cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5286/isis.e.rb2210172
title: The Interplay of apoptosis regulating Bcl-2 proteins at mitochondrial membranes

description: The powerhouse of our cells are mitochondria who are also crucially involved in programmed cell death (apoptosis). The main regulator is the Bcl-2 protein family who controls the permeability of the mitochondrias' outer membranes. While apoptotic (killing) Bax perforates those membranes and killing cells, the anti-apoptotic (protecting) Bcl-2 membrane protein inhibits Bax activity. Many treatment-resistant tumours are enriched in this protecting Bcl-2 protein. However, the molecular basis of apoptotic regulation by those opposing Bcl-2 members remains elusive due to the lack of detailed molecular insight. Here, we will use NR on realistic membrane systems to elucidate membrane perforation activiy of Bax, followed by NR studies to unravel the molecular principles how Bcl-2 and Bax proteins recognize and neutralize each other at the membrane level; a situation found in healthy cells.
DOI: 10.5286/isis.e.rb2210172-1
title: The Interplay of apoptosis regulating Bcl-2 proteins at mitochondrial membranes

description: The powerhouse of our cells are mitochondria who are also crucially involved in programmed cell death (apoptosis). The main regulator is the Bcl-2 protein family who controls the permeability of the mitochondrias' outer membranes. While apoptotic (killing) Bax perforates those membranes and killing cells, the anti-apoptotic (protecting) Bcl-2 membrane protein inhibits Bax activity. Many treatment-resistant tumours are enriched in this protecting Bcl-2 protein. However, the molecular basis of apoptotic regulation by those opposing Bcl-2 members remains elusive due to the lack of detailed molecular insight. Here, we will use NR on realistic membrane systems to elucidate membrane perforation activiy of Bax, followed by NR studies to unravel the molecular principles how Bcl-2 and Bax proteins recognize and neutralize each other at the membrane level; a situation found in healthy cells.
DOI: 10.48370/ofd/otswah
title: Byssomerulius corium (Pers.) Parmasto, 347

description: Fungarium Macromycetes
DOI: 10.5281/zenodo.5963855
title: Neurodevelopmental outcome of preterm very low birth weight infants admitted to an Italian tertiary center over an 11-year period

description: <strong>This database includes</strong> the raw data linked with the paper “<em>Neurodevelopmental outcome of preterm very low birth weight infants admitted to an Italian tertiary center over an 11-year period</em>”. <strong>In this paper, we reported</strong> the data of perinatal history and neurodevelopmental outcome of a single center cohort of Italian preterm VLBWi born between 2005 and 2015. T<strong>he aim of the study </strong>is to describe neurodevelopmental outcome at 24 months of corrected age and to identify associations between perinatal risk factors and neurodevelopmental outcome. <strong>502 VLBWi completed the follow up</strong>. 75.3% showed a normal outcome, 13.9% minor sequelae and 10.8% major sequelae (3.8% cerebral palsy). Male gender (OR 1.59 CI 95% 1.0-2.5 p value 0.043), bronchopulmonary dysplasia (OR 1.7 CI 95% 1.1-2.9 p value 0.026), abnormal neonatal neurological assessment (OR 2.1 CI 95% 1.3-3.4 p value 0.002) and severe brain ultrasound abnormalities (OR 6.1 IC 95% 2.4-15.1 p value &lt;0.001) were independently associated with poor outcome on multivariate ordered logistic regression.
description: Funding: Ricerca Corrente 2012–2018, Ministry of Health (Italy)
DOI: 10.5281/zenodo.5963854
title: Neurodevelopmental outcome of preterm very low birth weight infants admitted to an Italian tertiary center over an 11-year period

