cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.1291145.v2
title: TDP-43 regulates <i>β-adducin</i> (<i>Add2</i>) transcript stability

description: TDP-43 is an RNA-binding protein involved in several steps of mRNA metabolism including transcription, splicing and stability. It is also involved in ALS and FTD, neurodegenerative diseases characterized by TDP-43 nuclear depletion. We previously identified TDP-43 as a binder of the downstream element (DSE) of the <i>β-Adducin</i> (<i>Add2</i>) brain-specific polyadenylation site (A4 PAS), suggesting its involvement in pre-mRNA 3′ end processing. Here, by using chimeric minigenes, we showed that TDP-43 depletion in HeLa and HEK293 cells resulted in down-regulation of both the chimeric and endogenous <i>Add2</i> transcripts. Despite having confirmed TDP-43-DSE in vitro interaction, we demonstrated that the in vivo effect was not mediated by the TDP-43-DSE interaction. In fact, substitution of the <i>Add2</i> DSE with viral <i>E-SV40</i> and <i>L-SV40</i> DSEs, which are not TDP-43 targets, still resulted in decreased <i>Add2</i> mRNA levels after TDP-43 downregulation. In addition, we failed to show interaction between TDP-43 and key polyadenylation factors, such as CstF-64 and CPSF160 and excluded TDP-43 involvement in pre-mRNA cleavage and regulation of polyA tail length. These evidences allowed us to exclude the pre-hypothesized role of TDP43 in modulating 3′ end processing of <i>Add2</i> pre-mRNA. Finally, we showed that TDP-43 regulates <i>Add2</i> gene expression levels by increasing <i>Add2</i> mRNA stability. Considering that <i>Add2</i> in brain participates in synapse assembly, synaptic plasticity and their stability, and its genetic inactivation in mice leads to LTP, LTD, learning and motor-coordination deficits, we hypothesize that a possible loss of Add2 function by TDP-43 depletion may contribute to ALS and FTD disease states.
DOI: 10.6084/m9.figshare.1291124.v1
title: Context-dependent Plastic Response During Egg-laying in a Widespread Newt Species

description: Data for the analyses presented in the manuscript.
DOI: 10.6084/m9.figshare.1291085
title: Heart girth and weight data for zebu cattle

description: Variables: Girth (cm) - heart-girth measured with tape Weight (kg) - measured by weigh scale Suckling (binary) - 1 = YES, 0 = NO Sex (binary) - F = female, M = male
DOI: 10.6084/m9.figshare.1291085.v1
title: Heart girth and weigth data for zebu cattle

description: Variables: Girth (cm) - heart-girth measured with tape Weight (kg) - measured by weigh scale Suckling (binary) - 1 = YES, 0 = NO Sex (binary) - F = female, M = male
DOI: 10.6084/m9.figshare.1291068
title: Prevalence of poly-victimisation and demographic correlates among high school students in Vietnam

description: This dataset presents raw data about the prevalence of different forms of victimisation and of poly-victimisation among high school students in Hanoi, Vietnam. The data was collected using a cross-sectional, anonymous, self-completed survey among ten high schools in urban and rural areas of Hanoi, Vietnam, including public schools, private schools and centres for continuing education. A total of 1,745 students aged 15-18 were invited to particiate, of which 1,616 returned the questionnaire. The Juvenile Victimization Questionnaire Revised 2 (JVQ-R2) was used to assess exposure to poly-victimisation. Demographic information collected consisted of age, gender, residential areas, family components, number of sibling, parents' educational attainment, parents' occupations, socio-economic status, parents' history of alcohol and drug use, academic burdens and satisfaction.
DOI: 10.6084/m9.figshare.1291068.v1
title: Prevalence of poly-victimisation and demographic correlates among high school students in Vietnam

description: This dataset presents raw data about the prevalence of different forms of victimisation and of poly-victimisation among high school students in Hanoi, Vietnam. The data was collected using a cross-sectional, anonymous, self-completed survey among ten high schools in urban and rural areas of Hanoi, Vietnam, including public schools, private schools and centres for continuing education. A total of 1,745 students aged 15-18 were invited to particiate, of which 1,616 returned the questionnaire. The Juvenile Victimization Questionnaire Revised 2 (JVQ-R2) was used to assess exposure to poly-victimisation. Demographic information collected consisted of age, gender, residential areas, family components, number of sibling, parents' educational attainment, parents' occupations, socio-economic status, parents' history of alcohol and drug use, academic burdens and satisfaction.
DOI: 10.6084/m9.figshare.1291033
title: Activity Sessions datasets

