cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.1276131.v1
title: Proposta de um instrumento de pesquisa para avaliar a gestão de periódicos científicos: utilizando o método Fuzzy Delphi

description: A propagação de novos títulos de periódicos científicos nas diversas áreas do conhecimento tem sido preocupação dos profissionais que se interessam pela qualidade da informação científica, quer sejam autores, editores, publicadores, serviços de indexação, centros de documentação, bibliotecas e, de maneira especial, pesquisadores (usuários da informação). No processo de formação da revisão de literatura observou-se, que as pesquisas sobre o tema periódico científico eletrônico ainda não abordaram a visão de Capital Intelectual (CI) como forma de avaliar sua gestão. Este trabalho propõe um instrumento para avaliar a gestão dos periódicos científicos eletrônico utilizando a abordagem de CI. Foi utilizada a modelagem Fuzzy Delphi (FDELPHI) para levantar os fatores críticos (critérios/subcritérios) presentes na gestão dos periódicos científicos eletrônicos. Assim com esse trabalho espera-se contribuir para futuras pesquisas e parar o melhoramento da gestão de periódicos científicos eletrônicos e proporcionar vantagens competitivas.
DOI: 10.6084/m9.figshare.1276105
title: A new method to analyze species abundances in space: R Source and model output

description: R and R markdown source code, and model output files for the manuscript: Saravia, L.A. (2015). A new method to analyse species abundances in space using generalized dimensions. <i>Methods Ecol. Evol.</i>, 6, 1298–1310Available as a pre-print: https://dx.doi.org/10.7287/peerj.preprints.745v5 Other code used in the manuscript is - The neutral/hierarchical model: https://github.com/lsaravia/neutral - The generalized dimension estimation software: https://github.com/lsaravia/mfsba
DOI: 10.6084/m9.figshare.1276098
title: 1000 Backlinks to sina.com.cn (16-Dec-2014) -- varocarbas.com

description: High quality backlinks to sina.com.cn. The retrieval process was completed on 16-Dec-2014.
DOI: 10.6084/m9.figshare.1276100
title: Bulk Domain Names (21-Dec-2014) -- varocarbas.com

description: (21-Dec-2014) 2244637 valid web domain names collected by the (bulk) crawling bots running on varocarbas.com.
DOI: 10.6084/m9.figshare.1276100.v1
title: Bulk Domain Names (21-Dec-2014) -- varocarbas.com

description: (21-Dec-2014) 2244637 valid web domain names collected by the (bulk) crawling bots running on varocarbas.com.
DOI: 10.6084/m9.figshare.1276088
title: 1000 Backlinks to baidu.com (16-Dec-2014) -- varocarbas.com

description: High quality backlinks to baidu.com. The retrieval process was completed on 16-Dec-2014.
DOI: 10.6084/m9.figshare.1276105.v1
title: A new method to analyze species abundances in space: R Source and model output

description: R and R markdown source code, and model output files for the manuscript: Saravia LA. (2014) A new method to analyze species abundances in space using generalized dimensions. PeerJ PrePrints 2:e745v1http://dx.doi.org/10.7287/peerj.preprints.745v1 Other code used in the manuscript is - The neutral/hierarchical model: https://github.com/lsaravia/neutral - The generalized dimension estimation software: https://github.com/lsaravia/mfsba
DOI: 10.6084/m9.figshare.1276098.v1
title: High quality backlinks to sina.com.cn. The retrieval process was completed on 16-Dec-2014.

