cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.4743988
title: Classification of Culture and Process in U.S. Supreme Court Language, 1793-2011

description: In an effort to distantly read U.S. Supreme Court opinions, the authors extracted and classified the noun or noun phrase following every usage of the possessive pronoun "our" in every court opinion from 1793 through the end of the 2011 term. All terms were classified by legal historian Professor David S. Tanenhaus, generally with reference to the original opinion text for context, and were re-checked by Tanenhaus after a period of several months. Thus the classifications represent his qualitative, expert opinion. Each term was classified as representing a "process" oriented usage (e.g. the judicial process), a "culture" or heritage usage, or, in some cases, either "ambiguous" or "unclassified" uses. "Ambiguous" uses are those where classification of the individual uses of each term revealed that no consensus emerged about the generalized meaning of the term (in other words, some were process, and some were culture). For more details about the classification process, please see the data paper. The data is contained in a TSV file containing three fields, with no header. The first field is the number of times this particular follower-term appeared in the entire corpus. The second field is the follower term itself (lowercased), which may be a phrase. The third field is the classification of that term. As of the version 11 update, the file contains 9527 unique follower-terms, representing the terms following "our" in 79,693 uses across the corpus of U.S. Supreme Court opinions from 1793-2011.
DOI: 10.5281/zenodo.4279858
title: Classification of Culture and Process in U.S. Supreme Court Language, 1793-2011

description: In an effort to distantly read U.S. Supreme Court opinions, the authors extracted and classified the noun or noun phrase following every usage of the possessive pronoun "our" in every court opinion from 1793 through the end of the 2011 term. All terms were classified by legal historian Professor David S. Tanenhaus, generally with reference to the original opinion text for context, and were re-checked by Tanenhaus after a period of several months. Thus the classifications represent his qualitative, expert opinion. Each term was classified as representing a "process" oriented usage (e.g. the judicial process), a "culture" or heritage usage, or, in some cases, either "ambiguous" or "unclassified" uses. "Ambiguous" uses are those where classification of the individual uses of each term revealed that no consensus emerged about the generalized meaning of the term (in other words, some were process, and some were culture). For more details about the classification process, please see the data paper. The data is contained in a TSV file containing three fields, with no header. The first field is the number of times this particular follower-term appeared in the entire corpus. The second field is the follower term itself (lowercased), which may be a phrase. The third field is the classification of that term. As of the version 11 update, the file contains 9527 unique follower-terms, representing the terms following "our" in 79,693 uses across the corpus of U.S. Supreme Court opinions from 1793-2011.
DOI: 10.5281/zenodo.4743418
title: SILVER - Subj A data

description: pre-processed (using `read_and_save_TURBINE.m`) k-space TURBINE data in a healthy volunteer, A, acquired on 3T Siemens Prisma 10.3.2021. Angles with which data was acquired (a, and b are repeats of the same acquisition method): GR (111.24610) UNIFORM 1/46 (3.9130) UNIFORM 1/55 (3.2727) UNIFORM 1/10 (18.0000) UNIFORM 1/8 (22.5000) SILVER {8,55} electrostatic_potential (157.1022) SILVER {10,46} electrostatic_potential (53.6145) Resting state (rs) and task fMRI data was also acquired. The task was a 30 s on 30 s off flashing checkerboard. Sensitivity maps derived from the GR are also included along with noise covariances. Separate maps are derived for the fMRI experiments (from GR rs) and for the noise measurements (from GRa). The covariances are derived from the same GR scans' pre-scan noise measurement.
DOI: 10.5281/zenodo.4743417
title: SILVER - Subj A data