description: This article contains a set of datasets used to demonstrate a strong regularity in inter-activity time. <strong>See the paper:</strong> User Session Identification Based on Strong Regularities in Inter-activity Time http://arxiv.org/abs/1411.2878 <strong>Abstract</strong> Session identification is a common strategy used to develop metrics for web analytics and behavioral analyses of user-facing systems. Past work has argued that session identification strategies based on an inactivity threshold is inherently arbitrary or advocated that thresholds be set at about 30 minutes. In this work, we demonstrate a strong regularity in the temporal rhythms of user initiated events across several different domains of online activity (incl. video gaming, search, page views and volunteer contributions). We describe a methodology for identifying clusters of user activity and argue that regularity with which these activity clusters appear implies a good rule-of-thumb inactivity threshold of about 1 hour. We conclude with implications that these temporal rhythms may have for system design based on our observations and theories of goal-directed human activity.
DOI: 10.6084/m9.figshare.1291008
title: Anscombe's quartet

description: Anscombe's quartet: raw data & R script.
DOI: 10.6084/m9.figshare.1290999
title: The Catalan Teaching Tool – A Learning Process Design for Supplemental Instruction and Learning Process Facilitation

description: ABSTRACTThis paper is based on a supplemental instruction technique aimed at disseminating a difficult concept at the undergraduate level. The software developed as a teaching tool attacks the problem from an intuitive perspective with the aid of visual tools. The tool, run as an experiment, conclusively proves that the original problem of calculating the number of paths from a point (0, 0) to any point (<i>n</i>, <i>n</i>) on a graph might be better understood. The moves can only be east and north in whole number increments and cannot exceed the <i>x</i> = <i>y</i> line at any point. A program is written to produce the graph. Incrementing the value of (<i>n</i>, <i>n</i>), the Catalan number series is produced. Another program is written using the formula which produces the Catalan numbers, and the growth of the series is determined. The teaching tool is created based on the algorithm. A robot is designed which follows the Catalan path is also demonstrated. A survey conducted using this teaching tool shows that it enhances the learning and understanding of Catalan numbers.
DOI: 10.6084/m9.figshare.1290997
title: Clinicopathological Features, Nodal Metastasis and Outcome in 333 Cases of Penile Squamous Cell Carcinoma

description: Dataset containg clinicopathologic and outcome data from 333 patients with invasive penile squamous cell carcinomas. The complete analysis of this dataset has been published in <em>J Urol</em> 2009;182(2):528-34. <strong>Codebook: </strong><em>ID:</em> Case identification number; <em>Procedure:</em> Surgical procedure used for primary treatment; <em>Grade:</em> Histologic grade; <em>Subtype:</em> Histologic subtype; <em>Glans:</em> Tumor invasion of penile glans; <em>Sulcus:</em> Tumor invasion of penile coronal sulcus; <em>Foreskin:</em> Tumor invasion of foreskin; <em>Level:</em> anatomical level of tumor invasion; <em>Thickness:</em> Tumor thickness in mm; <em>Size:</em> Tumor size in cm; <em>Age:</em> Patient's age in years; <em>Lymphadenectomy:</em> Bilateral inguinal lymphadenectomy; <em>Mets:</em> Metastasis to inguinal lymph nodes; <em>Urethra:</em> Tumor invasion of penile urethra; <em>Vascular:</em> Pesence of vascular invasion in primary tumor; <em>Perineural:</em> Presence of perineural invasion in primary tumor; <em>pT</em>: AJCC pathological stage of primary tumor; <em>Relapse:</em> Presence of tumor relapse during follow-up; <em>Local:</em> Presence of local relapse (v.g., on stump); <em>Regional:</em> Presence of regional relapse (v.g., regional lymph nodes); <em>Systemic:</em> Presence of systemic relapse (v.g., systemic lymph nodes, visceral metastasis); <em>FollowUp:</em> follow-up lengh from primary treatment in months; <em>Outcome:</em> Patient's final outcome at last follow-up; <em>cN:</em> clinical stage of inguinal lymph nodes.
DOI: 10.6084/m9.figshare.1290999.v1
title: The Catalan Teaching Tool – A Learning Process Design for Supplemental Instruction and Learning Process Facilitation