description: High quality backlinks to sina.com.cn. The retrieval process was completed on 16-Dec-2014.
DOI: 10.6084/m9.figshare.1276088.v2
title: 1000 Backlinks to baidu.com (16-Dec-2014) -- varocarbas.com

description: High quality backlinks to baidu.com. The retrieval process was completed on 16-Dec-2014.
DOI: 10.6084/m9.figshare.1276098.v3
title: 1000 Backlinks to sina.com.cn (16-Dec-2014) -- varocarbas.com

description: High quality backlinks to sina.com.cn. The retrieval process was completed on 16-Dec-2014.
DOI: 10.6084/m9.figshare.1276105.v2
title: A new method to analyze species abundances in space: R Source and model output

description: R and R markdown source code, and model output files for the manuscript: Saravia LA. (2014) A new method to analyze species abundances in space using generalized dimensions. PeerJ PrePrints 2:e745v1http://dx.doi.org/10.7287/peerj.preprints.745v1 Other code used in the manuscript is - The neutral/hierarchical model: https://github.com/lsaravia/neutral - The generalized dimension estimation software: https://github.com/lsaravia/mfsba
DOI: 10.6084/m9.figshare.1276088.v1
title: 1000 Backlinks to baidu.com (16-Dec-2014) -- varocarbas.com

description: High quality backlinks to baidu.com. The retrieval process was completed on 16-Dec-2014.
DOI: 10.6084/m9.figshare.1276098.v2
title: 1000 Backlinks to sina.com.cn (16-Dec-2014) -- varocarbas.com

description: High quality backlinks to sina.com.cn. The retrieval process was completed on 16-Dec-2014.
DOI: 10.6084/m9.figshare.12921575
title: Annotated CDS sequences for each soybean genome

description: CDS sequences from genome annotation
DOI: 10.6084/m9.figshare.1276048
title: Modified subopt.c

description: This file contains code for implementing the Wuchty algorithm with helix filters, energy-independent lonely pairs, and conditional chemical probing constraints. The starting point was the subopt.c file in the Vienna RNA websuite 1.8.3.
DOI: 10.6084/m9.figshare.1276050
title: Vienna RNA subopt++

description: This package contains all parts of the code necessary to run the Vienna RNA folding programs, including the modifications made to the Wuchty algorithm for optional multibranch loops, global constraints on the minimum number and length of helices, conditional chemical probing constraints, and an energy-independent lonely pairs filter. The starting point was the Vienna RNA websuite 1.8.3. Refer to the Vienna website http://www.tbi.univie.ac.at/RNA/ for the most current version fo the Vienna RNA package and also all previous versions. Please cite Algorithms for Molecular Biology, 6:1 26, 2011, doi:10.1186/1748-7188-6-26. This modified package is also available at http://adenosine.chem.ou.edu/software.html. Have fun folding RNA!
DOI: 10.6084/m9.figshare.1276048.v1
title: Modified subopt.c

description: This file contains code for implementing the Wuchty algorithm with helix filters, energy-independent lonely pairs, and conditional chemical probing constraints. The starting point was the subopt.c file in the Vienna RNA websuite 1.8.3.
DOI: 10.6084/m9.figshare.1276105.v3
title: A new method to analyze species abundances in space: R Source and model output

description: R and R markdown source code, and model output files for the manuscript: Saravia LA. (2014) A new method to analyze species abundances in space using generalized dimensions. PeerJ PrePrints 2:e745v1http://dx.doi.org/10.7287/peerj.preprints.745v1 Other code used in the manuscript is - The neutral/hierarchical model: https://github.com/lsaravia/neutral - The generalized dimension estimation software: https://github.com/lsaravia/mfsba
DOI: 10.6084/m9.figshare.1276047
title: Modified RNAsubopt.c

description: This file contains code for implementing the Wuchty algorithm with helix filters, energy-independent lonely pairs, and conditional chemical probing constraints. The starting point is from the Vienna RNA websuite 1.8.3.
DOI: 10.6084/m9.figshare.1276045
title: Prog-RNAsubopt.c patch file

description: This file identifies changes to the Prog-RNAsubopt.c file in the Vienna RNA websuite 1.8.3.
DOI: 10.6084/m9.figshare.1276046
title: MPI

description: This file contains the code for parallelization of the Wuchty algorithm in the VIenna RNA websuite 1.8.3 using MPI.
DOI: 10.6084/m9.figshare.1276047.v1
title: Modified RNAsubopt.c