description: pre-processed (using `read_and_save_TURBINE.m`) k-space TURBINE data in a healthy volunteer, A, acquired on 3T Siemens Prisma 10.3.2021. Angles with which data was acquired (a, and b are repeats of the same acquisition method): GR (111.24610) UNIFORM 1/46 (3.9130) UNIFORM 1/55 (3.2727) UNIFORM 1/10 (18.0000) UNIFORM 1/8 (22.5000) SILVER {8,55} electrostatic_potential (157.1022) SILVER {10,46} electrostatic_potential (53.6145) Resting state (rs) and task fMRI data was also acquired. The task was a 30 s on 30 s off flashing checkerboard. Sensitivity maps derived from the GR are also included along with noise covariances. Separate maps are derived for the fMRI experiments (from GR rs) and for the noise measurements (from GRa). The covariances are derived from the same GR scans' pre-scan noise measurement.
DOI: 10.6084/m9.figshare.13312964.v1
title: Vessel Density around Foveal Avascular Zone as a Potential Imaging Biomarker for Detecting Preclinical Diabetic Retinopathy: An Optical Coherence Tomography Angiography Study

description: <b>Purpose</b>: The purpose of this study was to investigate the changes of optical coherence tomography angiography (OCTA) parameters in diabetic retinopathy (DR) using an updated software with 3D projection artifact removal. <b>Methods</b>: In this cross-sectional observational study, 192 eyes of 111 patients with diabetes mellitus (DM) and 55 eyes of 34 age-matched healthy subjects were included. Diabetic patients were divided into three subgroups: without DR, with mild non-proliferative DR, and with moderate-to-severe non-proliferative DR. All eyes underwent dilated fundoscopy along with 3x3mm and 6x6mm OCTA image acquisition. Vessel density (VD), retinal thickness and foveal avascular zone (FAZ) parameters were analyzed. Correlation analyses between OCTA parameters and DR severity were also performed. <b>Results</b>: There was a statistically significant difference in all OCTA parameters among groups, except for superficial foveal VD in 6x6mm scan and whole image retinal thickness in both 3x3mm and 6x6mm scans, while 3x3mm scan parameters were found to be diagnostically superior to the corresponding ones of 6x6mm scan. As the DR stage progressed, the mean VD values decreased. FD-300, which is the VD of a 300-μm width annulus surrounding FAZ, demonstrated the strongest inverse correlation with DR severity (r = −0.590/r<sub>s</sub> = −0.562, <i>p</i> p <b>Conclusion</b>: OCTA shows progressive decrease of VD parameters with increasing DR severity. Foveal VD, FAZ area, and perimeter are not very useful indexes due to the high interindividual variability of FAZ size. OCTA and specifically FD-300 may serve as a promising DR screening tool for detecting preclinical microvascular alterations.
DOI: 10.6084/m9.figshare.13312964
title: Vessel Density around Foveal Avascular Zone as a Potential Imaging Biomarker for Detecting Preclinical Diabetic Retinopathy: An Optical Coherence Tomography Angiography Study

description: <b>Purpose</b>: The purpose of this study was to investigate the changes of optical coherence tomography angiography (OCTA) parameters in diabetic retinopathy (DR) using an updated software with 3D projection artifact removal. <b>Methods</b>: In this cross-sectional observational study, 192 eyes of 111 patients with diabetes mellitus (DM) and 55 eyes of 34 age-matched healthy subjects were included. Diabetic patients were divided into three subgroups: without DR, with mild non-proliferative DR, and with moderate-to-severe non-proliferative DR. All eyes underwent dilated fundoscopy along with 3x3mm and 6x6mm OCTA image acquisition. Vessel density (VD), retinal thickness and foveal avascular zone (FAZ) parameters were analyzed. Correlation analyses between OCTA parameters and DR severity were also performed. <b>Results</b>: There was a statistically significant difference in all OCTA parameters among groups, except for superficial foveal VD in 6x6mm scan and whole image retinal thickness in both 3x3mm and 6x6mm scans, while 3x3mm scan parameters were found to be diagnostically superior to the corresponding ones of 6x6mm scan. As the DR stage progressed, the mean VD values decreased. FD-300, which is the VD of a 300-μm width annulus surrounding FAZ, demonstrated the strongest inverse correlation with DR severity (r = −0.590/r<sub>s</sub> = −0.562, <i>p</i> p <b>Conclusion</b>: OCTA shows progressive decrease of VD parameters with increasing DR severity. Foveal VD, FAZ area, and perimeter are not very useful indexes due to the high interindividual variability of FAZ size. OCTA and specifically FD-300 may serve as a promising DR screening tool for detecting preclinical microvascular alterations.
DOI: 10.6084/m9.figshare.12851195
title: Clinical evaluation and disease management of PI-RADS 3 lesions. Analysis from a single tertiary high-volume center