description: <strong>This database includes</strong> the raw data linked with the paper “<em>Neurodevelopmental outcome of preterm very low birth weight infants admitted to an Italian tertiary center over an 11-year period</em>”. <strong>In this paper, we reported</strong> the data of perinatal history and neurodevelopmental outcome of a single center cohort of Italian preterm VLBWi born between 2005 and 2015. T<strong>he aim of the study </strong>is to describe neurodevelopmental outcome at 24 months of corrected age and to identify associations between perinatal risk factors and neurodevelopmental outcome. <strong>502 VLBWi completed the follow up</strong>. 75.3% showed a normal outcome, 13.9% minor sequelae and 10.8% major sequelae (3.8% cerebral palsy). Male gender (OR 1.59 CI 95% 1.0-2.5 p value 0.043), bronchopulmonary dysplasia (OR 1.7 CI 95% 1.1-2.9 p value 0.026), abnormal neonatal neurological assessment (OR 2.1 CI 95% 1.3-3.4 p value 0.002) and severe brain ultrasound abnormalities (OR 6.1 IC 95% 2.4-15.1 p value &lt;0.001) were independently associated with poor outcome on multivariate ordered logistic regression.
description: Funding: Ricerca Corrente 2012–2018, Ministry of Health (Italy)
DOI: 10.6084/m9.figshare.18095969
title: Supplementary Material for: Weight Change Alters the Small RNA Profile of Urinary Extracellular Vesicles in Obesity

description: Introduction: Various kidney diseases reportedly show different urinary extracellular vesicles (EVs) RNA profiles. Although obesity is one of the main causes of chronic kidney disease, the expression pattern of urinary EVs RNA in obesity is uncertain. Our aim was to sequence the small RNA profiles of urinary EVs in obese patients before and after weight reduction and compared them to those of healthy volunteers (HVs). Methods: We recruited age-sex matched obese patients and HVs. The small RNA profiles of urinary EVs were analyzed using RNA sequencing. To evaluate the effect of weight reduction, small RNA profiles of urinary EVs 6 months after bariatric surgery were also analyzed. Results: The proportion of urinary EVs transfer RNA and microRNA of obese patients differed from that of HVs. Obese patients showed differential expression of 1343 small RNAs in urinary EVs compared to HVs (|fold change| ≥ 2 and p value &lt; 0.05). Among those, 61 small RNAs were upregulated in obese patients and downregulated after weight reduction, whereas 167 small RNAs were downregulated in obese patients and upregulated after weight reduction. RNA sequencing revealed the correlation between the specific urinary EVs small RNAs and clinical parameters including body weight, low-density lipoprotein cholesterol, triglyceride, high-density lipoprotein cholesterol, serum glucose, estimated glomerular filtration rate, and albuminuria. Conclusion: Obese patients showed distinct urinary EVs small RNA profiles compared to HVs. Weight reduction altered urinary EVs small RNA profiles in obese patients.
DOI: 10.6084/m9.figshare.19137335.v1
title: alignment_human_c_elegans.docx

description: Alignment of the human and C<i>.elegans</i> GCP2 protein sequences.
DOI: 10.6084/m9.figshare.19137335
title: alignment_human_c_elegans.docx

description: Alignment of the human and C<i>.elegans</i> GCP2 protein sequences.
DOI: 10.5281/zenodo.5121272
title: Mouse thorax segmentation dataset

description: This repository contains reference segmentations of the heart, spinal cord, right lung and left lung for native and contrast-enhanced mouse CT images. The CTs were drawn from a publicly available preclinical micro-CT database<sup>1</sup>. Annotations are provided for the entire native CT dataset (140 images) and for a subset (35 images) of the contrast-enhanced CT dataset. Annotations by a second observer are also available for 35 native CTs and contrast-enhanced CTs. This dataset was used to train a nnU-Net 3d_fullres model for automated mouse thorax segmentation. The pre-trained model can be downloaded from https://doi.org/10.5281/zenodo.5786839 and more details about the dataset and training can be found in the publication. In case you find these annotations useful for your research, please cite the original work: Malimban, J., Lathouwers, D., Qian, H. <em>et al.</em> Deep learning-based segmentation of the thorax in mouse micro-CT scans. <em>Sci Rep</em> 12, 1822 (2022). https://doi.org/10.1038/s41598-022-05868-7 <sup>1</sup>Rosenhain S, Magnuska Z A, Yamoah G G, Rawashdeh W A, Kiessling F and Gremse F 2018 A preclinical micro-computed tomography database including 3D whole body organ segmentations Online: https://springernature.figshare.com/collections/A_preclinical_micro-computed_tomography_database_including_3D_whole_body_organ_segmentations/4224377/1
DOI: 10.5281/zenodo.5121271
title: Mouse thorax segmentation dataset

