cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.4658728
title: Data Set 3: Transcription factors from the network based on statistically validated interactions missing in MTBC main lineages or sublineages.

description: Each row of the table corresponds to a mutation found in a TF of the regulatory network. Each row number agree with the number set in the Fig. S1A. Strain names came from a previous work. The RD column reffers to the Region of Difference (if any) associated to this TF's deletion. The regulatory influence in the network refers to the number of genes regulated by the mutated TF in network derived from H37Rv network. The column principal GO terms overrepressented on the subnetwork came from the Gene Set Enrichment Analysis performed over the genes regulated by the TF.
DOI: 10.6084/m9.figshare.4658731
title: Supplemental figures

description: This .pdf file contains the following supplementary figures: S1-S3.
DOI: 10.6084/m9.figshare.4658725
title: Data Set 1: Comparison of mean centralities and descriptive statistics between the TFOE derived network and the new proposed one.

description: Comparison of mean centralities and descriptive statistics between the TFOE derived network and the new proposed one. This table includes information about network statistics for two of the networks described in the main text.
DOI: 10.6084/m9.figshare.4658722
title: Data Set 2: Regulatory network obtained from statistically validated interactions.

description: The edges are directed the way TF -&gt; Target. The coefficient is a measure of the regulatory influence the TF has over the target gene. The sign of the interacions refers to a positive interaction (+) or to a negative interaction (-).<br>
DOI: 10.6084/m9.figshare.4658725.v1
title: Data Set 1: Comparison of mean centralities and descriptive statistics between the TFOE derived network and the new proposed one.

description: Comparison of mean centralities and descriptive statistics between the TFOE derived network (1) and the new proposed one. This table includes information about network statistics for two of the networks described in the main text.
DOI: 10.6084/m9.figshare.4658722.v1
title: Data Set 2: Regulatory network obtained from statistically validated interactions.

description: The edges are directed the way TF -&gt; Target. The coefficient is a measure of the regulatory influence the TF has over the target gene. The sign of the interacions refers to a positive interaction (+) or to a negative interaction (-).<br>
DOI: 10.17632/gykynsmmvc.1
title: Data for: Individual Differences in Comprehension of Contextualized Metaphors

description: Appendix I: Scoring Key for Literary Metaphor Comprehension Test Appendix II: Contexts Used in Metaphor Comprehension Test Appendix III: Examples of Literal Interpretations and Misinterpretations Full Superlab design of the three segments of the study Statistics Dataset Semantic Similarities Test
DOI: 10.17632/phzy3tmbzm.1
title: Villa & al 2020_IJP

description: Data from : "The transmission-blocking effects of antimalarial drugs revisited: fitness costs and sporontocidal effects of artesunate and sulfadoxine-pyrimethamine"; Villa M.; Buysse M.; Berthomieu A. and Rivero A. in INternational JOurnal for Parasitology 2020
DOI: 10.17632/gf3xjcmb44.1
title: Individual-based model: quantifying the effectiveness of agri-environment schemes for a grassland butterfly

description: This code for an individual-based model associated with the publication: Quantifying the effectiveness of agri-environment schemes for a grassland butterfly using individual-based models. The publication contains a detailed model description and conceptual model explaining processes in the IBM. The model is implemented in NetLogo. Evans, L.C., Sibly, R.M., Thorbek, P., Sims, I., Oliver, T.H. and Walters, R.J., 2019. Quantifying the effectiveness of agri-environment schemes for a grassland butterfly using individual-based models. Ecological Modelling, 411, p.108798.
DOI: 10.17632/s54xp3258n.1
title: Psoriasis is not associated with the risk of dementia: a population-based cohort study

description: Supplementary Table 1 Cox regression analysis of dementia incidence among psoriatic group receiving systemic and phototherapy
DOI: 10.6084/m9.figshare.4657531
title: Preparacion para Carerras Cientifica.pdf

description: Talk given in Mexico Feb 2017. Includes handout of programs for Mexican students. Espanol<br>
DOI: 10.6084/m9.figshare.4657531.v1
title: Preparacion para Carerras Cientifica.pdf

description: Talk given in Mexico Feb 2017. Includes handout of programs for Mexican students. Espanol<br>
DOI: 10.6084/m9.figshare.4657477
title: Antocha monticola

description: Distributional data for <i>A. monticola </i>from the EMEC. Figure of <i>A. monticola</i> wing.
DOI: 10.6084/m9.figshare.4657477.v1
title: Antocha monticola

