cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.16917391
title: A systematic map of genetic variation in Plasmodium falciparum

description: This is the companion web site for publication:<br>Kidgell C, Volkman SK, Daily J, Borevitz JO, Plouffe D, Zhou Y, Johnson JR, Le Roch K, Sarr O, Ndir O, Mboup S, Batalov S, Wirth DF, Winzeler EA. A systematic map of genetic variation in Plasmodium falciparum. PLoS Pathog. 2006 Jun;2(6):e57. doi: 10.1371/journal.ppat.0020057. Epub 2006 Jun 23. Erratum in: PLoS Pathog. 2006 Aug;2(8):e96. PMID: 16789840; PMCID: PMC1480597.<br><br>Download and unzip the file, open SFP/index.html to browse the self-contained web site.
DOI: 10.6084/m9.figshare.16917388
title: Statistical Validation of Structure-Selectivity Relationship Using NCI Cancer Database

description: This is the companion web site for publication:<br><b>Statistical Validation of Structure-Selectivity Relationship Using NCI Cancer Database</b>Jing Li<sup>1,2</sup>, Chris Benner<sup>2</sup>, Tao Jiang<sup>1</sup>, Yingyao Zhou<sup>2</sup><br><sup>1</sup> Department of Compouter Science, University of California, Riverside, CA 92521, USA<br><sup>2</sup> Genomics Institute of the Novartis Research Foundation, 10675 John Jay Hopkins Dr., San Diego, California 92121, USA<br>METMBS 2003: 146-151<br><br>Download and unzip the file, open NCISSR/index.html to browse the self-contained web site.
DOI: 10.6084/m9.figshare.16917388.v1
title: Statistical Validation of Structure-Selectivity Relationship Using NCI Cancer Database

description: This is the companion web site for publication:<br><b>Statistical Validation of Structure-Selectivity Relationship Using NCI Cancer Database</b>Jing Li<sup>1,2</sup>, Chris Benner<sup>2</sup>, Tao Jiang<sup>1</sup>, Yingyao Zhou<sup>2</sup><br><sup>1</sup> Department of Compouter Science, University of California, Riverside, CA 92521, USA<br><sup>2</sup> Genomics Institute of the Novartis Research Foundation, 10675 John Jay Hopkins Dr., San Diego, California 92121, USA<br>METMBS 2003: 146-151<br><br>Download and unzip the file, open NCISSR/index.html to browse the self-contained web site.
DOI: 10.6084/m9.figshare.16917385
title: Leveraging two-way probe-level block design for identifying differential gene expression with high-density oligonucleotide arrays

description: This is the companion web site for publication:<br>Barrera L, Benner C, Tao YC, Winzeler E, Zhou Y. Leveraging two-way probe-level block design for identifying differential gene expression with high-density oligonucleotide arrays. BMC Bioinformatics. 2004 Apr 20;5:42. doi: 10.1186/1471-2105-5-42. PMID: 15099405; PMCID: PMC411067.<br><br>Download and unzip the file, open ProbeStatistics/index.html to browse the self-contained web site.
DOI: 10.6084/m9.figshare.16917385.v1
title: Leveraging two-way probe-level block design for identifying differential gene expression with high-density oligonucleotide arrays

description: This is the companion web site for publication:<br>Barrera L, Benner C, Tao YC, Winzeler E, Zhou Y. Leveraging two-way probe-level block design for identifying differential gene expression with high-density oligonucleotide arrays. BMC Bioinformatics. 2004 Apr 20;5:42. doi: 10.1186/1471-2105-5-42. PMID: 15099405; PMCID: PMC411067.<br><br>Download and unzip the file, open ProbeStatistics/index.html to browse the self-contained web site.
DOI: 10.6084/m9.figshare.16917382
title: Match-Only Integral Distribution (MOID) Algorithm for High-Density Oligonucleotide Array Analysis