description: To evaluate the clinical and pathological implications of Prostate Cancer (PCa) patients with a Prostate Imaging - Reporting and Data System (PI-RADS) 3 lesion at multi parametric magnetic resonance imaging (mpMRI). We included 356 patients with a PI-RADS score 3 lesion at mpMRI who underwent prostate biopsy for a suspect of PCa at a single tertiary high-volume centre between 2013 and 2016. We developed Uni- (UVA) and multi variable (MVA) logistic regression analyses assessing the predictors of three endpoints: 1) diagnosis of PCa, 2) active surveillance (AS) criteria and 3) clinically significant (CS) PCa at final pathology. PCa was diagnosed in 285 patients (80%), out of these 154 (56%) were eligible for AS according to Prostate Cancer Research International Active Surveillance (PRIAS) criteria. Over the 228 (64%) patients who underwent surgery, 93 (40.8%) had a CS disease at final pathology. Hundred and ninety-three (84.6%) had a pT2 disease and 35 (15.4%) had a pT3 disease. The size of the main lesion, age, PSA and prostate volume efficiently predicted PCa at MVA (all <i>p</i> p = 0.007) efficiently predicted a CS PCa at final pathology. mpMRI-detected PI-RADS 3 lesions should be sent to a prostate biopsy if other clinical parameters suggest the presence of a PCa. In case of diagnosis of a PCa, patients should undergo confirmatory biopsy before being included in AS protocols to avoid underestimation of a CS disease.
DOI: 10.6084/m9.figshare.12851195.v1
title: Clinical evaluation and disease management of PI-RADS 3 lesions. Analysis from a single tertiary high-volume center

description: To evaluate the clinical and pathological implications of Prostate Cancer (PCa) patients with a Prostate Imaging - Reporting and Data System (PI-RADS) 3 lesion at multi parametric magnetic resonance imaging (mpMRI). We included 356 patients with a PI-RADS score 3 lesion at mpMRI who underwent prostate biopsy for a suspect of PCa at a single tertiary high-volume centre between 2013 and 2016. We developed Uni- (UVA) and multi variable (MVA) logistic regression analyses assessing the predictors of three endpoints: 1) diagnosis of PCa, 2) active surveillance (AS) criteria and 3) clinically significant (CS) PCa at final pathology. PCa was diagnosed in 285 patients (80%), out of these 154 (56%) were eligible for AS according to Prostate Cancer Research International Active Surveillance (PRIAS) criteria. Over the 228 (64%) patients who underwent surgery, 93 (40.8%) had a CS disease at final pathology. Hundred and ninety-three (84.6%) had a pT2 disease and 35 (15.4%) had a pT3 disease. The size of the main lesion, age, PSA and prostate volume efficiently predicted PCa at MVA (all <i>p</i> p = 0.007) efficiently predicted a CS PCa at final pathology. mpMRI-detected PI-RADS 3 lesions should be sent to a prostate biopsy if other clinical parameters suggest the presence of a PCa. In case of diagnosis of a PCa, patients should undergo confirmatory biopsy before being included in AS protocols to avoid underestimation of a CS disease.
DOI: 10.6084/m9.figshare.12851198.v1
title: Searching for glycomic biomarkers for predicting resilience and vulnerability in a rat model of posttraumatic stress disorder