description: Distributional data for <i>A. monticola </i>from the EMEC. Figure of <i>A. monticola</i> wing.
DOI: 10.6084/m9.figshare.4657456
title: mmc2_final.csv

description: The spreadsheet of indications found in the supplemental materials for this paper ( http://www.sciencedirect.com/science/article/pii/S1359644612002991) has been reformatted in an attempt to make the data more machine readable. <br>First, each unique drug-disease pair has been given its own row in the spreadsheet. To retain the metadata as to whether an indication was "original" or "repurposed", a new column, 'ind_type' has been added with this info. DrugBank IDs and Disease Ontology IDs have been mapped to as many indications as possible. This resulted in a 98% coverage of Drugs and an 85% coverage of diseases (by indication). <br>Indication descriptions have been reduced to the simple Disease Ontology name, or a shortened indication description where no DOID could be mapped. Several were left blank where no mapping could be determined. Indications which are clearly not diseases have been encapsulated in a double asterisk (e.g. **diagnostic imagining** or **analgesic**). The original text of the supplemental spreadsheet has also been retained in the column 'long_ind'.
DOI: 10.6084/m9.figshare.4657456.v1
title: mmc2_final.csv

description: The spreadsheet of indications found in the supplemental materials for this paper ( http://www.sciencedirect.com/science/article/pii/S1359644612002991) has been reformatted in an attempt to make the data more machine readable. <br>First, each unique drug-disease pair has been given its own row in the spreadsheet. To retain the metadata as to whether an indication was "original" or "repurposed", a new column, 'ind_type' has been added with this info. DrugBank IDs and Disease Ontology IDs have been mapped to as many indications as possible. This resulted in a 98% coverage of Drugs and an 85% coverage of diseases (by indication). <br>Indication descriptions have been reduced to the simple Disease Ontology name, or a shortened indication description where no DOID could be mapped. Several were left blank where no mapping could be determined. Indications which are clearly not diseases have been encapsulated in a double asterisk (e.g. **diagnostic imagining** or **analgesic**). The original text of the supplemental spreadsheet has also been retained in the column 'long_ind'.
DOI: 10.25345/c5wq97
title: MassIVE MSV000086059 - eEF2K inhibition synergizes with Glutaminase and eIF4EBP1 inhibitors to suppress triple-negative breast cancer cell growth; impact on the proteome
title: The eukaryotic elongation factor-2 kinase, eEF2K, restricts protein translation elongation, and was identified as a potential therapeutic target for diverse types of cancers including triple negative breast cancer (TNBC; PMID: 25330770). We have recently found that inhibition of eEF2K synergizes with depletion of eukaryotic translation initiation factor 4E-binding protein 1 (eIF4EBP1; 4E-BP1), a suppressor of eukaryotic protein translation initiation factor 4E (eIF4E), leading to effective growth suppression of TNBC cells in culture. We performed LC-MS/MS analysis following depletion of eEF2K and/or 4EBP in a TNBC cell line, Hs578t (YoungJun Ju & Eldad Zacksenhaus, manuscript in revisions). Depletion of these factors had overlapping effects on the proteome with the highest impact on Collagen containing extracellular matrix (e.g. COL1A1). The complete LC-MS/MS data sets (control vehicle; eEF2K-depletion, 4EBP1-depletion; combined eEF2k plus 4EBP1-depletion) are provided herein.
DOI: 10.6084/m9.figshare.4657408
title: Supplemental_Files.zip

description: Supplemental for doi: 10.1101/gr.213256.116
DOI: 10.6084/m9.figshare.4657408.v1
title: Supplemental_Files.zip

description: Supplemental for doi: 10.1101/gr.213256.116
DOI: 10.6084/m9.figshare.4657396
title: Supplementary Tables S6, S8, S9 and S10 from the paper Williams et al. "Integrative modelling of gene and genome evolution roots the archaeal tree of life."

description: These are supplementary tables S6-S10 from the paper "Integrative modelling of gene and genome evolution roots the archaeal tree of life."<br>
DOI: 10.6084/m9.figshare.4657396.v1
title: Table S6 from Williams et al. "Integrative modelling of gene and genome evolution roots the archaeal tree of life."