description: This is the companion web site for publication:<br>Zhou Y, Abagyan R. Match-only integral distribution (MOID) algorithm for high-density oligonucleotide array analysis. BMC Bioinformatics. 2002;3:3. doi: 10.1186/1471-2105-3-3. Epub 2002 Jan 22. PMID: 11835687; PMCID: PMC65509.<br><br>Download and unzip the file, open MOID/index.html to browse the self-contained web site.
DOI: 10.6084/m9.figshare.16917382.v1
title: Match-Only Integral Distribution (MOID) Algorithm for High-Density Oligonucleotide Array Analysis

description: This is the companion web site for publication:<br>Zhou Y, Abagyan R. Match-only integral distribution (MOID) algorithm for high-density oligonucleotide array analysis. BMC Bioinformatics. 2002;3:3. doi: 10.1186/1471-2105-3-3. Epub 2002 Jan 22. PMID: 11835687; PMCID: PMC65509.<br><br>Download and unzip the file, open MOID/index.html to browse the self-contained web site.
DOI: 10.6084/m9.figshare.16917358
title: The Plasmodium falciparum sexual development transcriptome: a microarray analysis using ontology-based pattern identification

description: This is the companion web site for publication:<br>Young JA, Fivelman QL, Blair PL, de la Vega P, Le Roch KG, Zhou Y, Carucci DJ, Baker DA, Winzeler EA. The Plasmodium falciparum sexual development transcriptome: a microarray analysis using ontology-based pattern identification. Mol Biochem Parasitol. 2005 Sep;143(1):67-79. doi: 10.1016/j.molbiopara.2005.05.007. PMID: 16005087.<br><br>Download and unzip the file, open Gametocyte/index.html to browse the self-contained web site.
DOI: 10.6084/m9.figshare.16900077
title: Which signal modalities do cyclists prefer based on experiences in road traffic?

description: <b>Objective:</b> On-bike systems warning cyclists about critical situations are a promising approach to improve safety. The chosen warning modality might strongly influence whether the cyclist accepts the system. So far, cyclists’ warning preferences have not been analyzed based on field data. They were only analyzed through web-based surveys or a simulator study without including the three most promising signal types (i.e., visual, auditory and vibro-tactile). This study aims to evaluate the signal preferences for transmitting information to cyclists based on experience of the signals in the field. <b>Method:</b> We conducted a field study where participants received signals of different signal types, i. e. visual, auditory and vibro-tactile signals, while cycling. After completing the course, all participants answered a questionnaire on their subjective experiences of the signals. The participants separately cycled a 10 km long route in road traffic. All participants received 12 signals per modality on predefined GPS coordinates. The course covered different environmental conditions like loud ambient noise, gravel roads or high visual load. <b>Results:</b> The data of 55 participants was analyzed. The participants chose the auditory and vibro-tactile signal over the visual signal. When asked, they significantly preferred an auditory warning to the other two signal types. The participants rated the auditory signal as most urgent and frequently associated it with warnings. Participants reported the visual signal as distracting from the cycling task and the vibro-tactile signals as difficult to distinguish from surface related vibrations. <b>Conclusion:</b> The advantages of different signal modalities can be applied to develop information transmission systems in the cycling context. Our results show that the signal types have inherent qualities which may fit into different areas of application. This study highlights that the choice of a warning modality needs to be balanced on a combination of noticeability, criticality and personal preference.
DOI: 10.6084/m9.figshare.16900077.v1
title: Which signal modalities do cyclists prefer based on experiences in road traffic?

