (Oryza sativa L.) ionome

description: Abstract NAC transcription factors are plant-specific proteins involved in many processes during the plant life cycle and responses to biotic and abiotic stresses. Previous studies have shown that stress-induced OsNAC5 from rice (Oryza sativa L.) is up-regulated by senescence and might be involved in control of iron (Fe) and zinc (Zn) concentrations in rice seeds. Aiming a better understanding of the role of OsNAC5 in rice plants, we investigated a mutant line carrying a T-DNA insertion in the promoter of OsNAC5, which resulted in enhanced expression of the transcription factor. Plants with OsNAC5 enhanced expression were shorter at the seedling stage and had reduced yield at maturity. In addition, we evaluated the expression level of OsNAC6, which is co-expressed with OsNAC5, and found that enhanced expression of OsNAC5 leads to increased expression of OsNAC6, suggesting that OsNAC5 might regulate OsNAC6 expression. Ionomic analysis of leaves and seeds from the OsNAC5 enhanced expression line revealed lower Fe and Zn concentrations in leaves and higher Fe concentrations in seeds than in WT plants, further suggesting that OsNAC5 may be involved in regulating the ionome in rice plants. Our work shows that fine-tuning of transcription factors is key when aiming at crop improvement.
DOI: 10.6084/m9.figshare.22774594.v1
title: Enhanced expression of OsNAC5 leads to up-regulation of OsNAC6 and changes rice (Oryza sativa L.) ionome

description: Abstract NAC transcription factors are plant-specific proteins involved in many processes during the plant life cycle and responses to biotic and abiotic stresses. Previous studies have shown that stress-induced OsNAC5 from rice (Oryza sativa L.) is up-regulated by senescence and might be involved in control of iron (Fe) and zinc (Zn) concentrations in rice seeds. Aiming a better understanding of the role of OsNAC5 in rice plants, we investigated a mutant line carrying a T-DNA insertion in the promoter of OsNAC5, which resulted in enhanced expression of the transcription factor. Plants with OsNAC5 enhanced expression were shorter at the seedling stage and had reduced yield at maturity. In addition, we evaluated the expression level of OsNAC6, which is co-expressed with OsNAC5, and found that enhanced expression of OsNAC5 leads to increased expression of OsNAC6, suggesting that OsNAC5 might regulate OsNAC6 expression. Ionomic analysis of leaves and seeds from the OsNAC5 enhanced expression line revealed lower Fe and Zn concentrations in leaves and higher Fe concentrations in seeds than in WT plants, further suggesting that OsNAC5 may be involved in regulating the ionome in rice plants. Our work shows that fine-tuning of transcription factors is key when aiming at crop improvement.
DOI: 10.6084/m9.figshare.22585228.v1
title: Coordinated regulation of the timing of the juvenile-to-adult transition by brassinosteroids and the age pathway in Arabidopsis

description: Those are figure files for our manuscript entitled "Coordinated regulation of vegetative phase change by brassinosteroids and the age pathway in Arabidopsis"
DOI: 10.6084/m9.figshare.22585228
title: Coordinated regulation of the timing of the juvenile-to-adult transition by brassinosteroids and the age pathway in Arabidopsis

description: Those are figure files for our manuscript entitled "Coordinated regulation of vegetative phase change by brassinosteroids and the age pathway in Arabidopsis"
DOI: 10.6084/m9.figshare.22774595.v1
title: For a Possible Configuration of the Professional Knowledge of the Mathematics Teacher Educator: a Comparative Analysis

description: Abstract This paper reviews and gathers some of the most relevant contributions regarding the problem raised by the conceptualization of the nature and organization of the mathematics teacher educator’s professional knowledge, a great challenge for the research community in mathematics education. Through a search in the Web of Science database and after a first selection of scientific research, we expose the theoretical foundations of three different models of MTE’s knowledge: the extended triad, the MKTT, and the model of Escudero-Ávila, Montes y Contreras (2021), to subsequently, carry out a comparative analysis. The conclusions point towards a meta-knowledge of a complex nature which allows articulating three nested levels – mathematical task, students, and teacher – as well as its specificity, with subdomains which are specific and exclusive to the MTE, although we observe a notable emphasis and interest on the mathematical content knowledge and pedagogical content knowledge.
DOI: 10.6084/m9.figshare.22774595
title: For a Possible Configuration of the Professional Knowledge of the Mathematics Teacher Educator: a Comparative Analysis