description: This is Table S6 from the paper "Integrative modelling of gene and genome evolution roots the archaeal tree of life."<br>
DOI: 10.6084/m9.figshare.4657195
title: Earth Analytics R: Week 6 - Intro to spectral remote sensing data to understand fire

description: Fire remote sensing data including<br><br>Landsat data<br>Modis Data<br>NAIP data<br><br>for the 2016 Coldsprings fire location near Nederland in Colorado. July 2016.<br>
DOI: 10.6084/m9.figshare.4657192
title: V4 16S sequencing of batch cultured vaginal microbiota in prebiotics

description: Vaginal microbiota from 4 subjects (2N, BZ, C9, N6) were collectively grown in vaginally-defined medium without glucose (o), or with 0.5% glucose (G), lactitol (tol), lactulose (lose), raffinose (R) or oligofructose (OF). Time points taken for V4 variable region of 16S rRNA sequencing by Illumina MiSeq were 0, 6, 12, 24, and 48 hours after inoculation.
DOI: 10.6084/m9.figshare.4655728
title: learn_final_r1.tar.gz

description: This is the dataset for the AI-Sec 2015 publication "Malicious Behavior Detection using Windows Audit Logs" by Konstantin Berlin, David Slater, and Joshua Saxe. This work will be presented on Friday October 16, 2015 at 2015 ACM Workshop on Artificial Intelligence and Security, which is co-located with CCS.The free pre-print of the publication can be found at http://arxiv.org/abs/1506.04200.
DOI: 10.6084/m9.figshare.4657192.v1
title: V4 16S sequencing of batch cultured vaginal microbiota in prebiotics

description: Vaginal microbiota from 4 subjects (2N, BZ, C9, N6) were collectively grown in vaginally-defined medium without glucose (o), or with 0.5% glucose (G), lactitol (tol), lactulose (lose), raffinose (R) or oligofructose (OF). Time points taken for V4 variable region of 16S rRNA sequencing by Illumina MiSeq were 0, 6, 12, 24, and 48 hours after inoculation.
DOI: 10.6084/m9.figshare.4654783
title: Raw Data for Tran and Pashler "Learning to Exploit a Hidden Predictor in Skill Acquisition: Tight Linkage to Conscious Awareness"

description: The spreadsheet contains the data for Experiments 1 and 2 in "Learning to Exploit a Hidden Predictor in Skill Acquisition: Tight Linkage to Conscious Awareness"
DOI: 10.6084/m9.figshare.4655728.v1
title: learn_final_r1.tar.gz

description: This is the dataset for the AI-Sec 2015 publication "Malicious Behavior Detection using Windows Audit Logs" by Konstantin Berlin, David Slater, and Joshua Saxe. This work will be presented on Friday October 16, 2015 at 2015 ACM Workshop on Artificial Intelligence and Security, which is co-located with CCS.The free pre-print of the publication can be found at http://arxiv.org/abs/1506.04200.
DOI: 10.6084/m9.figshare.4654552
title: Summary Report of the Sectoral Dialogue Sessions in Irish Higher Education

description: The National Forum are delighted to announce the publication of the report of the Sectoral Dialogue Session that took place in December 2013.
DOI: 10.6084/m9.figshare.12906473.v1
title: R0195_20171004a_videos

description: Rat 0195, skilled reaching data collected in Leventhal laboratory by Alexandra Bova
DOI: 10.6084/m9.figshare.4654540
title: Mapping professional development pathways for those who teach in Irish higher education: Where are we now and where do we want to go?

description: The National Forum has launched a consultation on proposals for the establishment and management of a professional development framework for those who teach in Irish higher education. The following consultation documents have been written to support this process.
DOI: 10.6084/m9.figshare.4654522
title: Teaching and Learning in Irish Education: A Roadmap for Enhancement in a Digital World 2015-2017

description: One of the key goals of the National Forum is, via wide consultation, to create a digital roadmap to help to guide institutions and organisations in the development of local and national digital strategies and to ensure alignment, coherence and a sense of common endeavour at a sectoral level.This document is designed to inform and guide senior managers, heads of department, schools or faculties and leaders within the higher education sector. It focuses also on systems-level higher education organisations, as well as representative organisations within the sector which together must take the lead in building digital capacity to enhance teaching and learning across the sector. The roadmap identifies the key priorities for change and provides an informed framework for supporting organisations in addressing these priorities.
DOI: 10.6084/m9.figshare.4654552.v2
title: Summary Report of the Sectoral Dialogue Sessions in Irish Higher Education

description: The National Forum are delighted to announce the publication of the report of the Sectoral Dialogue Session that took place in December 2013.
DOI: 10.6084/m9.figshare.4654540.v2
title: Mapping professional development pathways for those who teach in Irish higher education: Where are we now and where do we want to go?