description: This file contains code for implementing the Wuchty algorithm with helix filters, energy-independent lonely pairs, and conditional chemical probing constraints. The starting point is from the Vienna RNA websuite 1.8.3.
DOI: 10.6084/m9.figshare.1276105.v4
title: A new method to analyze species abundances in space: R Source and model output

description: R and R markdown source code, and model output files for the manuscript: Saravia LA. (2015) A new method to analyze species abundances in space using generalized dimensions. PeerJ PrePrints 3:e1321 https://dx.doi.org/10.7287/peerj.preprints.745v5 Other code used in the manuscript is - The neutral/hierarchical model: https://github.com/lsaravia/neutral - The generalized dimension estimation software: https://github.com/lsaravia/mfsba
DOI: 10.6084/m9.figshare.1276045.v1
title: Prog-RNAsubopt.c patch file

description: This file identifies changes to the Prog-RNAsubopt.c file in the Vienna RNA websuite 1.8.3.
DOI: 10.6084/m9.figshare.1276046.v1
title: MPI

description: This file contains the code for parallelization of the Wuchty algorithm in the VIenna RNA websuite 1.8.3 using MPI.
DOI: 10.6084/m9.figshare.1276020
title: ERDC Computational Mechanics Presentations at AGU 2014

description: This is the collection of posters and talks presented by the computational mechanics group at the US Army Engineer Research and Development Center in the American Geophysical Union Fall Meeting.
DOI: 10.6084/m9.figshare.1276043
title: Patch file for lib-cofold.c

description: This file identifies the changes made to the lib-cofold.c file in the Vienna RNA websuite 8.1.3
DOI: 10.6084/m9.figshare.1276044
title: lib-subopt.c patch file

description: This file identifies the changes made to the subopt.c file in the Vienna RNA websuite 1.8.3
DOI: 10.6084/m9.figshare.12921548
title: Annotated peptide sequence for each soybean genome

description: Peptide sequences from genome annotations.
DOI: 10.6084/m9.figshare.1276020.v2
title: ERDC Computational Mechanics Presentations at AGU 2014

description: This is the collection of posters and talks presented by the computational mechanics group at the US Army Engineer Research and Development Center in the American Geophysical Union Fall Meeting.
DOI: 10.6084/m9.figshare.1276014
title: Nck adaptors, besides promoting N-WASP mediated actin-nucleation activity at pedestals, influence the cellular levels of enteropathogenic <i>Escherichia coli</i> Tir effector

description: Enteropathogenic <i>Escherichia coli</i> (EPEC) binding to human intestinal cells triggers the formation of disease-associated actin rich structures called pedestals. The latter process requires the delivery, via a Type 3 secretion system, of the translocated Intimin receptor (Tir) protein into the host plasma membrane where binding of a host kinase-modified form to the bacterial surface protein Intimin triggers pedestal formation. Tir-Intimin interaction recruits the Nck adaptor to a Tir tyrosine phosphorylated residue where it activates neural Wiskott-Aldrich syndrome protein (N-WASP); initiating the major pathway to actin polymerization mediated by the actin-related protein (Arp) 2/3 complex. Previous studies with Nck-deficient mouse embryonic fibroblasts (MEFs) identified a key role for Nck in pedestal formation, presumed to reflect a lack of N-WASP activation. Here, we show the defect relates to reduced amounts of Tir within Nck-deficient cells. Indeed, Tir delivery and, thus, pedestal formation defects were much greater for MEFs than HeLa (human epithelial) cells. Crucially, the levels of two other effectors (EspB/EspF) within Nck-deficient MEFs were not reduced unlike that of Map (Mitochondrial associated protein) which, like Tir, requires CesT chaperone function for efficient delivery. Interestingly, drugs blocking various host protein degradation pathways failed to increase Tir cellular levels unlike an inhibitor of deacetylase activity (Trichostatin A; TSA). Treatments with TSA resulted in significant recovery of Tir levels, potentiation of actin polymerization and improvement in bacterial attachment to cells. Our findings have important implications for the current model of Tir-mediated actin polymerization and opens new lines of research in this area.
DOI: 10.6084/m9.figshare.1276020.v1
title: ERDC Computational Mathematics Presentations at AGU 2014