description: This repository contains reference segmentations of the heart, spinal cord, right lung and left lung for native and contrast-enhanced mouse CT images. The CTs were drawn from a publicly available preclinical micro-CT database<sup>1</sup>. Annotations are provided for the entire native CT dataset (140 images) and for a subset (35 images) of the contrast-enhanced CT dataset. Annotations by a second observer are also available for 35 native CTs and contrast-enhanced CTs. This dataset was used to train a nnU-Net 3d_fullres model for automated mouse thorax segmentation. The pre-trained model can be downloaded from https://doi.org/10.5281/zenodo.5786839 and more details about the dataset and training can be found in the publication. In case you find these annotations useful for your research, please cite the original work: Malimban, J., Lathouwers, D., Qian, H. <em>et al.</em> Deep learning-based segmentation of the thorax in mouse micro-CT scans. <em>Sci Rep</em> 12, 1822 (2022). https://doi.org/10.1038/s41598-022-05868-7 <sup>1</sup>Rosenhain S, Magnuska Z A, Yamoah G G, Rawashdeh W A, Kiessling F and Gremse F 2018 A preclinical micro-computed tomography database including 3D whole body organ segmentations Online: https://springernature.figshare.com/collections/A_preclinical_micro-computed_tomography_database_including_3D_whole_body_organ_segmentations/4224377/1
DOI: 10.17632/v3ffvc84s4.1
title: Mendeley supplemental figure 1 and 2

description: Figure 1. MRI brain without contrast, axial view demonstrating a 6.7 X 4.5 X 4.5 cm hypervascular extra-axial mass in the left front region crossing over the falx and causing left midline shift. 

Figure 2. MRI brain with and without contrast, sagittal view demonstrating a large hypervascular mass in the frontal lobe.
DOI: 10.17632/rfxtdz5pr2.2
title: Application for ANN Data Analysis

description: In this study, a new generalized regression neural network model for predicting the curing characteristics of rubber blends with different contents of carbon black filler cured at various temperatures has been proposed. The carbon black contents in the rubber blend and cure temperature have been used as input parameters, while the minimum and maximum elastic torque, scorch time, and optimal cure time, obtained from the analysis of 11 rheological cure curves registered at 10 various temperatures, have been considered as output parameters of the model. A special pre-processing procedure of the experimental input and target data, as well as the training algorithm has been described. Only a small part of the experimental data has been used in order to significantly reduce the total number of input and target data points needed for training the model. A satisfactory agreement between the predicted and experimental data, with a maximum error in the prediction not exceeding 5%, has been found. It has been concluded that the generalized regression neural network is a very powerful tool for intelligent modelling the curing process of rubber blends even in the case of small dataset, and it can find a wide practical application in the rubber industry.
DOI: 10.17632/6hzhrz2cgx.1
title: Mendeley supplemental figure 1 and 2

description: Figure 1. MRI brain without contrast, axial view demonstrating a 6.7 X 4.5 X 4.5 cm hypervascular extra-axial mass in the left front region crossing over the falx and causing left midline shift. 