description: ABSTRACTThis paper is based on a supplemental instruction technique aimed at disseminating a difficult concept at the undergraduate level. The software developed as a teaching tool attacks the problem from an intuitive perspective with the aid of visual tools. The tool, run as an experiment, conclusively proves that the original problem of calculating the number of paths from a point (0, 0) to any point (<i>n</i>, <i>n</i>) on a graph might be better understood. The moves can only be east and north in whole number increments and cannot exceed the <i>x</i> = <i>y</i> line at any point. A program is written to produce the graph. Incrementing the value of (<i>n</i>, <i>n</i>), the Catalan number series is produced. Another program is written using the formula which produces the Catalan numbers, and the growth of the series is determined. The teaching tool is created based on the algorithm. A robot is designed which follows the Catalan path is also demonstrated. A survey conducted using this teaching tool shows that it enhances the learning and understanding of Catalan numbers.
DOI: 10.6084/m9.figshare.1290995
title: Gaussian Job Archive for C42H46N6O6

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.1290995.v1
title: Gaussian Job Archive for C42H46N6O6

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.1290997.v2
title: Clinicopathological Features, Nodal Metastasis and Outcome in 333 Cases of Penile Squamous Cell Carcinoma

description: Dataset containg clinicopathologic and outcome data from 333 patients with invasive penile squamous cell carcinomas. The complete analysis of this dataset has been published in <em>J Urol</em> 2009;182(2):528-34. <strong>Codebook: </strong><em>ID:</em> Case identification number; <em>Procedure:</em> Surgical procedure used for primary treatment; <em>Grade:</em> Histologic grade; <em>Subtype:</em> Histologic subtype; <em>Glans:</em> Tumor invasion of penile glans; <em>Sulcus:</em> Tumor invasion of penile coronal sulcus; <em>Foreskin:</em> Tumor invasion of foreskin; <em>Level:</em> anatomical level of tumor invasion; <em>Thickness:</em> Tumor thickness in mm; <em>Size:</em> Tumor size in cm; <em>Age:</em> Patient's age in years; <em>Lymphadenectomy:</em> Bilateral inguinal lymphadenectomy; <em>Mets:</em> Metastasis to inguinal lymph nodes; <em>Urethra:</em> Tumor invasion of penile urethra; <em>Vascular:</em> Pesence of vascular invasion in primary tumor; <em>Perineural:</em> Presence of perineural invasion in primary tumor; <em>pT</em>: AJCC pathological stage of primary tumor; <em>Relapse:</em> Presence of tumor relapse during follow-up; <em>Local:</em> Presence of local relapse (v.g., on stump); <em>Regional:</em> Presence of regional relapse (v.g., regional lymph nodes); <em>Systemic:</em> Presence of systemic relapse (v.g., systemic lymph nodes, visceral metastasis); <em>FollowUp:</em> follow-up lengh from primary treatment in months; <em>Outcome:</em> Patient's final outcome at last follow-up.
DOI: 10.6084/m9.figshare.1290977
title: ACEMD Simulation Inputs for Benzamidine-Trypsin Ensemble

description: An example set of inputs for an ensemble of 10 ACEMD simulations for the benzamidine-trypsin model system. Provided as a test set for AceCloud
DOI: 10.6084/m9.figshare.1290999.v2
title: The Catalan Teaching Tool – A Learning Process Design for Supplemental Instruction and Learning Process Facilitation

description: ABSTRACTThis paper is based on a supplemental instruction technique aimed at disseminating a difficult concept at the undergraduate level. The software developed as a teaching tool attacks the problem from an intuitive perspective with the aid of visual tools. The tool, run as an experiment, conclusively proves that the original problem of calculating the number of paths from a point (0, 0) to any point (<i>n</i>, <i>n</i>) on a graph might be better understood. The moves can only be east and north in whole number increments and cannot exceed the <i>x</i> = <i>y</i> line at any point. A program is written to produce the graph. Incrementing the value of (<i>n</i>, <i>n</i>), the Catalan number series is produced. Another program is written using the formula which produces the Catalan numbers, and the growth of the series is determined. The teaching tool is created based on the algorithm. A robot is designed which follows the Catalan path is also demonstrated. A survey conducted using this teaching tool shows that it enhances the learning and understanding of Catalan numbers.
DOI: 10.6084/m9.figshare.1290977.v1
title: ACEMD Simulation Inputs for Benzamidine-Trypsin Ensemble

