cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5951959
title: Supplementary Material for: Acceptance of Adjuvant and Neoadjuvant Chemotherapy in Muscle-Invasive Bladder Cancer in Germany: A Survey of Current Practice

description: <b><i>Background:</i></b> Guidelines support the use of neoadjuvant (NAC) and adjuvant (AC) chemotherapy in muscle-invasive bladder cancer. However, data from North America reported the underutilization of NAC in favor of AC despite the lower level of scientific evidence supporting AC. We aimed to assess current practice patterns of NAC and AC in ­Germany. <b><i>Methods:</i></b> A 15-question online survey was developed and sent via email newsletters to members of the ­German Association of Urology and of the German Society of Residents in Urology in October 2016 to analyze current practice patterns. <b><i>Results:</i></b> The survey yielded 141 individual responses from 61 different German urology departments. Eighty-nine (69.0%) and 119 (93.0%) participants were stated to regularly use NAC and AC respectively. The number of participants who were stated to use NAC and AC regularly was not associated with the type of institution (academic vs. nonacademic), number of hospital beds, and number of cystectomies performed annually. Gemcitabine/cisplatin combination chemotherapy was named as the primarily used NAC regimen by 80 (95%) respondents. The median number of administered cycles was 3 for NAC and 4 for AC. In the case of cisplatin ineligibility, combination chemotherapy with gemcitabine/carboplatin was the most common regimen. Respondents stated that chemotherapy was generally administered by urologists (81% for NAC and 85% for AC). <b><i>Conclusions:</i></b> Our survey of current practice shows a high acceptance rate of NAC in Germany, which was independent of the type of institution. Although the scientific level of evidence for AC is lower, it still seems to be more widely accepted than NAC. NAC and AC were generally administered by urologists.
DOI: 10.6084/m9.figshare.5951857
title: Data_References.txtASD and TD eye movement dataset in visual orienting task

description: data for paper <b>Automatic Classification of Children with Autism Spectrum Disorder by Using a Computerized Visual Orienting Task</b><b></b>
DOI: 10.6084/m9.figshare.5951857.v1
title: Data_References.txtASD and TD eye movement dataset in visual orienting task

description: data for paper <b>Automatic Classification of Children with Autism Spectrum Disorder by Using a Computerized Visual Orienting Task</b><b></b>
DOI: 10.6084/m9.figshare.5951854
title: HFA_Group_2.matASD and TD eye movement dataset in visual orienting task

description: data for <b>Automatic Classification of Children with Autism Spectrum Disorder by Using a Computerized Visual Orienting Task</b>
DOI: 10.6084/m9.figshare.5951848
title: TD_Group.matASD and TD eye movement dataset in visual orienting task

description: data for paper Automatic Classification of Children with Autism Spectrum Disorder by Using a Computerized Visual Orienting Task
DOI: 10.6084/m9.figshare.5951848.v1
title: TD_Group.matASD and TD eye movement dataset in visual orienting task

description: data for paper Automatic Classification of Children with Autism Spectrum Disorder by Using a Computerized Visual Orienting Task
DOI: 10.6084/m9.figshare.5951842
title: LFA_Group.matASD and TD eye movement dataset in visual orienting task

description: data for paper Automatic Classification of Children with Autism Spectrum Disorder by Using a Computerized Visual Orienting Task
DOI: 10.6084/m9.figshare.5951842.v1
title: LFA_Group.matASD and TD eye movement dataset in visual orienting task

description: data for paper Automatic Classification of Children with Autism Spectrum Disorder by Using a Computerized Visual Orienting Task
DOI: 10.6084/m9.figshare.5951836
title: Supplementary Material for: Phospholipase A<sub>2</sub> of Microbiota as Pathogenetic Determinant to Induce Inflammatory States in Ulcerative Colitis: Therapeutic Implications of Phospholipase A<sub>2</sub> Inhibitors