Figure 2. MRI brain without contrast, sagittal view demonstrating a large hypervascular mass in the frontal lobe.
DOI: 10.5281/zenodo.6007759
title: Data set from Current status of MSK radiology training: an international survey by the European Society of Musculoskeletal Radiology (ESSR) Young Club

description: Data set from Current status of MSK radiology training: an international survey by the European Society of Musculoskeletal Radiology (ESSR) Young Club
DOI: 10.5281/zenodo.6007758
title: Data set from Current status of MSK radiology training: an international survey by the European Society of Musculoskeletal Radiology (ESSR) Young Club

description: Data set from Current status of MSK radiology training: an international survey by the European Society of Musculoskeletal Radiology (ESSR) Young Club
DOI: 10.17632/wbyxc9jk2w.1
title: Influencing parameters in the electrochemical anodization of TiO2 nanotubes: systematic review and meta-analysis

description: Supporting information for the manuscript Influencing parameters in the electrochemical anodization of TiO2 nanotubes: systematic review and meta-analysis
DOI: 10.17632/52226fz784.1
title: Image dataset of benthic foraminifera taxa from Denmark Strait sediments on the northwestern Iceland slope (North Atlantic Ocean)

description: Image dataset of benthic foraminifera taxa from Denmark Strait sediments on the northwestern Iceland slope (North Atlantic Ocean)
DOI: 10.48370/ofd/utpnnb
title: Byssomerulius corium (Pers.) Parmasto, 392

description: Fungarium Macromycetes
DOI: 10.4119/unibi/2956821
title: Data and code from: Olfactory camouflage and communication in birds

description: ### Olfactory camouflage and communication in birds ##### Leanne A. Grieves, Marc Gilles, Innes C. Cuthill, Tamás Székely, Elizabeth A. MacDougall-Shackleton, Barbara A. Caspers *** ### Overview of the repository content ##### **Supplementary tables** * **`TableS1_InclusionStudiesReview.xlsx`** *Table S1.* Studies included in the literature review of seasonal and sex differences in preen oil chemical composition. * **`TableS2_InclusionSpeciesAnalysis.xslx`** *Table S2.* Occurrences (i.e., sex in each species or season in each species) included in the analyses of seasonal and sex differences in preen oil chemical composition. ##### **Data and code for comparative analyses on seasonal and sex differences in preen oil composition** * **`data_season.csv`** and **`data_sex.csv`** contain the raw data needed to re-run analyses. * **`data_phylo.nex`** contains the raw phylogenetic data obtained from birdtree.org. * **`season_analysis_Rmd.pdf`** and **`season_analysis_Rmd.Rmd`** contain the R code to re-run the analysis on seasonal differences. * **`sex_analysis_Rmd.pdf`** and **`sex_analysis_Rmd.Rmd`** contains the R code to re-run the analysis on sex differences. ##### **Data and code for details on the studies and species included in the review and analyses** * **`inclusion_studies_review.csv`** contains data on the review process and the studies included in the review (i.e. Table S1). * **`inclusion_species_1row1studywithinspecies.csv`** contains data on the occurrences (i.e., sex in each species or season in each species; multiple rows per species) included in the analyses (i.e. Table S2). * **`inclusion_species_1row1species.csv`** contains data on the species (one row per species) included in the analyses. * **`review_Rscript.R`** contains the R code to get all details about the studies and species included in the review and analyses. ##### **Additional files** * All Excel files ending with **`_description.xlsx`** contain an additional sheet with a detailed description of the different variables. * **`data_evolutionstudies.xlsx`** contains the data on the evolution of the studies on preen oil composition (i.e. Figure 1). ***
DOI: 10.48370/ofd/kqj68j
title: Byssomerulius corium (Pers.) Parmasto, 682

description: Fungarium Macromycetes
DOI: 10.5281/zenodo.6007819
title: Dataset related to article "Ipsilateral Breast Cancer Recurrence: Characteristics, Treatment, and Long-Term Oncologic Results at a High-Volume Center "