description: An example set of inputs for an ensemble of 10 ACEMD simulations for the benzamidine-trypsin model system. Provided as a test set for AceCloud
DOI: 10.6084/m9.figshare.1290997.v3
title: Clinicopathological Features, Nodal Metastasis and Outcome in 333 Cases of Penile Squamous Cell Carcinoma

description: Dataset containg clinicopathologic and outcome data from 333 patients with invasive penile squamous cell carcinomas. The complete analysis of this dataset has been published in <em>J Urol</em> 2009;182(2):528-34. <strong>Codebook: </strong><em>ID:</em> Case identification number; <em>Procedure:</em> Surgical procedure used for primary treatment; <em>Grade:</em> Histologic grade; <em>Subtype:</em> Histologic subtype; <em>Glans:</em> Tumor invasion of penile glans; <em>Sulcus:</em> Tumor invasion of penile coronal sulcus; <em>Foreskin:</em> Tumor invasion of foreskin; <em>Level:</em> anatomical level of tumor invasion; <em>Thickness:</em> Tumor thickness in mm; <em>Size:</em> Tumor size in cm; <em>Age:</em> Patient's age in years; <em>Lymphadenectomy:</em> Bilateral inguinal lymphadenectomy; <em>Mets:</em> Metastasis to inguinal lymph nodes; <em>Urethra:</em> Tumor invasion of penile urethra; <em>Vascular:</em> Pesence of vascular invasion in primary tumor; <em>Perineural:</em> Presence of perineural invasion in primary tumor; <em>pT</em>: AJCC pathological stage of primary tumor; <em>Relapse:</em> Presence of tumor relapse during follow-up; <em>Local:</em> Presence of local relapse (v.g., on stump); <em>Regional:</em> Presence of regional relapse (v.g., regional lymph nodes); <em>Systemic:</em> Presence of systemic relapse (v.g., systemic lymph nodes, visceral metastasis); <em>FollowUp:</em> follow-up lengh from primary treatment in months; <em>Outcome:</em> Patient's final outcome at last follow-up; <em>cN:</em> clinical stage of inguinal lymph nodes.
DOI: 10.6084/m9.figshare.1290999.v4
title: The Catalan Teaching Tool – A Learning Process Design for Supplemental Instruction and Learning Process Facilitation

description: ABSTRACTThis paper is based on a supplemental instruction technique aimed at disseminating a difficult concept at the undergraduate level. The software developed as a teaching tool attacks the problem from an intuitive perspective with the aid of visual tools. The tool, run as an experiment, conclusively proves that the original problem of calculating the number of paths from a point (0, 0) to any point (<i>n</i>, <i>n</i>) on a graph might be better understood. The moves can only be east and north in whole number increments and cannot exceed the <i>x</i> = <i>y</i> line at any point. A program is written to produce the graph. Incrementing the value of (<i>n</i>, <i>n</i>), the Catalan number series is produced. Another program is written using the formula which produces the Catalan numbers, and the growth of the series is determined. The teaching tool is created based on the algorithm. A robot is designed which follows the Catalan path is also demonstrated. A survey conducted using this teaching tool shows that it enhances the learning and understanding of Catalan numbers.
DOI: 10.6084/m9.figshare.1290944
title: Opening up your science - including computer science

description: Transparency and knowledge availability are essential in science. The construction of knowledge is a community-oriented, cooperative and competitive activity. The scientific method mainly consists of activities related to data. Such activities perform data collection, analysis, publication, critique, and reuse. Therefore, the access to the data, software, and work of others is necessary in order to evaluate the work, to replicate it, and to build upon that knowledge. Knowledge secures the current scientific beliefs, but also causes paradigm shifts and revolutionizes current beliefs. However, many barriers impede a broad dissemination of data, software, and scientific knowledge. This talk is the author's sharing of his experience in open science practicing and understanding. The participants will have the opportunity to learn about the widely unnoticed scarcity of knowledge, how open science copes with this scarcity of knowledge with open access, open data, and open source, what are the licenses for open up scientific knowledge and how to make sense of them, and some crazily good, innovative, technological projects to foster open science and a better science in general.
DOI: 10.6084/m9.figshare.1290999.v3
title: The Catalan Teaching Tool – A Learning Process Design for Supplemental Instruction and Learning Process Facilitation