description: The National Forum has launched a consultation on proposals for the establishment and management of a professional development framework for those who teach in Irish higher education. The following consultation documents have been written to support this process.
DOI: 10.6084/m9.figshare.4654462
title: Agro-ecological_zoning_Model

description: The text and the excel file give a brief description and example calculation of the Agro-ecological Zoning (AEZ) model applied to calculate the Yield Potential (Yp) of Arabica coffee. The Agro-ecological Zoning (AEZ) model was initially developed by Doorenbos & Kassam (1979). The model applied to Arabica coffee is described here, because it was not used in the final study, but might be of interest to other researchers.
DOI: 10.6084/m9.figshare.4654453
title: Sensitivity_Analysis

description: To gain insight on how the model reacts to changes of mean and minimum air temperatures and rainfall, a sensitivity analysis was carried out for three municipalities with a baseline climate from the years 1980-2010. These excel files were used to carry out the sensitivity analysis of the three municipalities.
DOI: 10.6084/m9.figshare.4654450
title: Yield_and_irrigation_Data

description: These excel files include the basic data of irrigation and yield for the relevant municipalities. The data was not collected, but downloaded from the relevant institutions, as cited in Verhage, F.Y.F., Anten, N.P.R. & Sentelhas, P.C. Climatic Change (2017). https://doi.org/10.1007/s10584-017-2068-z.
DOI: 10.6084/m9.figshare.4654444
title: Model_Simulations

description: These excel files and scripts were used to generate the model simulations as described in Verhage, F.Y.F., Anten, N.P.R. & Sentelhas, P.C. Climatic Change (2017). https://doi.org/10.1007/s10584-017-2068-z.
DOI: 10.6084/m9.figshare.4654438
title: Climate_Data

description: These excel files and scripts were used to process the climate data for the coffee yield simulations as described in Verhage, F.Y.F., Anten, N.P.R. & Sentelhas, P.C. Climatic Change (2017). https://doi.org/10.1007/s10584-017-2068-z. <br>The climate data originates from a database as described in:Xavier, A.C., King, C.W. & Scanlon, B.R. "Daily gridded meteorological variables in Brazil (1980-2013)" (2015) International Journal of Climatology, 2659 (October 2015), pp.2644–2659.
DOI: 10.6084/m9.figshare.4654462.v1
title: Agro-ecological_zoning_Model

description: The text and the excel file give a brief description and example calculation of the Agro-ecological Zoning (AEZ) model applied to calculate the Yield Potential (Yp) of Arabica coffee. The Agro-ecological Zoning (AEZ) model was initially developed by Doorenbos & Kassam (1979). The model applied to Arabica coffee is described here, because it was not used in the final study, but might be of interest to other researchers.
DOI: 10.6084/m9.figshare.4654429
title: Calibration_and_Validation

description: These files include the calculation of the calibration and validation of the Arabica coffee yield simulation model as described in Verhage, F.Y.F., Anten, N.P.R. & Sentelhas, P.C. Climatic Change (2017). https://doi.org/10.1007/s10584-017-2068-z
DOI: 10.6084/m9.figshare.4654429.v1
title: Calibration_and_Validation

description: These files include the calculation of the calibration and validation of the Arabica coffee yield simulation model as described in Verhage et al. (2017) (still in process of submission).
DOI: 10.17632/znfgfhpp5b.1
title: Northern hemisphere soil geochemistry
DOI: 10.6084/m9.figshare.4654084
title: Interdisciplinary Research Collaboration Recommendation Based on Weak Ties

description: The file includes the datasets and codes to conduct link prediction problem in recommending interdisciplinary research collaboration. The codes are written by R, and Python 2.7. If you have any questions, please contact us(oksir@hanmail.net).<br>Thanks,Won Kyung Lee
DOI: 10.6084/m9.figshare.4654084.v1
title: Interdisciplinary Research Collaboration Recommendation Based on Weak Ties

description: The file includes the datasets and codes to conduct link prediction problem in recommending interdisciplinary research collaboration. The codes are written by R, and Python 2.7. If you have any questions, please contact us(oksir@hanmail.net).<br>Thanks,Won Kyung Lee
DOI: 10.6084/m9.figshare.4654003
title: Supplementary Material for: A New Case of an Inherited Reciprocal Translocation in Cattle: rcp(13;26)(q24;q11)