description: <b><i>Background:</i></b> Attack by commensal microbiota is one component of induction of inflammatory episodes in ulcerative colitis (UC). In UC, the mucus layer is intrinsically devoid of phosphatidylcholine (PC) resulting in low hydrophobicity which facilitates bacterial invasion. Colonic ectophospholipase-carrying bacterial strains are likely candidates to further thinning the PC mucus barrier and to precipitate inflammatory episodes. <b><i>Objective:</i></b> To evaluate the effect of phospholipase A<sub>2</sub> (PLA<sub>2</sub>) inhibitors on inflammation in a genetic UC mouse model. <b><i>Methods:</i></b> As PLA<sub>2</sub> inhibitor, we applied the bile acid-phospholipid conjugate ursodeoxycholate-lysophosphatidylethanolamide (UDCA-LPE) or as control 5% Tween 80 by oral gavage to intestine-specific kindlin 2 knockout mice. <b><i>Results:</i></b> Luminal UDCA-LPE reduced the PLA<sub>2</sub> activity in stool by 36 ± 8%. Concomitantly no inflammatory phenotype was observed when compared to kindlin 2<sup>(–/–)</sup> mice not treated with UDCA-LPE. The improvement was documented in regard to stool consistency, calprotectin levels in stool, and macroscopic/endoscopic as well as histologic features of the mucosa. The pattern of colonic microbiota distribution obtained in the UC phenotype mice was reversed by UDCA-LPE to the control mice pattern. <b><i>Conclusion:</i></b> The inhibition of the bacterial ectophospholipase A<sub>2</sub> activity improves mucosal inflammation in a genetic mouse model of UC. It is assumed that the remaining mucus PC shield is better preserved when luminal PLA<sub>2</sub> is suppressed.
DOI: 10.6084/m9.figshare.5951824
title: Supplementary Material for: Genetic Variability and Sequence Relatedness of Matrix Protein in Viruses of the Families Paramyxoviridae and Pneumoviridae

description: <b><i>Background:</i></b> The families Paramyxoviridae and Pneumoviridae comprise a broad spectrum of viral pathogens that affect human health. The matrix (M) protein of these viruses has a central role in their life cycle. In line with this, molecular characteristics of the M proteins from variable viruses that circulated in Croatia were investigated. <b><i>Methods:</i></b> Sequences of the M proteins of human parainfluenza virus (HPIV) 1–3 within the family Paramyxoviridae, human metapneumovirus (HMPV), and human respiratory syncytial virus from the family Pneumoviridae<i></i> were obtained and analyzed. <b><i>Results:</i></b> M proteins were very diverse among HPIVs, but highly conserved within each virus. More variability was seen in nucleotide sequences of M proteins from the Pneumoviridae<i></i> family. An insertion of 8 nucleotides in the 3′ untranslated region in 1 HMPV M gene sequence was discovered (HR347-12). As there are no samples with such an insertion in the database, this insertion is of interest and requires further research. <b><i>Conclusion:</i></b> While we have confirmed that M proteins were conserved among individual viruses, any changes that are observed should be given attention and further researched. Of special interest is inclusion of HPIV2 M proteins in this analysis, as these proteins have not been studied to the same extent as other paramyxoviruses.
DOI: 10.6084/m9.figshare.5951824.v1
title: Supplementary Material for: Genetic Variability and Sequence Relatedness of Matrix Protein in Viruses of the Families Paramyxoviridae and Pneumoviridae

description: <b><i>Background:</i></b> The families Paramyxoviridae and Pneumoviridae comprise a broad spectrum of viral pathogens that affect human health. The matrix (M) protein of these viruses has a central role in their life cycle. In line with this, molecular characteristics of the M proteins from variable viruses that circulated in Croatia were investigated. <b><i>Methods:</i></b> Sequences of the M proteins of human parainfluenza virus (HPIV) 1–3 within the family Paramyxoviridae, human metapneumovirus (HMPV), and human respiratory syncytial virus from the family Pneumoviridae<i></i> were obtained and analyzed. <b><i>Results:</i></b> M proteins were very diverse among HPIVs, but highly conserved within each virus. More variability was seen in nucleotide sequences of M proteins from the Pneumoviridae<i></i> family. An insertion of 8 nucleotides in the 3′ untranslated region in 1 HMPV M gene sequence was discovered (HR347-12). As there are no samples with such an insertion in the database, this insertion is of interest and requires further research. <b><i>Conclusion:</i></b> While we have confirmed that M proteins were conserved among individual viruses, any changes that are observed should be given attention and further researched. Of special interest is inclusion of HPIV2 M proteins in this analysis, as these proteins have not been studied to the same extent as other paramyxoviruses.
DOI: 10.6084/m9.figshare.5951818
title: On the processing of pragmatic information: ERP effects of emphasis processing

