cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.4522895.v3
title: Australian Employee Salary/Wages DATAbase by detailed occupation, location and year (2002-14); (plus Sole Traders)

description: The ATO (Australian Tax Office) made a dataset openly available (see links) showing all the Australian Salary and Wages (2002, 2006, 2010, 2014) by detailed occupation (around 1,000) and over 100 SA4 regions. Sole Trader sales and earnings are also provided. This open data (csv) is now packaged into a database (*.sql) with 45 sample SQL queries (backupSQL[date]_public.txt).<br>See more description at related Figshare #datavis record. <br>#dataTotals - Salary and WagesYearWorkers (M)Earnings ($B) 20028.5285<br>20069.4372<br>201010.2481<br>201410.3584<br><br><br>#dataTotal - Sole TradersYearWorkers (M)Sales ($B)Earnings ($B)20020.9611320061.0881920101.11122620141.19630<br>#links See ATO request for data at ideascale link below.See original csv open data set (CC-BY) at data.gov.au link below.This database was used to create maps of change in regional employment - see Figshare link below (m9.figshare.4056282).<br>#packageThis file package contains a database (analysing the open data) in SQL package and sample SQL text, interrogating the DB. DB name: test. There are 20 queries relating to Salary and Wages.<br>#analysisThe database was analysed and outputs provided on Nectar(.org.au) resources at: http://118.138.240.130.This is only resourced for max 1 year, from July 2016, so will expire in June 2017. Hence the filing here. The sample home page is provided here (and pdf), but not all the supporting files, which may be packaged and added later. Until then all files are available at the Nectar URL.<br>#installIMPORT: DB SQL dump e.g. test_2016-12-20.sql (14.8Mb)1.Started MAMP on OSX.1.1 Go to PhpMyAdmin2. New Database: 3. Import: Choose file: test_2016-12-20.sql -&gt; Go (about 15-20 seconds on MacBookPro 16Gb, 2.3 Ghz i5)4. four tables appeared: jobTitles 3,208 rows | salaryWages 209,697 rows | soleTrader 97,209 rows | stateNames 9 rowsplus views e.g. deltahair, Industrycodes, states5. Run test query under **#; Sum of Salary by SA4 e.g. 101 $4.7B, 102 $6.9B<br>#sampleSQLselect sa4,<br>(select sum(count) from salaryWageswhere year = '2014' and sa4 = sw.sa4) as thisYr14,<br>(select sum(count) from salaryWageswhere year = '2010' and sa4 = sw.sa4) as thisYr10,<br>(select sum(count) from salaryWageswhere year = '2006' and sa4 = sw.sa4) as thisYr06,<br>(select sum(count) from salaryWageswhere year = '2002' and sa4 = sw.sa4) as thisYr02<br>from salaryWages sw<br>group by sa4order by sa4
DOI: 10.6084/m9.figshare.4522895.v4
title: Australian Employee Salary/Wages DATAbase by detailed occupation, location and year (2002-14); (plus Sole Traders)