description: <b>Objective:</b> On-bike systems warning cyclists about critical situations are a promising approach to improve safety. The chosen warning modality might strongly influence whether the cyclist accepts the system. So far, cyclists’ warning preferences have not been analyzed based on field data. They were only analyzed through web-based surveys or a simulator study without including the three most promising signal types (i.e., visual, auditory and vibro-tactile). This study aims to evaluate the signal preferences for transmitting information to cyclists based on experience of the signals in the field. <b>Method:</b> We conducted a field study where participants received signals of different signal types, i. e. visual, auditory and vibro-tactile signals, while cycling. After completing the course, all participants answered a questionnaire on their subjective experiences of the signals. The participants separately cycled a 10 km long route in road traffic. All participants received 12 signals per modality on predefined GPS coordinates. The course covered different environmental conditions like loud ambient noise, gravel roads or high visual load. <b>Results:</b> The data of 55 participants was analyzed. The participants chose the auditory and vibro-tactile signal over the visual signal. When asked, they significantly preferred an auditory warning to the other two signal types. The participants rated the auditory signal as most urgent and frequently associated it with warnings. Participants reported the visual signal as distracting from the cycling task and the vibro-tactile signals as difficult to distinguish from surface related vibrations. <b>Conclusion:</b> The advantages of different signal modalities can be applied to develop information transmission systems in the cycling context. Our results show that the signal types have inherent qualities which may fit into different areas of application. This study highlights that the choice of a warning modality needs to be balanced on a combination of noticeability, criticality and personal preference.
DOI: 10.6084/m9.figshare.16917343
title: Large-Scale Annotation of Small-Molecule Libraries Using Public Databases

description: This is the companion web site for publication:<br>Zhou Y, Zhou B, Chen K, Yan SF, King FJ, Jiang S, Winzeler EA. Large-scale annotation of small-molecule libraries using public databases. J Chem Inf Model. 2007 Jul-Aug;47(4):1386-94. doi: 10.1021/ci700092v. Epub 2007 Jul 3. PMID: 17608408.<br>Download and unzip the file, open PubChem/index.html to browse the self-contained web site.
DOI: 10.6084/m9.figshare.16917343.v1
title: Large-Scale Annotation of Small-Molecule Libraries Using Public Databases

description: This is the companion web site for publication:<br>Zhou Y, Zhou B, Chen K, Yan SF, King FJ, Jiang S, Winzeler EA. Large-scale annotation of small-molecule libraries using public databases. J Chem Inf Model. 2007 Jul-Aug;47(4):1386-94. doi: 10.1021/ci700092v. Epub 2007 Jul 3. PMID: 17608408.<br>Download and unzip the file, open PubChem/index.html to browse the self-contained web site.
DOI: 10.5281/zenodo.5467851
title: 360data and interview data

description: Raw data from the 360 tool (without calculations) and raw interview data
DOI: 10.6084/m9.figshare.16917337
title: A probability-based approach for the analysis of large-scale RNAi screens

description: This is the companion web site for publication:<br>König R, Chiang CY, Tu BP, Yan SF, DeJesus PD, Romero A, Bergauer T, Orth A, Krueger U, Zhou Y, Chanda SK. A probability-based approach for the analysis of large-scale RNAi screens. Nat Methods. 2007 Oct;4(10):847-9. doi: 10.1038/nmeth1089. Epub 2007 Sep 9. PMID: 17828270.<br><br>Download and unzip the file, open RSA/index.html to browse the self-contained web site.<br>
DOI: 10.5281/zenodo.5467850
title: 360data and interview data

description: Raw data from the 360 tool (without calculations) and raw interview data
DOI: 10.25345/c5zc5w
title: MassIVE MSV000088300 - SHR-SP, rTg-DI, and bigenic rTg-DI/SHR-SP cortex comparison
title: Comparison of cortex regions from SHR-SP, rTg-DI and bigenic rTg-DI/SHR-SP preclinical models of small vessel disease.
DOI: 10.6084/m9.figshare.16919071
title: First report of mitochondrial COI in foraminifera and implications for DNA barcoding

description: COI barcodes of Foraminifera, reported in "First report of mitochondrial COI in foraminifera and implications for DNA barcoding"
DOI: 10.5281/zenodo.5639504
title: Small model output dataset for teaching use

description: Small model output dataset from CAM6-Nor for teaching use.
DOI: 10.5281/zenodo.5594876
title: Small model output dataset for teaching use

description: Small model output dataset from CAM6-Nor for teaching use.
DOI: 10.3886/e152821v1
title: Leveraging Integrated Student Support to Identify and Address COVID-19-related needs for Students, Families, and Teachers