description: This study investigates the pragmatic processing of emphasis using the event-related potential (ERP) technique. Participant reads one-character and two-character mini-discourses, wherein the target name is either emphasised or not. Firstly, results show that the emphasised name elicited a larger P2 than the non-emphasised name, which suggests that emphasis modulates the attention of readers. Secondly, the emphasised name elicited a larger P300 than the non-emphasised name, which suggests that emphasis enhances online discourse integration. The emphasised condition on the sentence-final word elicited a smaller P300 than the non-emphasised condition in the two-character discourse, but not in the one-character discourse. This result suggests that the integration of emphasis information is facilitated by a contrastive character. Thus, the effect of emphasis may occur after the onset of the target word and end late with the integration of discourse information on the sentence-final words, which suggests that pragmatic processing is flexible.
DOI: 10.6084/m9.figshare.5951818.v2
title: On the processing of pragmatic information: ERP effects of emphasis processing

description: This study investigates the pragmatic processing of emphasis using the event-related potential (ERP) technique. Participant reads one-character and two-character mini-discourses, wherein the target name is either emphasised or not. Firstly, results show that the emphasised name elicited a larger P2 than the non-emphasised name, which suggests that emphasis modulates the attention of readers. Secondly, the emphasised name elicited a larger P300 than the non-emphasised name, which suggests that emphasis enhances online discourse integration. The emphasised condition on the sentence-final word elicited a smaller P300 than the non-emphasised condition in the two-character discourse, but not in the one-character discourse. This result suggests that the integration of emphasis information is facilitated by a contrastive character. Thus, the effect of emphasis may occur after the onset of the target word and end late with the integration of discourse information on the sentence-final words, which suggests that pragmatic processing is flexible.
DOI: 10.6084/m9.figshare.5951818.v1
title: On the processing of pragmatic information: ERP effects of emphasis processing

description: This study investigates the pragmatic processing of emphasis using the event-related potential (ERP) technique. Participant reads one-character and two-character mini-discourses, wherein the target name is either emphasised or not. Firstly, results show that the emphasised name elicited a larger P2 than the non-emphasised name, which suggests that emphasis modulates the attention of readers. Secondly, the emphasised name elicited a larger P300 than the non-emphasised name, which suggests that emphasis enhances online discourse integration. The emphasised condition on the sentence-final word elicited a smaller P300 than the non-emphasised condition in the two-character discourse, but not in the one-character discourse. This result suggests that the integration of emphasis information is facilitated by a contrastive character. Thus, the effect of emphasis may occur after the onset of the target word and end late with the integration of discourse information on the sentence-final words, which suggests that pragmatic processing is flexible.
DOI: 10.6084/m9.figshare.5951812
title: Two new species of the <i>Ophisops microlepis</i> (Squamata: Lacertidae) complex from northwestern India with a key to Indian <i>Ophisops</i>

description: We describe two new species of the lacertid genus <i>Ophisops</i> based on a series of 19 specimens from semi-arid habitats in the states of Gujarat and Rajasthan in northwestern India, provide a description of <i>Ophisops microlepis</i> sensu stricto, and a key to Indian <i>Ophisops. Ophisops pushkarensis</i> sp. nov. and <i>Ophisops kutchensis</i> sp. nov. are allied to <i>Ophisops microlepis</i> and can be diagnosed from all other Indian <i>Ophisops</i> by the fusion of the lower and upper eyelids, their large body size (snout to vent length &gt; 50 mm), and ≥ 50 scales around midbody. They differ from <i>O. </i><i>microlepis</i> and each other in the number of scales around midbody, the number of dorsal scales, subtle colour pattern differences, as well as uncorrected mitochondrial sequence divergence (6–9%). These are some of the only known endemic reptiles in these semi-arid landscapes and indicate that many other such habitats may harbour endemic biodiversity. www.zoobank.org/urn:lsid:zoobank.org:pub:3CD04F6F-D699-4100-A462-9BDD4B36FEE2
DOI: 10.6084/m9.figshare.5951812.v1
title: Two new species of the <i>Ophisops microlepis</i> (Squamata: Lacertidae) complex from northwestern India with a key to Indian <i>Ophisops</i>