description: The ATO (Australian Tax Office) made a dataset openly available (see links) showing all the Australian Salary and Wages (2002, 2006, 2010, 2014) by detailed occupation (around 1,000) and over 100 SA4 regions. Sole Trader sales and earnings are also provided. This open data (csv) is now packaged into a database (*.sql) with 45 sample SQL queries (backupSQL[date]_public.txt).<br>See more description at related Figshare #datavis record. <br>#dataTotals - Salary and WagesYearWorkers (M)Earnings ($B) 20028.5285<br>20069.4372<br>201010.2481<br>201410.3584<br><br><br>#dataTotal - Sole TradersYearWorkers (M)Sales ($B)Earnings ($B)20020.9611320061.0881920101.11122620141.19630<br>#links See ATO request for data at ideascale link below.See original csv open data set (CC-BY) at data.gov.au link below.This database was used to create maps of change in regional employment - see Figshare link below (m9.figshare.4056282).<br>#packageThis file package contains a database (analysing the open data) in SQL package and sample SQL text, interrogating the DB. DB name: test. There are 20 queries relating to Salary and Wages.<br>#analysisThe database was analysed and outputs provided on Nectar(.org.au) resources at: http://118.138.240.130.(offline)This is only resourced for max 1 year, from July 2016, so will expire in June 2017. Hence the filing here. The sample home page is provided here (and pdf), but not all the supporting files, which may be packaged and added later. Until then all files are available at the Nectar URL. Nectar URL now offline - server files attached as package (html_backup[date].zip), including php scripts, html, csv, jpegs.<br>#installIMPORT: DB SQL dump e.g. test_2016-12-20.sql (14.8Mb)1.Started MAMP on OSX.1.1 Go to PhpMyAdmin2. New Database: 3. Import: Choose file: test_2016-12-20.sql -&gt; Go (about 15-20 seconds on MacBookPro 16Gb, 2.3 Ghz i5)4. four tables appeared: jobTitles 3,208 rows | salaryWages 209,697 rows | soleTrader 97,209 rows | stateNames 9 rowsplus views e.g. deltahair, Industrycodes, states5. Run test query under **#; Sum of Salary by SA4 e.g. 101 $4.7B, 102 $6.9B<br>#sampleSQLselect sa4,<br>(select sum(count) from salaryWageswhere year = '2014' and sa4 = sw.sa4) as thisYr14,<br>(select sum(count) from salaryWageswhere year = '2010' and sa4 = sw.sa4) as thisYr10,<br>(select sum(count) from salaryWageswhere year = '2006' and sa4 = sw.sa4) as thisYr06,<br>(select sum(count) from salaryWageswhere year = '2002' and sa4 = sw.sa4) as thisYr02<br>from salaryWages sw<br>group by sa4order by sa4
DOI: 10.6084/m9.figshare.4522787
title: Properties of adaptive clinical trial signature design in the presence of gene and gene-treatment interaction

description: Traditional phase III clinical trials are powered to detect an overall treatment effect. However, it has increasingly been shown that many treatments are effective only for a subset of a population. The adaptive signature design uses genomic/proteomic information to prospectively predict a subset of patients more sensitive to treatment. Tests for overall treatment effect and for treatment effect in the predicted subset are conducted. In this work properties of the adaptive signature design are investigated through simulation. It was found that models which excluded expression main effect terms had higher empirical power than models which included them.
DOI: 10.6084/m9.figshare.4522787.v2
title: Properties of adaptive clinical trial signature design in the presence of gene and gene-treatment interaction

description: Traditional phase III clinical trials are powered to detect an overall treatment effect. However, it has increasingly been shown that many treatments are effective only for a subset of a population. The adaptive signature design uses genomic/proteomic information to prospectively predict a subset of patients more sensitive to treatment. Tests for overall treatment effect and for treatment effect in the predicted subset are conducted. In this work properties of the adaptive signature design are investigated through simulation. It was found that models which excluded expression main effect terms had higher empirical power than models which included them.
DOI: 10.6084/m9.figshare.4522787.v1
title: Properties Of Adaptive Clinical Trial Signature Design In The Presence Of Gene And Gene -Treatment Interaction

description: Traditional phase III clinical trials are powered to detect an overall treatment effect. However it has increasingly been shown that many treatments are effective only for a subset of a population. The adaptive signature design uses genomic/proteomic information to prospectively predict a subset of patients more sensitive to treatment. Tests for overall treatment effect and for treatment effect in the predicted subset are conducted. In this work properties of the adaptive signature design are investigated through simulation. It was found that models which excluded expression main effect terms had higher empirical power than models which included them.
DOI: 10.6084/m9.figshare.4522760
title: Longtime and Adult K-pop Fan Survey: Preliminary Data

description: 192 responses collected 9/9/2016 - 11/7/2016 in answer to the query: "Please list your bias (i.e. favorite) K-pop groups and solo artists and briefly explain why you like them."
DOI: 10.6084/m9.figshare.4522751
title: Gene length as a biological timer to establish temporal transcriptional regulation