description: The Center for Optimized Student Support at Boston College sought to examine the needs of students, teachers, school staff, and intervention personnel after March 2020 school closures related to the COVID-19 pandemic. The purpose of the study was to characterize stakeholder needs weekly, from March to June 2020, and to examine how schools that implemented an integrated student support intervention responded to those needs.
DOI: 10.6084/m9.figshare.16919059
title: A systems-based analysis of Plasmodium vivax lifecycle transcription from human to mosquito

description: This is the companion web site for publication:<br>Westenberger SJ, McClean CM, Chattopadhyay R, Dharia NV, Carlton JM, Barnwell JW, Collins WE, Hoffman SL, Zhou Y, Vinetz JM, Winzeler EA. A systems-based analysis of Plasmodium vivax lifecycle transcription from human to mosquito. PLoS Negl Trop Dis. 2010 Apr 6;4(4):e653. doi: 10.1371/journal.pntd.0000653. PMID: 20386602; PMCID: PMC2850316.<br><br>Download and unzip the file, open Pv/index.html to browse the self-contained web site.
DOI: 10.23708/lz8a5b
title: Soil Physicochemical Properties in rice fields from six sites in western Burkina Faso, 2018

description: This dataset presents the physico-chemical analysis of 19 soil samples, from 6 rice-growing sites in western Burkina Faso (Hauts-Bassins and Cascades). The six sites are located in the 3 geographical zones, all in Lixisols (soils with subsurface accumulation of low activity clays and high base saturation) according to the Harmonized Word Soil Database (HWSD) map (FAO/IIASA/ISRIC/ISSCAS/JRC 2012). Within each geographical zone, 2 sites were sampled: one irrigated area and a neighbouring rainfed lowland site (see also Barro, et al 2021, "Spatiotemporal survey of major rice diseases in western Burkina Faso", https://doi.org/10.23708/8FDWIE). Within in each of the 19 sampled rice fields, soil sampling was performed in 3 locations, using a 10cm depth auger. Back from the field, sampled soil was kept dried in the shade at room temperature. Soil analyses were performed by INERA/GRN service, according to classical methodology (see the provided documentation for more details).
DOI: 10.5281/zenodo.5507578
title: Supporting data for: "Data-driven discovery of cardiolipin-selective small molecules by computational active learning"

description: This repository contains supporting data and code for the paper titled "Data-driven discovery of cardiolipin-selective small molecules by computational active learning" by Bernadette Mohr, Kirill Shmilovich, Isabel Kleinwächter, Dirk Schneider, Andrew L.Ferguson, and Tristan Bereau.
DOI: 10.5281/zenodo.5507577
title: Supporting data for: "Data-driven discovery of cardiolipin-selective small molecules by computational active learning"

description: This repository contains supporting data and code for the paper titled "Data-driven discovery of cardiolipin-selective small molecules by computational active learning" by Bernadette Mohr, Kirill Shmilovich, Isabel Kleinwächter, Dirk Schneider, Andrew L.Ferguson, and Tristan Bereau.
DOI: 10.25318/3610067001-eng
title: Transactions in securities of private non-financial corporations

description: Transactions in securities of private non-financial corporations, including net transactions, gross issuances and gross redemptions for debt and equity securities.
DOI: 10.25318/3610067001-fra
title: Opérations en titres des sociétés privées non financières

description: Opérations en titres des sociétés privées non financières, incluant les opérations nettes, les émissions brutes et les remboursements bruts pour les titres de créance et de participation.
DOI: 10.6084/m9.figshare.16919035
title: Artigo (FABIANO) .xlsx

description: Restoring degraded pastures is an important strategy for curbing deforestation in tropical forests. Tropical pastures mixed with forage legumes produce as much as industrial nitrogen-fertilized pastures, reducing N2O emissions from synthetic fertilizer.
DOI: 10.6084/m9.figshare.16919035.v1
title: Artigo (FABIANO) .xlsx