description: Abstract This paper reviews and gathers some of the most relevant contributions regarding the problem raised by the conceptualization of the nature and organization of the mathematics teacher educator’s professional knowledge, a great challenge for the research community in mathematics education. Through a search in the Web of Science database and after a first selection of scientific research, we expose the theoretical foundations of three different models of MTE’s knowledge: the extended triad, the MKTT, and the model of Escudero-Ávila, Montes y Contreras (2021), to subsequently, carry out a comparative analysis. The conclusions point towards a meta-knowledge of a complex nature which allows articulating three nested levels – mathematical task, students, and teacher – as well as its specificity, with subdomains which are specific and exclusive to the MTE, although we observe a notable emphasis and interest on the mathematical content knowledge and pedagogical content knowledge.
DOI: 10.6084/m9.figshare.22637614
title: Translational Reprogramming as a Driver of Antimony-drug Resistance in Leishmania

description: Two types of changes were examined at the translatome level in Leishmania: changes at the translational level in drug-resistant strain occurring in the absence of the drug (general basal changes), and those only detectable when the resistant parasites are growing under SbIII exposure (changes to combat the drug). Supplementary files description: File name: Supplementary Data 1 Description: Raw data of automatic polysome fractionation per experimental condition. File name: Supplementary Data 2: Description: Differentially expressed genes detected in antimony-resistant parasites at the basal level (no drug challenge). File name: Supplementary Data 3: Description: Raw data from Venn diagram summarizing the differentially expressed genes detected at the basal level (no drug challenge) per polysome fraction. File name: Supplementary Data 4: Description: Comparison of the translatome Vs. transcriptome (basal level). File name: Supplementary Data 5: Description: Dataset of differentially expressed genes detected in antimony resistant parasites growing under drug challenge. File name: Supplementary Data 6: Description: Raw data from Venn diagram summarizing the differentially expressed genes detected in antimony resistant parasites growing under drug challenge per polysome fraction. File name: Supplementary Data 7: Description: Comparison of the translatome Vs. transcriptome (drug challenge). File name: Supplementary Data 8: Description: Dataset summarizing the normalized read counts by DESeq2’s median of ratios. File name: Supplementary Data 9: Description: List of primers used for the validation of translatome analysis by RT-qPCR. File name: Supplementary Data 10: Description: Comparison between translatomic and proteomic analyses for resistant parasites growing under drug challenge. File name: Supplementary Data 11: Description: Dataset summarizing known and potentially new antimony modulators File name: SupplementaryData 12: Description: Raw data of gene ontology enrichment analysis. File name: Supplementary Data 13: Description: Clustering analysis based on protein homology summarizing changes at the basal level (no drug challenge). File name: Supplementary Data 14: Description: Clustering analysis based on protein co-expression summarizing changes at the basal level (no drug challenge). File name: Supplementary Data 15: Description: Raw data for the glutathione metabolism STRING network dataset summarizing changes under drug challenge. File name: Supplementary Data 16: Description: Manually grouped differentially translated transcripts detected in antimony resistant parasites growing under drug challenge. Supplementary Data 17: Description: Gene variants detected in antimony resistant parasites by using the FreeBayes algorithm. Supplementary Data 18: Description: Comparison between translatomic and variant calling analyses.
DOI: 10.6084/m9.figshare.22637614.v1
title: Translational Reprogramming as a Driver of Antimony-drug Resistance in Leishmania

description: Two types of changes were examined at the translatome level in Leishmania: changes at the translational level in drug-resistant strain occurring in the absence of the drug (general basal changes), and those only detectable when the resistant parasites are growing under SbIII exposure (changes to combat the drug). Supplementary files description: File name: Supplementary Data 1 Description: Raw data of automatic polysome fractionation per experimental condition. File name: Supplementary Data 2: Description: Differentially expressed genes detected in antimony-resistant parasites at the basal level (no drug challenge). File name: Supplementary Data 3: Description: Raw data from Venn diagram summarizing the differentially expressed genes detected at the basal level (no drug challenge) per polysome fraction. File name: Supplementary Data 4: Description: Comparison of the translatome Vs. transcriptome (basal level). File name: Supplementary Data 5: Description: Dataset of differentially expressed genes detected in antimony resistant parasites growing under drug challenge. File name: Supplementary Data 6: Description: Raw data from Venn diagram summarizing the differentially expressed genes detected in antimony resistant parasites growing under drug challenge per polysome fraction. File name: Supplementary Data 7: Description: Comparison of the translatome Vs. transcriptome (drug challenge). File name: Supplementary Data 8: Description: Dataset summarizing the normalized read counts by DESeq2’s median of ratios. File name: Supplementary Data 9: Description: List of primers used for the validation of translatome analysis by RT-qPCR. File name: Supplementary Data 10: Description: Comparison between translatomic and proteomic analyses for resistant parasites growing under drug challenge. File name: Supplementary Data 11: Description: Dataset summarizing known and potentially new antimony modulators File name: SupplementaryData 12: Description: Raw data of gene ontology enrichment analysis. File name: Supplementary Data 13: Description: Clustering analysis based on protein homology summarizing changes at the basal level (no drug challenge). File name: Supplementary Data 14: Description: Clustering analysis based on protein co-expression summarizing changes at the basal level (no drug challenge). File name: Supplementary Data 15: Description: Raw data for the glutathione metabolism STRING network dataset summarizing changes under drug challenge. File name: Supplementary Data 16: Description: Manually grouped differentially translated transcripts detected in antimony resistant parasites growing under drug challenge. Supplementary Data 17: Description: Gene variants detected in antimony resistant parasites by using the FreeBayes algorithm. Supplementary Data 18: Description: Comparison between translatomic and variant calling analyses.
DOI: 10.6084/m9.figshare.22677463.v1
title: Improving de novo Protein Binder Design with Deep Learning

