cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5797287
title: Direct RNA nanopore sequencing data of total RNA from human K562 cells with sequin spike-in controls

description: Direct RNA sequencing data for human cell line k562 with ~10% sequins, a spike-in reference standard. <br>Generated on 22 November 2017 using 500ng total RNA extracted from k562 cells and 50ng of RNA sequins Mix A (final concentration after sample preparation = 1.51 ng/uL). Nanopore MinION flowcell FAH35825 (R9.4 chemistry), displayed 1323 active channels at commencement of run. Sequencing protocol RNA001. Base called with Albacore version 2.1.3.Includes albacore summary statistics (bundled in .tgz) and a generic quality report of the run (.pdf). <br>Sequin reference sequences and expected abundances for Mix A can be found at http://www.sequin.xyz/downloads/<br>=====<b><br></b><b>Update (7 July 2019):</b> Added fastq and sequencing summary resulting from updated base calling using guppy high-accuracy (k562_guppyHAC.tgz, guppy v3.1.5 using R9.4.1 70bps RNA pore model). <br>=====<br><b>Update (15 July 2019): </b>Raw sequencing data (.fast5) uploaded to ENA (accession PRJEB33485). Available at the following link: https://www.ebi.ac.uk/ena/data/view/PRJEB33485<br>
DOI: 10.6084/m9.figshare.5797287.v1
title: k562+sequins_dRNA_albacore-2.1.3.tar.gz

description: Direct RNA sequencing data for human cell line k562 with ~10% sequins, a spike-in reference standard. <br>Generated on 22 November 2017 using 500ng total RNA extracted from k562 cells and 50ng of RNA sequins Mix A (final concentration after sample preparation = 1.51 ng/uL). Nanopore MinION flowcell FAH35825 (R9.4 chemistry), displayed 1323 active channels at commencement of run. Sequencing protocol RNA001. Base called with Albacore version 2.1.3.Includes albacore summary statistics (bundled in .tgz) and a generic quality report of the run (.pdf). <br>Sequin reference sequences and expected abundances for Mix A can be found at http://www.sequin.xyz/downloads/<br><br><br><br><br>
DOI: 10.6084/m9.figshare.5797287.v2
title: Direct RNA nanopore sequencing data of total RNA from human K562 cells with sequin spike-in controls

description: Direct RNA sequencing data for human cell line k562 with ~10% sequins, a spike-in reference standard. <br>Generated on 22 November 2017 using 500ng total RNA extracted from k562 cells and 50ng of RNA sequins Mix A (final concentration after sample preparation = 1.51 ng/uL). Nanopore MinION flowcell FAH35825 (R9.4 chemistry), displayed 1323 active channels at commencement of run. Sequencing protocol RNA001. Base called with Albacore version 2.1.3.Includes albacore summary statistics (bundled in .tgz) and a generic quality report of the run (.pdf). <br>Sequin reference sequences and expected abundances for Mix A can be found at http://www.sequin.xyz/downloads/<br><br><br><br><br>
DOI: 10.6084/m9.figshare.5797257
title: Global pairwise expression correlation analysis of S. mansoni genes

description: A complete list encompassing all significantly correlated (p-value &lt; 0.05, r &gt; 0.5 or r &lt; -0.5) pair of genes (Smp-Smp, Smp-SmLINC and SmLINC-SmLINC) expressed across five developmental stages of the parasite (cercariae, somula 3h, somula 24h, male and female). The first two columns are the IDs from the analyzed pair of genes, whereas the third and fourth ones are the Pearson correlation coefficient (r) and its p-value, respectively.<br>
DOI: 10.6084/m9.figshare.5797257.v1
title: Global pairwise expression correlation analysis of S. mansoni genes

description: A complete list encompassing all significantly correlated (p-value &lt; 0.05, r &gt; 0.5 or r &lt; -0.5) pair of genes (Smp-Smp, Smp-SmLINC and SmLINC-SmLINC) expressed across five developmental stages of the parasite (cercariae, somula 3h, somula 24h, male and female). The first two columns are the IDs from the analyzed pair of genes, whereas the third and fourth ones are the Pearson correlation coefficient (r) and its p-value, respectively.<br>
DOI: 10.6084/m9.figshare.5797104
title: A systematic identification and analysis of scientists on Twitter