description: Restoring degraded pastures is an important strategy for curbing deforestation in tropical forests. Tropical pastures mixed with forage legumes produce as much as industrial nitrogen-fertilized pastures, reducing N2O emissions from synthetic fertilizer.
DOI: 10.6084/m9.figshare.16750620
title: LncRNA LINC00460 takes a stimulating role on hepatocellular carcinoma stemness property

description: Abundant researches have stated that long noncoding RNAs (lncRNAs) are crucial molecules in intricate progression of various cancers in terms of their influence on cell stemness. However, no research has discussed the role of LINC00460 in the stemness of hepatocellular carcinoma (HCC). RT-qPCR and western blot were utilized to respectively examine the RNA and protein levels. Aldehyde dehydrogenase 1 (ALDH1) assays and sphere formation assay were performed to detect cell stemness property in vitro and in vivo subcutaneous xenograft tumor assay was performed to detect tumor growth. Interaction between RNAs was explored by luciferase reporter assays and RNA pull-down assays. Our results showed that LINC00460 was markedly over-expressed in HCC and silencing LINC00460 impaired cell stemness. Additionally, LINC00460 knockdown curbed proliferation, migration, invasion and epithelial-to-mesenchymal transition (EMT) and drove apoptosis of HCC cells. Further, LINC00460 bound to miR-503-5p and miR-654-3p to protect t-complex 1 (TCP1) from being inhibited by miR-503-5p/miR-654-3p. Rescue experiments confirmed the effect of LINC00460/miR-503-5p/miR-654-3p/TCP1 on HCC cell stemness. In conclusion, LINC00460 aggravated cell stemness in HCC via targeting miR-503-5p/miR-654-3p and TCP1, suggesting that LINC00460 may work as a potential signature for cell stemness in HCC.
DOI: 10.6084/m9.figshare.16750620.v2
title: LncRNA LINC00460 takes a stimulating role on hepatocellular carcinoma stemness property

description: Abundant researches have stated that long noncoding RNAs (lncRNAs) are crucial molecules in intricate progression of various cancers in terms of their influence on cell stemness. However, no research has discussed the role of LINC00460 in the stemness of hepatocellular carcinoma (HCC). RT-qPCR and western blot were utilized to respectively examine the RNA and protein levels. Aldehyde dehydrogenase 1 (ALDH1) assays and sphere formation assay were performed to detect cell stemness property in vitro and in vivo subcutaneous xenograft tumor assay was performed to detect tumor growth. Interaction between RNAs was explored by luciferase reporter assays and RNA pull-down assays. Our results showed that LINC00460 was markedly over-expressed in HCC and silencing LINC00460 impaired cell stemness. Additionally, LINC00460 knockdown curbed proliferation, migration, invasion and epithelial-to-mesenchymal transition (EMT) and drove apoptosis of HCC cells. Further, LINC00460 bound to miR-503-5p and miR-654-3p to protect t-complex 1 (TCP1) from being inhibited by miR-503-5p/miR-654-3p. Rescue experiments confirmed the effect of LINC00460/miR-503-5p/miR-654-3p/TCP1 on HCC cell stemness. In conclusion, LINC00460 aggravated cell stemness in HCC via targeting miR-503-5p/miR-654-3p and TCP1, suggesting that LINC00460 may work as a potential signature for cell stemness in HCC.
DOI: 10.6084/m9.figshare.16750620.v1
title: LncRNA LINC00460 takes a stimulating role on hepatocellular carcinoma stemness property