description: This is the data showing that AF2 is an effective metric with which to filter computational protein binder designs.
DOI: 10.6084/m9.figshare.22774597
title: Monad Narratives about Mathematics from Students/Teachers in a Parfor Pedagogy course in the Amazon Region

description: Abstract The article discusses written narratives produced in a Parfor Pedagogy course, in the Amazon region, by a group of students/teachers who described their view of Mathematics during an activity. The theoretical framework discusses the teacher education field in a characterization of this program and also explores the attitudes towards Mathematics evidenced by the literature on the subject, based on constructs of the Psychology of Mathematics Education. The methodology, of a qualitative approach, was based on a Conversation Round about Mathematics, its teaching and learning evaluation processes. Knowing the forms of mathematical representation was an important way to understand how teachers in training conceive this area of knowledge and what attitudes they declare to have when the subject is mathematics, its contents, and teaching. As a result, we present indicators for working with teacher training in the context of Parfor, especially in the Amazon region, a mong which the valorization of the local mathematical knowledge production may be the way to problematize mathematics and to perceive the reading of the world through the lens of the one who teaches Mathematics in the initial years of Basic Education: the pedagogue.
DOI: 10.6084/m9.figshare.22774597.v1
title: Monad Narratives about Mathematics from Students/Teachers in a Parfor Pedagogy course in the Amazon Region

description: Abstract The article discusses written narratives produced in a Parfor Pedagogy course, in the Amazon region, by a group of students/teachers who described their view of Mathematics during an activity. The theoretical framework discusses the teacher education field in a characterization of this program and also explores the attitudes towards Mathematics evidenced by the literature on the subject, based on constructs of the Psychology of Mathematics Education. The methodology, of a qualitative approach, was based on a Conversation Round about Mathematics, its teaching and learning evaluation processes. Knowing the forms of mathematical representation was an important way to understand how teachers in training conceive this area of knowledge and what attitudes they declare to have when the subject is mathematics, its contents, and teaching. As a result, we present indicators for working with teacher training in the context of Parfor, especially in the Amazon region, a mong which the valorization of the local mathematical knowledge production may be the way to problematize mathematics and to perceive the reading of the world through the lens of the one who teaches Mathematics in the initial years of Basic Education: the pedagogue.
DOI: 10.6084/m9.figshare.22575004.v1
title: Single-pulse terahertz spectroscopy monitoring sub-millisecond time dynamics at a rate of 50 kHz

description: The data contained in the folder support the findings in the manuscript entitled "Single-pulse terahertz spectroscopy monitoring sub-millisecond time dynamics at a rate of 50 kHz" by Couture et al. published in Nature Communications (2023). This data corresponds to the results shown in Fig. 3c-e.
DOI: 10.6084/m9.figshare.22677463
title: Improving de novo Protein Binder Design with Deep Learning

description: This is the data showing that AF2 is an effective metric with which to filter computational protein binder designs.
DOI: 10.6084/m9.figshare.22575004
title: Single-pulse terahertz spectroscopy monitoring sub-millisecond time dynamics at a rate of 50 kHz

description: The data contained in the folder support the findings in the manuscript entitled "Single-pulse terahertz spectroscopy monitoring sub-millisecond time dynamics at a rate of 50 kHz" by Couture et al. published in Nature Communications (2023). This data corresponds to the results shown in Fig. 3c-e.