description: This study reports on a unique balanced reciprocal chromosome translocation detected in a phenotypically normal cattle dam and her calf. CBG-, GTG-banding and FISH using bovine whole-chromosome and telomere probes were applied. The analyses showed that the breakpoints were located near to the centromere in chromosome 26 (q11) and exceptionally close to the telomere in chromosome 13 (q24). The whole euchromatin segment of chromosome 26 was translocated onto chromosome 13. The distal end of chromosome 13 was translocated to the subcentromeric region of chromosome 26. We describe this aberration as a balanced reciprocal translocation rcp(13;26)(q24;q11). It appears that this aberration was maternally derived and may have originated de novo in the dam.
DOI: 10.6084/m9.figshare.4653961
title: Supplementary Material for: Calibrating Longitudinal Cognition in Alzheimer's Disease Across Diverse Test Batteries and Datasets

description: <b><i>Background:</i></b> We sought to identify optimal approaches by calibrating longitudinal cognitive performance across studies with different neuropsychological batteries. <b><i>Methods:</i></b> We examined four approaches to calibrate cognitive performance in nine longitudinal studies of Alzheimer's disease (AD) (n = 10,875): (1) common test, (2) standardize and average available tests, (3) confirmatory factor analysis (CFA) with continuous indicators, and (4) CFA with categorical indicators. To compare precision, we determined the minimum sample sizes needed to detect 25% cognitive decline with 80% power. To compare criterion validity, we correlated cognitive change from each approach with 6-year changes in average cortical thickness and hippocampal volume using available MRI data from the AD Neuroimaging Initiative. <b><i>Results:</i></b> CFA with categorical indicators required the smallest sample size to detect 25% cognitive decline with 80% power (n = 232) compared to common test (n = 277), standardize-and-average (n = 291), and CFA with continuous indicators (n = 315) approaches. Associations with changes in biomarkers changes were the strongest for CFA with categorical indicators. <b><i>Conclusions:</i></b> CFA with categorical indicators demonstrated greater power to detect change and superior criterion validity compared to other approaches. It has wide applicability to directly compare cognitive performance across studies, making it a good way to obtain operational phenotypes for genetic analyses of cognitive decline among people with AD.
DOI: 10.6084/m9.figshare.4654003.v1
title: Supplementary Material for: A New Case of an Inherited Reciprocal Translocation in Cattle: rcp(13;26)(q24;q11)

description: This study reports on a unique balanced reciprocal chromosome translocation detected in a phenotypically normal cattle dam and her calf. CBG-, GTG-banding and FISH using bovine whole-chromosome and telomere probes were applied. The analyses showed that the breakpoints were located near to the centromere in chromosome 26 (q11) and exceptionally close to the telomere in chromosome 13 (q24). The whole euchromatin segment of chromosome 26 was translocated onto chromosome 13. The distal end of chromosome 13 was translocated to the subcentromeric region of chromosome 26. We describe this aberration as a balanced reciprocal translocation rcp(13;26)(q24;q11). It appears that this aberration was maternally derived and may have originated de novo in the dam.
DOI: 10.17632/59dgyv4g6g.1
title: Molecular data for: First report of glyphosate-resistant biotype of Eleusine indica in Europe
DOI: 10.6084/m9.figshare.4653877
title: Extra graphs for the paper: African scientific output and impact 1996-2015: Growth, stability, and reduction

description: Extra graphs for the paper: African scientific output and impact 1996-2015: Growth, stability, and reductionThe Word file contains country graphsThe Excel file also contains separate graphs for each field.
DOI: 10.6084/m9.figshare.4653856
title: Kok2015_Experiment2CELEB_raw from Face familiarity promotes stable identity recognition: exploring face perception using serial dependence

description: Studies suggest that familiar faces are processed in a manner distinct from unfamiliar faces and that familiarity with a face confers an advantage in identity recognition. Our visual system seems to capitalize on experience to build stable face representations that are impervious to variation in retinal input that may occur due to changes in lighting, viewpoint, viewing distance, eye movements, etc. Emerging evidence also suggests that our visual system maintains a continuous perception of a face's identity from one moment to the next despite the retinal input variations through serial dependence. This study investigates whether interactions occur between face familiarity and serial dependence. In two experiments, participants used a continuous scale to rate attractiveness of unfamiliar and familiar faces (either experimentally learned or famous) presented in rapid sequences. Both experiments revealed robust inter-trial effects in which attractiveness ratings for a given face depended on the preceding face's attractiveness. This inter-trial attractiveness effect was most pronounced for unfamiliar faces. Indeed, when participants were familiar with a given face, attractiveness ratings showed significantly less serial dependence. These results represent the first evidence that familiar faces can resist the temporal integration seen in sequential dependencies and highlight the importance of familiarity to visual cognition.