description: Tweet IDs of 64,449,234 statuses (tweets, retweets, and replies) posted by the 45,867 identified scientists in "A systematic identification and analysis of scientists on Twitter".
DOI: 10.6084/m9.figshare.5797104.v2
title: A systematic identification and analysis of scientists on Twitter

description: Tweet IDs of 64,449,234 statuses (tweets, retweets, and replies) posted by the 45,867 identified scientists in "A systematic identification and analysis of scientists on Twitter".
DOI: 10.6084/m9.figshare.5797104.v1
title: tweets_id.txt.zip

description: Tweet IDs of 64,449,234 statuses (tweets, retweets, and replies) posted by the 45,867 identified scientists in "A systematic identification and analysis of scientists on Twitter".
DOI: 10.6084/m9.figshare.5796942
title: Comparison of ER beta interactors after either RNA or AGO2 depletion

description: Diffentially expressed proteins upon RNAse treatment and AGO2 silencing. In italic are displayed those proteins that do not fit the statistical significance parameters.
DOI: 10.6084/m9.figshare.5796942.v1
title: Comparison of ER beta interactors after either RNA or AGO2 depletion

description: Diffentially expressed proteins upon RNAse treatment and AGO2 silencing. In italic are displayed those proteins that do not fit the statistical significance parameters.
DOI: 10.6084/m9.figshare.5796939
title: MaxQuant analyses

description: Table S3A: Raw MaxQuant data related to all identified and quantified proteins in partially purified CTAP-ERβ nuclear complexes before and after RNAse treatment Table S3B: Statistical analysis of protein levels in CTAP-ERβ nuclear complexes before and after RNase treatment Table S3C: Differentially represented proteins in CTAP-ERβ nuclear complexes before and after RNase treatment (statistically significant).
DOI: 10.6084/m9.figshare.5796939.v1
title: MaxQuant analyses

description: Table S3A: Raw MaxQuant data related to all identified and quantified proteins in partially purified CTAP-ERβ nuclear complexes before and after RNAse treatment Table S3B: Statistical analysis of protein levels in CTAP-ERβ nuclear complexes before and after RNase treatment Table S3C: Differentially represented proteins in CTAP-ERβ nuclear complexes before and after RNase treatment (statistically significant).
DOI: 10.6084/m9.figshare.5796936
title: RNA-dependent interactors

description: Table 2A: Proteins identified in partially purified CTAP-ERβ expressing MCF-7 (Sample) cell nuclear extracts after RNAse treatment. Table 2B: Proteins specifically identified in partially purified CTAP-ERβ (Sample) vs MCF7 (CTRL) cells after RNAse treatment.
DOI: 10.6084/m9.figshare.5796936.v1
title: RNA-dependent interactors

description: Table 2A: Proteins identified in partially purified CTAP-ERβ expressing MCF-7 (Sample) cell nuclear extracts after RNAse treatment. Table 2B: Proteins specifically identified in partially purified CTAP-ERβ (Sample) vs MCF7 (CTRL) cells after RNAse treatment.
DOI: 10.6084/m9.figshare.5796933
title: Identified proteins

description: Table S1A: Proteins identified in partially purified MCF-7 (CTRL) cell nuclear extracts. Table S1B: Proteins identified in partially purified CTAP-ER_ expressing MCF-7 (Sample) cell nuclear extracts. Table S1C: Proteins specifically identified in partially purified CTAP-ER_ (Sample) vs MCF7 (CTRL) nuclear extracts.
DOI: 10.6084/m9.figshare.5796933.v1
title: Identified proteins

description: Table S1A: Proteins identified in partially purified MCF-7 (CTRL) cell nuclear extracts. Table S1B: Proteins identified in partially purified CTAP-ER_ expressing MCF-7 (Sample) cell nuclear extracts. Table S1C: Proteins specifically identified in partially purified CTAP-ER_ (Sample) vs MCF7 (CTRL) nuclear extracts.
DOI: 10.6084/m9.figshare.5795058
title: Scientific communication strategies of microbiologists in the era of social media