description: Posttraumatic stress disorder (PTSD) is triggered by traumatic events in 10–20% of exposed subjects. N-linked glycosylation, by modifying protein functions, may provide an important environmental link predicting vulnerability. Our goals were (1) to find alterations in plasma N-glycome predicting stress-vulnerability; (2) to investigate how trauma affects N-glycome in the plasma (PGP) and in three PTSD-related brain regions (prefrontal cortex, hippocampus and amygdala; BGP), hence, uncover specific targets for PTSD treatment. We examined male (1) controls, (2) traumatized vulnerable and (3) traumatized resilient rats both before and several weeks after electric footshock. Vulnerable and resilient groups were separated by <i>z</i>-score analysis of behavior. Higher freezing behavior and decreased social interest were detected in vulnerable groups compared to control and resilient rats. Innate anxiety did not predict vulnerability, but pretrauma levels of PGP10(FA1G1Ga1), PGP11(FA2G2), and PGP15(FA3G2) correlated positively with it, the last one being the most sensitive. Traumatic stress induced a shift from large, elaborate N-glycans toward simpler neutral structures in the plasma of all traumatized animals and specifically in the prefrontal cortex of vulnerable rats. In plasma trauma increased PGP17(A2G2S) level in vulnerable animals. In all three brain regions, BGP11(F(6)A2B) was more abundant in vulnerable rats, while most behavioral correlations occurred in the prefrontal cortex. In conclusion, we found N-glycans (especially PGP15(FA3G2)) in plasma as possible biomarkers of vulnerability to trauma that warrants further investigation. Posttrauma PGP17(A2G2S1) increase showed overlap with human results highlighting the utility and relevance of this animal model. Prefrontal cortex is a key site of trauma-induced glycosylation changes that could modulate the behavioral outcome.
DOI: 10.6084/m9.figshare.12851198
title: Searching for glycomic biomarkers for predicting resilience and vulnerability in a rat model of posttraumatic stress disorder

description: Posttraumatic stress disorder (PTSD) is triggered by traumatic events in 10–20% of exposed subjects. N-linked glycosylation, by modifying protein functions, may provide an important environmental link predicting vulnerability. Our goals were (1) to find alterations in plasma N-glycome predicting stress-vulnerability; (2) to investigate how trauma affects N-glycome in the plasma (PGP) and in three PTSD-related brain regions (prefrontal cortex, hippocampus and amygdala; BGP), hence, uncover specific targets for PTSD treatment. We examined male (1) controls, (2) traumatized vulnerable and (3) traumatized resilient rats both before and several weeks after electric footshock. Vulnerable and resilient groups were separated by <i>z</i>-score analysis of behavior. Higher freezing behavior and decreased social interest were detected in vulnerable groups compared to control and resilient rats. Innate anxiety did not predict vulnerability, but pretrauma levels of PGP10(FA1G1Ga1), PGP11(FA2G2), and PGP15(FA3G2) correlated positively with it, the last one being the most sensitive. Traumatic stress induced a shift from large, elaborate N-glycans toward simpler neutral structures in the plasma of all traumatized animals and specifically in the prefrontal cortex of vulnerable rats. In plasma trauma increased PGP17(A2G2S) level in vulnerable animals. In all three brain regions, BGP11(F(6)A2B) was more abundant in vulnerable rats, while most behavioral correlations occurred in the prefrontal cortex. In conclusion, we found N-glycans (especially PGP15(FA3G2)) in plasma as possible biomarkers of vulnerability to trauma that warrants further investigation. Posttrauma PGP17(A2G2S1) increase showed overlap with human results highlighting the utility and relevance of this animal model. Prefrontal cortex is a key site of trauma-induced glycosylation changes that could modulate the behavioral outcome.
DOI: 10.6084/m9.figshare.12928346.v1
title: Palliative MRI-guided transurethral ultrasound ablation for symptomatic locally advanced prostate cancer

description: Locally advanced prostate cancer can cause bladder outlet obstruction, gross hematuria and frequent hospitalization. While these complications are commonly treated by palliative transurethral resection of the prostate, the improvement is often insufficient. The purpose of this study was to evaluate the safety and feasibility of MRI-guided transurethral ultrasound ablation as an alternative palliative treatment option (pTULSA) for men suffering from symptomatic locally advanced prostate cancer. This prospective, phase one study included 10 men in need of palliative surgical intervention due to urinary retention and gross hematuria caused by locally advanced prostate cancer. Patients were followed for 1 year at 3-month intervals. Time without catheter, time without hematuria, reduction in hospitalization time, and adverse events were measured. Ten patients with locally advanced prostate cancer were enrolled, all having continuous catheterization due to urinary retention and nine had gross hematuria before treatment. At 1 week post-pTULSA five patients were catheter-free. At last follow-up catheter-free and gross hematuria-free rates were 70% and 100%, respectively. Average hospitalization time from local complications reduced from 7.3 to 1.4 days in the 6 months before and after pTULSA. No &gt; Grade 2 treatment related adverse events were reported, with all five being urinary tract infections. pTULSA appears safe and feasible for palliative ablation of locally advanced prostate cancer. The therapy seems to accomplish long-term hematuria control, can relieve bladder outlet obstruction in selected patients, and seems to reduce the burden of hospitalization due to local complications. <b>Trial Registration Number:</b> NCT03350529
DOI: 10.6084/m9.figshare.12928346
title: Palliative MRI-guided transurethral ultrasound ablation for symptomatic locally advanced prostate cancer