description: Transcriptional timing is inherently influenced by gene length, thus providing a mechanism for temporal regulation of gene expression. While gene size has been shown to be important for the expression timing of specific genes during early development, whether it plays a role in the timing of other global gene expression programs has not been extensively explored. Here, we investigate the role of gene length during the early transcriptional response of human fibroblasts to serum stimulation. Using the nascent sequencing techniques Bru-seq and BruUV-seq, we identified immediate genome-wide transcriptional changes following serum stimulation that were linked to rapid activation of enhancer elements. We identified 873 significantly induced and 209 significantly repressed genes. Variations in gene size allowed for a large group of genes to be simultaneously activated but produce full-length RNAs at different times. The median length of the group of serum-induced genes was significantly larger than the median length of all expressed genes, housekeeping genes, and serum-repressed genes. These gene length relationships were also observed in corresponding mouse orthologs, suggesting that relative gene size is evolutionarily conserved. The sizes of transcription factor and microRNA genes immediately induced after serum stimulation varied dramatically, setting up a cascade mechanism for temporal expression arising from a single activation event. The retention and expansion of large intronic sequences during evolution have likely played important roles in fine-tuning the temporal expression of target genes in various cellular response programs.
DOI: 10.6084/m9.figshare.4522748
title: Autophagy orchestrates adaptive responses to targeted therapy in endometrial cancer

description: Targeted therapies in endometrial cancer (EC) using kinase inhibitors rarely result in complete tumor remission and are frequently challenged by the appearance of refractory cell clones, eventually resulting in disease relapse. Dissecting adaptive mechanisms is of vital importance to circumvent clinical drug resistance and improve the efficacy of targeted agents in EC. Sorafenib is an FDA-approved multitarget tyrosine and serine/threonine kinase inhibitor currently used to treat hepatocellular carcinoma, advanced renal carcinoma and radioactive iodine-resistant thyroid carcinoma. Unfortunately, sorafenib showed very modest effects in a multi-institutional phase II trial in advanced uterine carcinoma patients. Here, by leveraging RNA-sequencing data from the Cancer Cell Line Encyclopedia and cell survival studies from compound-based high-throughput screenings we have identified the lysosomal pathway as a potential compartment involved in the resistance to sorafenib. By performing additional functional biology studies we have demonstrated that this resistance could be related to macroautophagy/autophagy. Specifically, our results indicate that sorafenib triggers a mechanistic MAPK/JNK-dependent early protective autophagic response in EC cells, providing an adaptive response to therapeutic stress. By generating in vivo subcutaneous EC cell line tumors, lung metastatic assays and primary EC orthoxenografts experiments, we demonstrate that targeting autophagy enhances sorafenib cytotoxicity and suppresses tumor growth and pulmonary metastasis progression. In conclusion, sorafenib induces the activation of a protective autophagic response in EC cells. These results provide insights into the unopposed resistance of advanced EC to sorafenib and highlight a new strategy for therapeutic intervention in recurrent EC.
DOI: 10.6084/m9.figshare.4522748.v1
title: Autophagy orchestrates adaptive responses to targeted therapy in endometrial cancer

description: Targeted therapies in endometrial cancer (EC) using kinase inhibitors rarely result in complete tumor remission and are frequently challenged by the appearance of refractory cell clones, eventually resulting in disease relapse. Dissecting adaptive mechanisms is of vital importance to circumvent clinical drug resistance and improve the efficacy of targeted agents in EC. Sorafenib is an FDA-approved multitarget tyrosine and serine/threonine kinase inhibitor currently used to treat hepatocellular carcinoma, advanced renal carcinoma and radioactive iodine-resistant thyroid carcinoma. Unfortunately, sorafenib showed very modest effects in a multi-institutional phase II trial in advanced uterine carcinoma patients. Here, by leveraging RNA-sequencing data from the Cancer Cell Line Encyclopedia and cell survival studies from compound-based high-throughput screenings we have identified the lysosomal pathway as a potential compartment involved in the resistance to sorafenib. By performing additional functional biology studies we have demonstrated that this resistance could be related to macroautophagy/autophagy. Specifically, our results indicate that sorafenib triggers a mechanistic MAPK/JNK-dependent early protective autophagic response in EC cells, providing an adaptive response to therapeutic stress. By generating in vivo subcutaneous EC cell line tumors, lung metastatic assays and primary EC orthoxenografts experiments, we demonstrate that targeting autophagy enhances sorafenib cytotoxicity and suppresses tumor growth and pulmonary metastasis progression. In conclusion, sorafenib induces the activation of a protective autophagic response in EC cells. These results provide insights into the unopposed resistance of advanced EC to sorafenib and highlight a new strategy for therapeutic intervention in recurrent EC.
DOI: 10.6084/m9.figshare.4522760.v1
title: Longtime and Adult K-pop Fan Survey: Favorite Artists