description: Using an on-line survey we collected data from 527 scientists, with 219 participants directly working in the microbiology field and other 308 participants outside this field. We asked questions regarding the preferred vehicles used to stay updated with recent literature, to promote their science, to find collaborators, and we particularly focused on the role social media have in their scientific activities.<br>The collection of figures and tables contain the following:<br>- The original questionaire: <i>Survey.pdf</i>- Raw data from the survey:<i> Raw_data.xlsx</i>- Formatted data from the survey: <i>Formatted_data.xlsx</i>- Graphs summarizing the outcomes of the survey: <i>Summary_graphs.pdf</i><br><br>and supplementary material from the written manuscript: <b>Romano and Ansorge (2018), FEMS Microbiology Letters,<i> </i>doi: 10.1093/femsle/fny264<i><br></i></b>- Supplementary table <i>Tab_S1.xlsx</i> (table legend as sheet within file)<i><br></i>- Supplementary table <i>Tab_S2.xlsx</i> (table legend as sheet within file)- Supplementary table <i>Tab_S3.xlsx</i> (table legend as sheet within file)- Supplementary figures S1-S6: <i>Fig_S1_to_S6.pdf</i><br>
DOI: 10.6084/m9.figshare.5795058.v1
title: How microbiologists communicate their science in the social media era

description: Using an on-line survey we collected data from 200 scientists, with 101 participants directly working in the microbiology field and other 99 participants outside this field. We asked questions regarding the preferred vehicles used to stay updated with recent literature, to promote their science, to find collaborators, and we particularly focused on the role social media have in their scientific activities.
DOI: 10.6084/m9.figshare.5795058.v2
title: Scientific communication strategies and social media usage in the field of microbiology

description: Using an on-line survey we collected data from 200 scientists, with 101 participants directly working in the microbiology field and other 99 participants outside this field. We asked questions regarding the preferred vehicles used to stay updated with recent literature, to promote their science, to find collaborators, and we particularly focused on the role social media have in their scientific activities.
DOI: 10.6084/m9.figshare.5795058.v3
title: Scientific communication strategies and social media usage in the field of microbiology

description: Using an on-line survey we collected data from 527 scientists, with 219 participants directly working in the microbiology field and other 308 participants outside this field. We asked questions regarding the preferred vehicles used to stay updated with recent literature, to promote their science, to find collaborators, and we particularly focused on the role social media have in their scientific activities.
DOI: 10.6084/m9.figshare.5794989
title: Self-reported bovine milk intake is associated with oral microbiota composition

description: sequences from Illumina analyses, saliva and dental plaque samples, extracted DNA
DOI: 10.6084/m9.figshare.5794989.v1
title: Self-reported bovine milk intake is associated with oral microbiota composition

description: Bacterial DNA sequences from Illumina sequencing analyses, originating from saliva and dental plaque samples
DOI: 10.6084/m9.figshare.5794983
title: KIX domain of AtMed15a, a Mediator subunit of Arabidopsis, is required for its interaction with different proteins

description: Med15 is an important subunit of Mediator Tail module and is characterized by a KIX domain present towards amino terminal. In yeast and metazoans, Med15 KIX domain has been found to interact with various transcription factors regulating several processes including carbohydrate metabolism, lipogenesis, stress response and multidrug resistance. Mechanism of Med15 functioning in <i>Arabidopsis</i> is largely unknown. In this study, interactome of KIX domain of <i>Arabidopsis</i> Med15, AtMed15a, was characterized. We found 45 proteins that interact with AtMed15a KIX domain, including 11 transcription factors, 3 single strand nucleic acid-binding proteins and 1 splicing factor. The third helix of the KIX domain was found to be involved in most of the interactions. Mapping of the regions participating in the interactions revealed that the activation domain of a transcription factor, UKTF1 interacted with AtMed15a KIX domain. Thus, our results suggest that in <i>Arabidopsis</i>, activation domain of transcription factors target KIX domain of AtMed15a for their transcriptional responses.
DOI: 10.6084/m9.figshare.5794983.v2
title: KIX domain of AtMed15a, a Mediator subunit of Arabidopsis, is required for its interaction with different proteins

description: Med15 is an important subunit of Mediator Tail module and is characterized by a KIX domain present towards amino terminal. In yeast and metazoans, Med15 KIX domain has been found to interact with various transcription factors regulating several processes including carbohydrate metabolism, lipogenesis, stress response and multidrug resistance. Mechanism of Med15 functioning in <i>Arabidopsis</i> is largely unknown. In this study, interactome of KIX domain of <i>Arabidopsis</i> Med15, AtMed15a, was characterized. We found 45 proteins that interact with AtMed15a KIX domain, including 11 transcription factors, 3 single strand nucleic acid-binding proteins and 1 splicing factor. The third helix of the KIX domain was found to be involved in most of the interactions. Mapping of the regions participating in the interactions revealed that the activation domain of a transcription factor, UKTF1 interacted with AtMed15a KIX domain. Thus, our results suggest that in <i>Arabidopsis</i>, activation domain of transcription factors target KIX domain of AtMed15a for their transcriptional responses.
DOI: 10.6084/m9.figshare.5794983.v1
title: KIX domain of AtMed15a, a Mediator subunit of Arabidopsis, is required for its interaction with different proteins