description: Abundant researches have stated that long noncoding RNAs (lncRNAs) are crucial molecules in intricate progression of various cancers in terms of their influence on cell stemness. However, no research has discussed the role of LINC00460 in the stemness of hepatocellular carcinoma (HCC). RT-qPCR and western blot were utilized to respectively examine the RNA and protein levels. Aldehyde dehydrogenase 1 (ALDH1) assays and sphere formation assay were performed to detect cell stemness property in vitro and in vivo subcutaneous xenograft tumor assay was performed to detect tumor growth. Interaction between RNAs was explored by luciferase reporter assays and RNA pull-down assays. Our results showed that LINC00460 was markedly over-expressed in HCC and silencing LINC00460 impaired cell stemness. Additionally, LINC00460 knockdown curbed proliferation, migration, invasion and epithelial-to-mesenchymal transition (EMT) and drove apoptosis of HCC cells. Further, LINC00460 bound to miR-503-5p and miR-654-3p to protect t-complex 1 (TCP1) from being inhibited by miR-503-5p/miR-654-3p. Rescue experiments confirmed the effect of LINC00460/miR-503-5p/miR-654-3p/TCP1 on HCC cell stemness. In conclusion, LINC00460 aggravated cell stemness in HCC via targeting miR-503-5p/miR-654-3p and TCP1, suggesting that LINC00460 may work as a potential signature for cell stemness in HCC.
DOI: 10.6084/m9.figshare.16918972.v1
title: Evidence-based annotation of the malaria parasite's genome using comparative expression profiling

description: This is the companion web site for publication:<br>Zhou Y, Ramachandran V, Kumar KA, Westenberger S, Refour P, Zhou B, Li F, Young JA, Chen K, Plouffe D, Henson K, Nussenzweig V, Carlton J, Vinetz JM, Duraisingh MT, Winzeler EA. Evidence-based annotation of the malaria parasite's genome using comparative expression profiling. PLoS One. 2008 Feb 13;3(2):e1570. doi: 10.1371/journal.pone.0001570. PMID: 18270564; PMCID: PMC2215772.<br><br>Download and unzip the file, open Py/index.html to browse the self-contained web site.
DOI: 10.12751/g-node.ng4dfr
title: Auditory Electrooculogram-based Communication System for ALS patient (pt11)

description: This dataset contains electrooculogram (EOG) recordings during use of a non-invasive BCI system previously described in doi:10.1038/s41598-020-65333-1. This dataset comprises only recordings for participant p11, with additional recordings not part of the originally published dataset.
description: IsDescribedBy: Tonin, A., Jaramillo-Gonzalez, A., Rana, A. et al. Auditory Electrooculogram-based Communication System for ALS Patients in Transition from Locked-in to Complete Locked-in State. Sci Rep 10, 8452 (2020). https://doi.org/10.1038/s41598-020-65333-1. (https://doi.org/10.1038/s41598-020-65333-1)
description: IsSupplementTo: Verbal Communication using Intracortical Signals in a Completely Locked In-Patient. Ujwal Chaudhary, Ioannis Vlachos, Jonas B. Zimmermann, Arnau Espinosa, Alessandro Tonin, Andres Jaramillo-Gonzalez, Majid Khalili-Ardali, Helge Topka, Jens Lehmberg, Gerhard M. Friehs, Alain Woodtli, John P. Donoghue, Niels Birbaumer. medRxiv 2020.06.10.20122408; doi: https://doi.org/10.1101/2020.06.10.20122408. (https://doi.org/10.1101/2020.06.10.20122408)
DOI: 10.25318/1310081901-eng
title: Accessibility barriers experienced when interacting with federal sector organizations among persons with disabilities, difficulties or long-term health conditions

description: The number and percentage of persons with disabilities, difficulties or long-term health conditions aged 19 and older who experienced accessibility barriers when interacting with federal sector organizations within the last two years, Canada (excluding territories) and provinces (grouped).
DOI: 10.6084/m9.figshare.16918972
title: Evidence-based annotation of the malaria parasite's genome using comparative expression profiling

description: This is the companion web site for publication:<br>Zhou Y, Ramachandran V, Kumar KA, Westenberger S, Refour P, Zhou B, Li F, Young JA, Chen K, Plouffe D, Henson K, Nussenzweig V, Carlton J, Vinetz JM, Duraisingh MT, Winzeler EA. Evidence-based annotation of the malaria parasite's genome using comparative expression profiling. PLoS One. 2008 Feb 13;3(2):e1570. doi: 10.1371/journal.pone.0001570. PMID: 18270564; PMCID: PMC2215772.<br><br>Download and unzip the file, open Py/index.html to browse the self-contained web site.