description: Locally advanced prostate cancer can cause bladder outlet obstruction, gross hematuria and frequent hospitalization. While these complications are commonly treated by palliative transurethral resection of the prostate, the improvement is often insufficient. The purpose of this study was to evaluate the safety and feasibility of MRI-guided transurethral ultrasound ablation as an alternative palliative treatment option (pTULSA) for men suffering from symptomatic locally advanced prostate cancer. This prospective, phase one study included 10 men in need of palliative surgical intervention due to urinary retention and gross hematuria caused by locally advanced prostate cancer. Patients were followed for 1 year at 3-month intervals. Time without catheter, time without hematuria, reduction in hospitalization time, and adverse events were measured. Ten patients with locally advanced prostate cancer were enrolled, all having continuous catheterization due to urinary retention and nine had gross hematuria before treatment. At 1 week post-pTULSA five patients were catheter-free. At last follow-up catheter-free and gross hematuria-free rates were 70% and 100%, respectively. Average hospitalization time from local complications reduced from 7.3 to 1.4 days in the 6 months before and after pTULSA. No &gt; Grade 2 treatment related adverse events were reported, with all five being urinary tract infections. pTULSA appears safe and feasible for palliative ablation of locally advanced prostate cancer. The therapy seems to accomplish long-term hematuria control, can relieve bladder outlet obstruction in selected patients, and seems to reduce the burden of hospitalization due to local complications. <b>Trial Registration Number:</b> NCT03350529
DOI: 10.6084/m9.figshare.14229748.v1
title: Gut microbiota diversity but not composition is related to saliva cortisol stress response at the age of 2.5 months

description: Human brain and intestinal microbes reportedly maintain a constant bidirectional connection through diverse neural, endocrine, immune, and metabolic pathways. Increasing evidence indicates that this communication system, referred to as microbiota-gut-brain axis, enables the gut microbes to influence several aspects of brain function and behavior, including hypothalamic-pituitary-adrenal (HPA) axis stress responses, and on the other hand, stress can affect gut microbiota. However, the role of gut microbiota in the HPA axis functioning in humans remains to be specified especially in early life. This study aimed at identifying the potential link between the cortisol stress response and the gut microbiota at the age of 2.5 months. Fecal microbiota profiles were acquired by 16S rRNA gene sequencing, while salivary cortisol responses after an exposure to a mild acute stressor represented the HPA axis reactivity. We observed that a blunted cortisol stress response was weakly associated with a diverse gut microbiota diversity at the age of 2.5 months. Gut microbiota composition was not associated with cortisol stress responsiveness, but rather with covariates, i.e. factors that influence gut microbiota composition and colonization.LAY SUMMARYThis exploratory study aimed at identifying possible links between cortisol stress responses and fecal microbiota composition in early infancy. In a well-characterized study population of 2.5-month-old infants, we observed that an attenuated cortisol stress responsiveness after a mild stressor was weakly associated with a diverse fecal microbiota. Our results suggest that the gut microbiota composition is associated with environmental factors, such as delivery mode and number of siblings, rather than with cortisol stress responsiveness, in this age group. This exploratory study aimed at identifying possible links between cortisol stress responses and fecal microbiota composition in early infancy. In a well-characterized study population of 2.5-month-old infants, we observed that an attenuated cortisol stress responsiveness after a mild stressor was weakly associated with a diverse fecal microbiota. Our results suggest that the gut microbiota composition is associated with environmental factors, such as delivery mode and number of siblings, rather than with cortisol stress responsiveness, in this age group.