description: Med15 is an important subunit of Mediator tail module and is characterized by a KIX domain present in the amino terminal. In yeast and metazoans, Med15 KIX domain has been found to interact with various transcription factors, regulating several processes including carbohydrate metabolism, lipogenesis, stress response and multidrug resistance. Mechanism of Med15 functioning in <i>Arabidopsis</i> is largely unknown. In this study, interactome of <i>Arabidopsis</i> Med15, AtMed15a, was characterized. We found 45 proteins that interact with AtMed15a KIX domain, including 11 transcription factors, 3 single strand nucleic acid-binding proteins and 1 splicing factor. The third helix of the KIX domain was found to be involved in most of the interactions. Mapping of the regions participating in the interactions revealed that the activation domain of a transcription factor, UKTF1 interacted with AtMed15a KIX domain. Thus, our results suggest that in <i>Arabidopsis</i>, activation domain of transcription factors target KIX domain of AtMed15a for their transcriptional responses.
DOI: 10.6084/m9.figshare.5794824
title: A systematic mapping of nordic gambling research 2000–2015: current status and suggested future directions

description: There has been an increased research focus on gambling in the Nordic countries since the turn of the century. This paper provides a first systematic mapping of Nordic gambling research published between 2000 and 2015. Eleven international, ten Nordic bibliographic e-databases, and Google Scholar were systematically searched, with 382 records fulfilling the study inclusion criteria. Of the records identified in the international and Nordic databases, most had a first author from a Finnish institution (<i>n</i> = 70), followed by Norway (<i>n</i> = 57), Sweden (<i>n</i> = 55), Denmark (<i>n</i> = 45) and Iceland (<i>n</i> = 5). The majority of the studies represented prevalence research (38.8%), focusing on gambling behavior or problem gambling and various explanatory factors, while limited focus has been on prevention, treatment and service-focused research. Methodologically, the majority of the identified studies (39.7%) analyzed population samples/cohorts or other cross-sectional samples, with many of the studies also applying review approaches or presenting cases such as the regulatory system in a country (28.3%). The scientific disciplines most frequently represented were social and public health sciences. The findings highlight research areas that have received less focus – e.g. only one example of a longitudinal project looking into factors associated with a problem gambling development, and the need for increased resources channeled into the translation of available evidence into coordinated prevention- (e.g. problem gambling prevention in school-settings) and service-focused (e.g. through randomized, controlled treatment trials) research initiatives. The findings should be considered in the coordination of future Nordic research.
DOI: 10.6084/m9.figshare.5794824.v1
title: A systematic mapping of nordic gambling research 2000–2015: current status and suggested future directions

description: There has been an increased research focus on gambling in the Nordic countries since the turn of the century. This paper provides a first systematic mapping of Nordic gambling research published between 2000 and 2015. Eleven international, ten Nordic bibliographic e-databases, and Google Scholar were systematically searched, with 382 records fulfilling the study inclusion criteria. Of the records identified in the international and Nordic databases, most had a first author from a Finnish institution (<i>n</i> = 70), followed by Norway (<i>n</i> = 57), Sweden (<i>n</i> = 55), Denmark (<i>n</i> = 45) and Iceland (<i>n</i> = 5). The majority of the studies represented prevalence research (38.8%), focusing on gambling behavior or problem gambling and various explanatory factors, while limited focus has been on prevention, treatment and service-focused research. Methodologically, the majority of the identified studies (39.7%) analyzed population samples/cohorts or other cross-sectional samples, with many of the studies also applying review approaches or presenting cases such as the regulatory system in a country (28.3%). The scientific disciplines most frequently represented were social and public health sciences. The findings highlight research areas that have received less focus – e.g. only one example of a longitudinal project looking into factors associated with a problem gambling development, and the need for increased resources channeled into the translation of available evidence into coordinated prevention- (e.g. problem gambling prevention in school-settings) and service-focused (e.g. through randomized, controlled treatment trials) research initiatives. The findings should be considered in the coordination of future Nordic research.
DOI: 10.6084/m9.figshare.5794818
title: Fitts' Law is Applicable to Trunk Coordination Measurements in a Sitting Position