description: ABSTRACTThis paper is based on a supplemental instruction technique aimed at disseminating a difficult concept at the undergraduate level. The software developed as a teaching tool attacks the problem from an intuitive perspective with the aid of visual tools. The tool, run as an experiment, conclusively proves that the original problem of calculating the number of paths from a point (0, 0) to any point (<i>n</i>, <i>n</i>) on a graph might be better understood. The moves can only be east and north in whole number increments and cannot exceed the <i>x</i> = <i>y</i> line at any point. A program is written to produce the graph. Incrementing the value of (<i>n</i>, <i>n</i>), the Catalan number series is produced. Another program is written using the formula which produces the Catalan numbers, and the growth of the series is determined. The teaching tool is created based on the algorithm. A robot is designed which follows the Catalan path is also demonstrated. A survey conducted using this teaching tool shows that it enhances the learning and understanding of Catalan numbers.
DOI: 10.6084/m9.figshare.1290943
title: Cretaceous metamorphism, magmatism and shearing in the Waipuna Valley, directly south of the Reefton Goldfield

description: Rocks in the Waipuna Valley in Westland show that the area immediately south of the Reefton Goldfield has been dramatically affected by Cretaceous tectonism. The main lithology in the Waipuna Valley is metasedimentary Greenland Group that is here subdivided into four types (I, II, III and IV). Type I contains abundant detrital grains with a weak Palaeozoic greenschist facies overprint and is compositionally indistinguishable from unmineralised Greenland Group within the goldfield. Type II contains detrital grains, but also a weak amphibolite facies foliation or, where proximal to granitoid intrusions, a hornfelsic texture. Type III contains no detrital components and records polyphase recrystallisation. U–Th–Pb monazite dating indicates that metamorphism in the Type III rocks occurred, at least in part, at 108.1 ± 1.2 Ma. Type IV Greenland Group has partially melted. Zircon from granitoids intruding Greenland Group in the Waipuna Valley indicate Cretaceous (c. 111 Ma) emplacement. Greenland Group Types III and IV, and the granitic plutons, have been variably sheared with quartz textures indicating progressive cooling during deformation. A mylonite zone occurs just above outcrop of the Type IV rocks. Field and age relationships are interpreted to show that the Waipuna Valley exposes portions of an upper plate and lower plate to a Cretaceous ductile shear zone that is here named the Waipuna Shear Zone. The overall structure is similar to the nearby Cretaceous extensional Paparoa Metamorphic Core Complex. The Reefton Goldfield lies in the upper plate to the Waipuna Shear Zone, not far above the mylonite zone. Cretaceous metamorphism and shearing of Greenland Group could have aided formation and then transport of gold-bearing fluids into structurally higher rocks.
DOI: 10.6084/m9.figshare.1290997.v4
title: Clinicopathological Features, Nodal Metastasis and Outcome in 333 Cases of Penile Squamous Cell Carcinoma

description: Dataset containg clinicopathologic and outcome data from 333 patients with invasive penile squamous cell carcinomas. The complete analysis of this dataset has been published in <em>J Urol</em> 2009;182(2):528-34. <strong>Codebook: </strong><em>ID:</em> Case identification number; <em>Procedure:</em> Surgical procedure used for primary treatment; <em>Grade:</em> Histologic grade; <em>Subtype:</em> Histologic subtype; <em>Glans:</em> Tumor invasion of penile glans; <em>Sulcus:</em> Tumor invasion of penile coronal sulcus; <em>Foreskin:</em> Tumor invasion of foreskin; <em>Level:</em> anatomical level of tumor invasion; <em>Thickness:</em> Tumor thickness in mm; <em>Size:</em> Tumor size in cm; <em>Age:</em> Patient's age in years; <em>Lymphadenectomy:</em> Bilateral inguinal lymphadenectomy; <em>Mets:</em> Metastasis to inguinal lymph nodes; <em>Urethra:</em> Tumor invasion of penile urethra; <em>Vascular:</em> Pesence of vascular invasion in primary tumor; <em>Perineural:</em> Presence of perineural invasion in primary tumor; <em>pT</em>: AJCC pathological stage of primary tumor; <em>Relapse:</em> Presence of tumor relapse during follow-up; <em>Local:</em> Presence of local relapse (v.g., on stump); <em>Regional:</em> Presence of regional relapse (v.g., regional lymph nodes); <em>Systemic:</em> Presence of systemic relapse (v.g., systemic lymph nodes, visceral metastasis); <em>FollowUp:</em> follow-up lengh from primary treatment in months; <em>Outcome:</em> Patient's final outcome at last follow-up; <em>cN:</em> clinical stage of inguinal lymph nodes.