description: This record contains raw data related to article “Ipsilateral Breast Cancer Recurrence: Characteristics, Treatment, and Long-Term Oncologic Results at a High-Volume Center" <strong>Introduction: </strong> Salvage mastectomy is considered the treatment of choice for ipsilateral breast cancer recurrence (IBCR), even if a second breast-conserving surgery (BCS) is feasible. The purpose of this study was to describe the characteristics of IBCR patients, to compare the 2 therapeutic options in terms of long-term outcomes, and to identify independent factors that may predict the type of treatment. <strong>Patients and methods: </strong> A total of 309 IBCR patients who underwent either repeat BCS or mastectomy were identified. All the analyzed patients with IBCR had true recurrence. <strong>Results: </strong> Repeat BCS and salvage mastectomy were performed in 143 and 166 patients, respectively. Age &lt; 65 years (59.6% vs 37.1% if age ≥ 65 years; odds ratio, 2.374; 95% confidence interval, 0.92-5.24; P = .018) and disease-free interval &lt; 24 months (15.7% vs 10.5% if disease-free interval ≥ 24 months; odds ratio, 2.705; 95% confidence interval, 1.42-5.97; P = .007) were found to significantly increase the probability of receipt of mastectomy. Disease-free survival rates at 3, 5, and 10 years were 79.2%, 68.2%, and 36.9%; and 77.2%, 65.9%, and 55.3% in patients receiving repeat BCS or mastectomy, respectively (P = .842). Overall survival rates at 3, 5, and 10 years were 95.4%, 91.4%, and 68.5%; and 87.3%, 69.3%, and 57.9%, respectively, in patients receiving repeat BCS or mastectomy (P = .018). <strong>Conclusion: </strong> Salvage mastectomy should not be considered the only treatment option for IBCR. A second BCS can still be evaluated and proposed to IBCR patients, with acceptable locoregional control and survival. The risk of poor long-term prognosis after mastectomy should be shared with the patient.
DOI: 10.5281/zenodo.6007818
title: Dataset related to article "Ipsilateral Breast Cancer Recurrence: Characteristics, Treatment, and Long-Term Oncologic Results at a High-Volume Center "

description: This record contains raw data related to article “Ipsilateral Breast Cancer Recurrence: Characteristics, Treatment, and Long-Term Oncologic Results at a High-Volume Center" <strong>Introduction: </strong> Salvage mastectomy is considered the treatment of choice for ipsilateral breast cancer recurrence (IBCR), even if a second breast-conserving surgery (BCS) is feasible. The purpose of this study was to describe the characteristics of IBCR patients, to compare the 2 therapeutic options in terms of long-term outcomes, and to identify independent factors that may predict the type of treatment. <strong>Patients and methods: </strong> A total of 309 IBCR patients who underwent either repeat BCS or mastectomy were identified. All the analyzed patients with IBCR had true recurrence. <strong>Results: </strong> Repeat BCS and salvage mastectomy were performed in 143 and 166 patients, respectively. Age &lt; 65 years (59.6% vs 37.1% if age ≥ 65 years; odds ratio, 2.374; 95% confidence interval, 0.92-5.24; P = .018) and disease-free interval &lt; 24 months (15.7% vs 10.5% if disease-free interval ≥ 24 months; odds ratio, 2.705; 95% confidence interval, 1.42-5.97; P = .007) were found to significantly increase the probability of receipt of mastectomy. Disease-free survival rates at 3, 5, and 10 years were 79.2%, 68.2%, and 36.9%; and 77.2%, 65.9%, and 55.3% in patients receiving repeat BCS or mastectomy, respectively (P = .842). Overall survival rates at 3, 5, and 10 years were 95.4%, 91.4%, and 68.5%; and 87.3%, 69.3%, and 57.9%, respectively, in patients receiving repeat BCS or mastectomy (P = .018). <strong>Conclusion: </strong> Salvage mastectomy should not be considered the only treatment option for IBCR. A second BCS can still be evaluated and proposed to IBCR patients, with acceptable locoregional control and survival. The risk of poor long-term prognosis after mastectomy should be shared with the patient.
DOI: 10.17632/9wd75c4ynx.1
title: Spn1 and its dynamic interactions with Spt6, histones and nucleosomes 

description: FRET, Fluorescence Polarization, SEC-MAL, SV-AUC and FDS-SV-AUC raw data
DOI: 10.17632/fv6y4t55m8.4
title: 2020 Artsakh War Mental Health Research Dataset