description: We describe two new species of the lacertid genus <i>Ophisops</i> based on a series of 19 specimens from semi-arid habitats in the states of Gujarat and Rajasthan in northwestern India, provide a description of <i>Ophisops microlepis</i> sensu stricto, and a key to Indian <i>Ophisops. Ophisops pushkarensis</i> sp. nov. and <i>Ophisops kutchensis</i> sp. nov. are allied to <i>Ophisops microlepis</i> and can be diagnosed from all other Indian <i>Ophisops</i> by the fusion of the lower and upper eyelids, their large body size (snout to vent length &gt; 50 mm), and ≥ 50 scales around midbody. They differ from <i>O. </i><i>microlepis</i> and each other in the number of scales around midbody, the number of dorsal scales, subtle colour pattern differences, as well as uncorrected mitochondrial sequence divergence (6–9%). These are some of the only known endemic reptiles in these semi-arid landscapes and indicate that many other such habitats may harbour endemic biodiversity. www.zoobank.org/urn:lsid:zoobank.org:pub:3CD04F6F-D699-4100-A462-9BDD4B36FEE2
DOI: 10.6084/m9.figshare.5951809
title: Rabbit relinquishment through online classified advertisements in the United Kingdom: when, why, and how many?

description: To identify implicit causes of companion rabbit relinquishment, this study investigated whether there was annual and seasonal variation in the number of advertisements and ages of rabbits posted as free or for sale on classified websites in the United Kingdom. The number of advertisements posted decreased from 2014 to 2016. There was an increase in the number of advertisements for free rabbits in winter compared with other seasons, which could be a result of caregivers’ reduced willingness to interact with their rabbits and carry out husbandry during periods of inclement weather. Rabbits advertised as free were older than rabbits advertised for sale, and rabbits relinquished due to human-related reasons were older than those relinquished because of rabbit-related factors. It is recommended that further research is undertaken to elucidate whether providing education to prospective rabbit caregivers regarding the life span of rabbits and their substantial husbandry requirements, especially in winter, would deter the purchase of rabbits by caregivers unable or unwilling to care for them in the long term.
DOI: 10.6084/m9.figshare.5951809.v1
title: Rabbit relinquishment through online classified advertisements in the United Kingdom: when, why, and how many?

description: To identify implicit causes of companion rabbit relinquishment, this study investigated whether there was annual and seasonal variation in the number of advertisements and ages of rabbits posted as free or for sale on classified websites in the United Kingdom. The number of advertisements posted decreased from 2014 to 2016. There was an increase in the number of advertisements for free rabbits in winter compared with other seasons, which could be a result of caregivers’ reduced willingness to interact with their rabbits and carry out husbandry during periods of inclement weather. Rabbits advertised as free were older than rabbits advertised for sale, and rabbits relinquished due to human-related reasons were older than those relinquished because of rabbit-related factors. It is recommended that further research is undertaken to elucidate whether providing education to prospective rabbit caregivers regarding the life span of rabbits and their substantial husbandry requirements, especially in winter, would deter the purchase of rabbits by caregivers unable or unwilling to care for them in the long term.
DOI: 10.6084/m9.figshare.5951797
title: Supplementary Material for: Physiological and Molecular Effects of in vivo and ex vivo Mild Skin Barrier Disruption

description: The success of topically applied treatments on skin relies on the efficacy of skin penetration. In order to increase particle or product penetration, mild skin barrier disruption methods can be used. We previously described cyanoacrylate skin surface stripping as an efficient method to open hair follicles, enhance particle penetration, and activate Langerhans cells. We conducted ex vivo and in vivo measurements on human skin to characterize the biological effect and quantify barrier disruption-related inflammation on a molecular level. Despite the known immunostimulatory effects, this barrier disruption and hair follicle opening method was well accepted and did not result in lasting changes of skin physiological parameters, cytokine production, or clinical side effects. Only in ex vivo human skin did we find a discrete increase in IP-10, TGF-β, IL-8, and GM-CSF mRNA. The data underline the safety profile of this method and demonstrate that the procedure per se does not cause substantial inflammation or skin damage, which is also of interest when applied to non-invasive sampling of biomarkers in clinical trials.
DOI: 10.6084/m9.figshare.5951770
title: Layouts

description: Custom experimental layouts developed in-house currently being supported by COMBImage.
DOI: 10.6084/m9.figshare.5951770.v1
title: Layouts