description: Trunk coordination is essential for many activities of daily living in wheelchair users. This study investigated whether Fitts' law is applicable to trunk movements in a sitting position. Fourteen healthy adults performed two series of 24 tasks of trunk flexion–extension movements in a sitting position. The results showed significant linear relationships between average group movement time (MT) and index of difficulty (ID) over all tasks (<i>r</i><sup>2</sup> = 0.92) and within target distances (0.94 &lt; <i>r</i><sup>2</sup> &lt; 1.00). Target distance affected intercept and slope (<i>P</i> &lt; 0.001). Hence, Fitts' law is applicable to the studied trunk movements in a sitting position, indicating these trunk movements tasks could serve as a basis for qualitative trunk coordination tests. Transferability of these conclusions to wheelchair users, and optimal test design should be further investigated.
DOI: 10.6084/m9.figshare.5794818.v1
title: Fitts' Law is Applicable to Trunk Coordination Measurements in a Sitting Position

description: Trunk coordination is essential for many activities of daily living in wheelchair users. This study investigated whether Fitts' law is applicable to trunk movements in a sitting position. Fourteen healthy adults performed two series of 24 tasks of trunk flexion–extension movements in a sitting position. The results showed significant linear relationships between average group movement time (MT) and index of difficulty (ID) over all tasks (<i>r</i><sup>2</sup> = 0.92) and within target distances (0.94 &lt; <i>r</i><sup>2</sup> &lt; 1.00). Target distance affected intercept and slope (<i>P</i> &lt; 0.001). Hence, Fitts' law is applicable to the studied trunk movements in a sitting position, indicating these trunk movements tasks could serve as a basis for qualitative trunk coordination tests. Transferability of these conclusions to wheelchair users, and optimal test design should be further investigated.
DOI: 10.6084/m9.figshare.5794722
title: Appendix_C

description: <b>Multi-Angle Spectroscopic Remote Sensing of Arctic Vegetation Biochemical and Biophysical Properties.</b><br><br>Appendix C: Machine Learning Regression Algorithms
DOI: 10.6084/m9.figshare.5794701
title: Appendix_B

description: <b>Multi-Angle Spectroscopic Remote Sensing of Arctic Vegetation Biochemical and Biophysical Properties.</b><br><br>Appendix B: Narrowband Vegetation Indices<br>
DOI: 10.6084/m9.figshare.5794701.v1
title: Appendix_B

description: <b>Multi-Angle Spectroscopic Remote Sensing of Arctic Vegetation Biochemical and Biophysical Properties.</b><br><br>Appendix B: Narrowband Vegetation Indices<br>
DOI: 10.6084/m9.figshare.5794692
title: INPUT - H2020 EU project to advance hand prosthetic control

description: <b>Abstract<br><br></b>INPUT is a European H2020 project (02/2016 - 02/2020) that focuses on advancing upper limb prosthetics by tackling the most significant aspects of successfully ﬁtting such a device to a user: Improved socket for more comfortable ﬁt and Wearing; Improved training to maximize the outcome with the patient; Improved recognition algorithms for better and more robust control; Improved evaluations to make sure that the devices are tested in clinically relevant scenarios.<br>We Will achieve this by increasing our theoretical knowledge<br>on the control generating mechanisms, by ample end user<br>testing (2 of the 4 project years are dedicated to user testing) and by implementing the project as an Innovation Action, meaning an increased focus on high market readiness.
DOI: 10.6084/m9.figshare.5794692.v1
title: INPUT - H2020 EU project to advance hand prosthetic control

description: <b>Abstract<br><br></b>INPUT is a European H2020 project (02/2016 - 02/2020) that focuses on advancing upper limb prosthetics by tackling the most significant aspects of successfully ﬁtting such a device to a user: Improved socket for more comfortable ﬁt and Wearing; Improved training to maximize the outcome with the patient; Improved recognition algorithms for better and more robust control; Improved evaluations to make sure that the devices are tested in clinically relevant scenarios.<br>We Will achieve this by increasing our theoretical knowledge<br>on the control generating mechanisms, by ample end user<br>testing (2 of the 4 project years are dedicated to user testing) and by implementing the project as an Innovation Action, meaning an increased focus on high market readiness.