description: The data in this dataset was self-reported through an online Google Forms survey from February 3-May 31, 2021. 
For inquiries about the 2020 Artsakh War Research Dataset, please e-mail Ani Movsisyan at animov@alumni.stanford.edu or movsisyan@ucdavis.edu.
DOI: 10.17632/7h88r9byb4.1
title: Impact of range of motion on post activation performance enhancement

description: database
DOI: 10.17632/z796ykxsfv.1
title:  ASGM Health and Safety Survey  in Zimbabwe

description: Hazards, controls and health and safety threats
DOI: 10.17632/nnkk88zmn7.2
title: Striosome-Matrix and D1-D2 Transcriptomic Cell Identities in Huntington’s Striatum

description: Supplementary tables and figures
DOI: 10.17632/zwtkpdkmzv.1
title: Human Cytokine 440 array of serum of preeclampsia patients and normal controls

description: Cytokine family proteins may play an important role in the molecular mechanism of preeclampsia. In order to study the role and mechanism of cytokine family proteins in the pathogenesis of preeclampsia, we collected serum samples from four uncomplicated preeclampsia patients (Preeclampsia and No complications, PA936054, PA902074, PA932830, PA930563) and four normal controls (Normal Controls, NC919443, NC926142, NC918048, NC921466) and tested by Human Cytokine 440 array. As described in the document "GSH-CAA-440 English Protocol English operating instructions. pdf", after the serum samples were tested by multiple ELISA, the gray value of the chip was read and data analysis was performed to screen the cytokine family proteins differentially expressed in preeclampsia patients and normal controls.
DOI: 10.17632/8xgz7gmngz.1
title: Calcium Silicate-coated Porous Chitosan Scaffold for Direct Pulp Capping.

description: In this in study porous chitosan scaffolds (SCH) associated with calcium silicate (CaSi), or not, were developed and assessed concerning their bioactive and chemiotactic potential on human dental pulp cells (hDPCs).
The data related to the results obtained through the methodologies developed in this study are organized in spreadsheets (xlsx file).
DOI: 10.17632/m54n9tnrdj.2
title: CM2.1 Hist ensemble mean

description: 20-member ensemble of CM2.1 historical simulations, each forced by historical and RCP4.5 radiative forcing and different initial conditions
DOI: 10.17632/tyxy9hbrwd.2
title: Students' learning satisfaction and self-regulated learning strategies in MOOC

description: This data contains students' demographic background, their learning satisfaction and self-regulated learning strategies used in Massive Open Online Courses (MOOC)
DOI: 10.17632/zvp2fwzm3d.1
title: Lapillus otolith shape coordinates 

description: Geometric morphometrics was used to assess the lapillus otolith shape of catfishes.
Image codes start with the species acronyms as follows: 

Ag= Ariopsis guatemalensis
As= Ariopsis seemanni
Bp= Bagre panamensis
Bpi= Bagre pinnimaculatus
Cl= Cathorops liropus
Cr= Cathorops raredonae
Nt= Notarius troschelii
Op= Occidentarius platypogon
DOI: 10.17632/jn2npzh7d9.1
title: (Supplement) Expanding literature regarding cutaneous manifestations of COVID-19: A bibliometric analysis

description: Supplementary Table 1
DOI: 10.17632/6wj3s6d4by.1
title: ESCRT dysfunction compromises endoplasmic reticulum maturation and autophagosome biogenesis in Drosophila

description: Original uncropped western blot results of Atg8a, Ref2p and Actin in Vps25, Vps36 knockdown and control fly intestines.
DOI: 10.17632/44fxxng896.3
title: STAT6  in mitochondrial outer membrane impairs mitochondrial fusion by inhibiting MFN2 dimerization

description: All raw data including original immunoblot, confocal images, and statistics  have been deposited.
DOI: 10.17632/g2fnm9fv3h.1
title: Exogenous attention generalizes location transfer of perceptual learning in amblyopic adults. Roberts & Carrasco

description:  All participant data files for the trained and untrained tasks.