description: Custom experimental layouts developed in-house currently being supported by COMBImage.
DOI: 10.6084/m9.figshare.5951632
title: Supplementary Material for: Epigenetic Effects of Intravenous Diacetylmorphine on the Methylation of <b><i>POMC</i></b> and <b><i>NR3C1</i></b>

description: The administration of diacetylmorphine (DAM) reduces the activation of the hypothalamic-pituitary-adrenal (HPA) axis in opioid-maintained patients. However, the epigenetic effects of DAM on addiction-related genes have not been investigated yet. In a randomized controlled study, we examined the immediate effects of intravenous DAM versus placebo on the promoter methylation of the <i>POMC</i> (pro- opiomelanocortin) and <i>NR3C1</i> (glucocorticoid receptor 1) genes. Twenty-eight heroin-dependent patients on DAM-assisted treatment received either DAM or saline in a randomized crossover design and 17 healthy participants received saline only. EDTA blood samples were taken 25 min before and 10 min after the injection of DAM or saline. We found reciprocal regulation effects for DAM versus saline application regarding the methylation of <i>POMC</i>; while DAM injection significantly increased methylation, saline injection led to a significant decrease in methylation for patients as well as controls. <i>NR3C1</i> data did not show significant changes in methylation. Injection of DAM blunted stress hormone levels and the <i>POMC</i> promoter methylation of heroin-dependent patients. These findings provide first preliminary insights into the epigenetic mechanisms underlying the emotional regulation effects of DAM-assisted treatment in severe heroin-dependent patients.
DOI: 10.6084/m9.figshare.5951626
title: Supplementary Material for: Assessment of the Utility of Cytology and Flow Cytometry of Cerebrospinal Fluid Samples in Clinical Practice

description: <b><i>Objectives:</i></b> We sought to assess the utility and limitations of both flow cytometry (FC) and cytology for the analysis of cerebrospinal fluid (CSF) in a practical clinical setting. <b><i>Methods:</i></b> A total of 393 consecutive CSF samples from 171 patients submitted for both cytomorphologic and FC assessments were analyzed. <b><i>Results:</i></b> Both FC and cytology findings were negative for malignancy in 315/393 samples (80%), and either positive (POS) or suspicious/atypical (SUSP/AT) in 7% of samples. This resulted in high agreement between FC and cytology (87%). Minor discrepancies were present in 4% of the cases. In 28 samples, an abnormal population was detected by FC but not by cytology. <b><i>Conclusions:</i></b> FC and cytology are important complementary methods for analyzing CSF samples. In cases where cytology is SUSP/AT and FC is inconclusive or negative, additional specimens should be submitted for immunostaining, cytogenetics, and/or molecular studies.
DOI: 10.6084/m9.figshare.5951623
title: Supplementary Material for: The Regulator Gene <b><i>rnc</i></b> Is Closely Involved in Biofilm Formation in <b><i>Streptococcus mutans</i></b>

description: <i>Streptococcus mutans</i> is an important factor in the etiology and pathogenesis of dental caries, largely owing to its ability to form a stable biofilm. Previous animal studies have indicated that <i>rnc</i> could decrease the amount of sulcal caries, and that the downregulation of cariogenicity might be due to its capacity to disrupt biofilm formation. However, the biofunctions by which <i>rnc</i> is involved in biofilm formation remain to be elucidated. In this study, we further investigate the role of <i>rnc</i> based on the study of mature biofilm. Scanning electron microscopy and the crystal violet assay were used to detect the biofilm forming ability. The production and distribution of exopolysaccharides within biofilm was analyzed by exopolysaccharide staining. Gel permeation chromatography was used to perform molecular weight assessment. Its adhesion force was measured by atomic force microscopy. The expression of biofilm formation-associated genes was analyzed at the mRNA level by qPCR. Here, we found that <i>rnc</i> could occur and function in biofilm formation by assembling well-structured, exopolysaccharide-encased, stable biofilms in <i>S. mutans</i>. The weakened biofilm forming ability of <i>rnc</i>-deficient strains was associated with the reduction of exopolysaccharide production and bacterial adhesion. Over all, these data illustrate an interesting situation in which an unappreciated regulatory gene acquired for virulence, <i>rnc</i>, most likely has been coopted as a potential regulator of biofilm formation in <i>S. mutans</i>. Further characterization of <i>rnc</i> may lead to the identification of a possible pathogenic biofilm-specific treatment for dental caries.