description: 192 responses collected 9/9/2016 - 11/7/2016 in answer to the query: "Please list your bias (i.e. favorite) K-pop groups and solo artists and briefly explain why you like them."
DOI: 10.6084/m9.figshare.4522724
title: Preliminary investigation of Brain Network Activation (BNA) and its clinical utility in sport-related concussion

description: <i>Background</i>: The clinical diagnosis and management of patients with sport-related concussion is largely dependent on subjectively reported symptoms, clinical examinations, cognitive, balance, vestibular and oculomotor testing. Consequently, there is an unmet need for objective assessment tools that can identify the injury from a physiological perspective and add an important layer of information to the clinician’s decision-making process. <i>Objective</i>: The goal of the study was to evaluate the clinical utility of the EEG-based tool named Brain Network Activation (BNA) as a longitudinal assessment method of brain function in the management of young athletes with concussion. <i>Methods</i>: Athletes with concussion (<i>n</i> = 86) and age-matched controls (<i>n</i> = 81) were evaluated at four time points with symptom questionnaires and BNA. BNA scores were calculated by comparing functional networks to a previously defined normative reference brain network model to the same cognitive task. <i>Results</i>: Subjects above 16 years of age exhibited a significant decrease in BNA scores immediately following injury, as well as notable changes in functional network activity, relative to the controls. Three representative case studies of the tested population are discussed in detail, to demonstrate the clinical utility of BNA. <i>Conclusion</i>: The data support the utility of BNA to augment clinical examinations, symptoms and additional tests by providing an effective method for evaluating objective electrophysiological changes associated with sport-related concussions.
DOI: 10.6084/m9.figshare.4522724.v2
title: Preliminary investigation of Brain Network Activation (BNA) and its clinical utility in sport-related concussion

description: <i>Background</i>: The clinical diagnosis and management of patients with sport-related concussion is largely dependent on subjectively reported symptoms, clinical examinations, cognitive, balance, vestibular and oculomotor testing. Consequently, there is an unmet need for objective assessment tools that can identify the injury from a physiological perspective and add an important layer of information to the clinician’s decision-making process. <i>Objective</i>: The goal of the study was to evaluate the clinical utility of the EEG-based tool named Brain Network Activation (BNA) as a longitudinal assessment method of brain function in the management of young athletes with concussion. <i>Methods</i>: Athletes with concussion (<i>n</i> = 86) and age-matched controls (<i>n</i> = 81) were evaluated at four time points with symptom questionnaires and BNA. BNA scores were calculated by comparing functional networks to a previously defined normative reference brain network model to the same cognitive task. <i>Results</i>: Subjects above 16 years of age exhibited a significant decrease in BNA scores immediately following injury, as well as notable changes in functional network activity, relative to the controls. Three representative case studies of the tested population are discussed in detail, to demonstrate the clinical utility of BNA. <i>Conclusion</i>: The data support the utility of BNA to augment clinical examinations, symptoms and additional tests by providing an effective method for evaluating objective electrophysiological changes associated with sport-related concussions.
DOI: 10.6084/m9.figshare.4522724.v1
title: Preliminary investigation of Brain Network Activation (BNA) and its clinical utility in sport-related concussion

description: <i>Background</i>: The clinical diagnosis and management of patients with sport-related concussion is largely dependent on subjectively reported symptoms, clinical examinations, cognitive, balance, vestibular and oculomotor testing. Consequently, there is an unmet need for objective assessment tools that can identify the injury from a physiological perspective and add an important layer of information to the clinician’s decision-making process. <i>Objective</i>: The goal of the study was to evaluate the clinical utility of the EEG-based tool named Brain Network Activation (BNA) as a longitudinal assessment method of brain function in the management of young athletes with concussion. <i>Methods</i>: Athletes with concussion (<i>n</i> = 86) and age-matched controls (<i>n</i> = 81) were evaluated at four time points with symptom questionnaires and BNA. BNA scores were calculated by comparing functional networks to a previously defined normative reference brain network model to the same cognitive task. <i>Results</i>: Subjects above 16 years of age exhibited a significant decrease in BNA scores immediately following injury, as well as notable changes in functional network activity, relative to the controls. Three representative case studies of the tested population are discussed in detail, to demonstrate the clinical utility of BNA. <i>Conclusion</i>: The data support the utility of BNA to augment clinical examinations, symptoms and additional tests by providing an effective method for evaluating objective electrophysiological changes associated with sport-related concussions.
DOI: 10.5281/zenodo.3743500
title: A Database of Geometric Albedo Spectra for Rocky Exoplanets

description: Here we present a database of albedo spectra for rocky, Earth-sized and Earth-mass exoplanets, as computed with the NASA Planetary Spectrum Generator tool (psg.gsfc.nasa.gov; Villanueva et al. 2018). The database is presented in two Python .pickle files containing pandas DataFrame objects. The DataFrame index values are wavelength, in micrometers; while the column name values contain the encoded parameters represented in the model object's albedo spectra contained with in that column. Each cell then gives the calculated geometric albedo value for the column-named model planet at the row-indicated wavelength. Two files are presented. One contains models with clouds; one contains models without clouds. To decode the column names, using a Python string.format function. For cloudy models, the format is: <pre><code class="language-python">ColName='{}{}H2{}_R1.0g9.8P{}A{}r10l{}ct{}f0.1'.format(Cdom,Cmix,H2mix,P0,As,Mcld,Ctop)</code></pre> For cloud-free models, the final two parameters are not used. Thus, the correct format is: <pre><code class="language-python">ColName='{}{}H2{}_R1.0g9.8P{}A{}'.format(Cdom,Cmix,H2mix,P0,As)</code></pre> Here, the parameters are as follows: <strong>Cdom</strong>: The name of the dominant absorbing chemical in the atmosphere. Accepted values are H2O, CH4, CO2, SO2, and O2. <strong>Cmix</strong>: The log<sub>10</sub> of the mixing value of the dominant chemical in the atmosphere. Accepted values are [-7.0,-6.0,-5.0,-4.0,-3.0,-2.0,-1.0,-0.01]. <strong>H2mix</strong>: The mixing ratio of molecular hydrogen in the (otherwise) N2 background gas. Expressed as H2/(H2+N2). Accepted values are [0.0,0.02,0.05,0.15,0.5]. <strong>P0</strong>: The surface pressure of the planet, in log<sub>10</sub>(bars). Accepted values are [-1.0,-0.5,0.0,0.5,1.0,1.5,2.0] <strong>As</strong>: The grey, geometric albedo value of the surface of the planet. Accepted values are [0.05,0.2,0.35,0.5] <strong>Mcld</strong>: The linear cloud mass of cloud matter in the atmosphere, in log<sub>10</sub>(kg/m^2). Accepted values are [-3.0,-2.5,-2.0,-1.5,-1.0]. <strong>Ctop</strong>: The pressure at the top layer of the clouds. Acceptable values are [-2.0,-1.5,-1.0,-0.5,0.0,0.5,1.0]. Note that Ctop&lt;P0 for all models. Thus, an atmosphere with a pure N2 background gas and a 0.3% H<sub>2</sub>O mixing ratio, with 1 bar of surface pressure, 0.05 surface albedo, and 1 gram of cloud matter topping at 0.316 bars altitude would be named: <strong>H2O-3.0</strong>H2<strong>0.0</strong>_R1.0g9.8P<strong>0.0</strong>A<strong>0.05</strong>r10l<strong>-3.0</strong>ct<strong>-0.5</strong>f0.1 The database is described in Smith et al. (in review).