description: This is the collection of posters and talks presented by the computational mathematics group at the US Army Engineer Research and Development Center in the American Geophysical Union Fall Meeting.
DOI: 10.6084/m9.figshare.1276014.v2
title: Nck adaptors, besides promoting N-WASP mediated actin-nucleation activity at pedestals, influence the cellular levels of enteropathogenic <i>Escherichia coli</i> Tir effector

description: Enteropathogenic <i>Escherichia coli</i> (EPEC) binding to human intestinal cells triggers the formation of disease-associated actin rich structures called pedestals. The latter process requires the delivery, via a Type 3 secretion system, of the translocated Intimin receptor (Tir) protein into the host plasma membrane where binding of a host kinase-modified form to the bacterial surface protein Intimin triggers pedestal formation. Tir-Intimin interaction recruits the Nck adaptor to a Tir tyrosine phosphorylated residue where it activates neural Wiskott-Aldrich syndrome protein (N-WASP); initiating the major pathway to actin polymerization mediated by the actin-related protein (Arp) 2/3 complex. Previous studies with Nck-deficient mouse embryonic fibroblasts (MEFs) identified a key role for Nck in pedestal formation, presumed to reflect a lack of N-WASP activation. Here, we show the defect relates to reduced amounts of Tir within Nck-deficient cells. Indeed, Tir delivery and, thus, pedestal formation defects were much greater for MEFs than HeLa (human epithelial) cells. Crucially, the levels of two other effectors (EspB/EspF) within Nck-deficient MEFs were not reduced unlike that of Map (Mitochondrial associated protein) which, like Tir, requires CesT chaperone function for efficient delivery. Interestingly, drugs blocking various host protein degradation pathways failed to increase Tir cellular levels unlike an inhibitor of deacetylase activity (Trichostatin A; TSA). Treatments with TSA resulted in significant recovery of Tir levels, potentiation of actin polymerization and improvement in bacterial attachment to cells. Our findings have important implications for the current model of Tir-mediated actin polymerization and opens new lines of research in this area.
DOI: 10.6084/m9.figshare.1276014.v1
title: Nck adaptors, besides promoting N-WASP mediated actin-nucleation activity at pedestals, influence the cellular levels of enteropathogenic <i>Escherichia coli</i> Tir effector

description: Enteropathogenic <i>Escherichia coli</i> (EPEC) binding to human intestinal cells triggers the formation of disease-associated actin rich structures called pedestals. The latter process requires the delivery, via a Type 3 secretion system, of the translocated Intimin receptor (Tir) protein into the host plasma membrane where binding of a host kinase-modified form to the bacterial surface protein Intimin triggers pedestal formation. Tir-Intimin interaction recruits the Nck adaptor to a Tir tyrosine phosphorylated residue where it activates neural Wiskott-Aldrich syndrome protein (N-WASP); initiating the major pathway to actin polymerization mediated by the actin-related protein (Arp) 2/3 complex. Previous studies with Nck-deficient mouse embryonic fibroblasts (MEFs) identified a key role for Nck in pedestal formation, presumed to reflect a lack of N-WASP activation. Here, we show the defect relates to reduced amounts of Tir within Nck-deficient cells. Indeed, Tir delivery and, thus, pedestal formation defects were much greater for MEFs than HeLa (human epithelial) cells. Crucially, the levels of two other effectors (EspB/EspF) within Nck-deficient MEFs were not reduced unlike that of Map (Mitochondrial associated protein) which, like Tir, requires CesT chaperone function for efficient delivery. Interestingly, drugs blocking various host protein degradation pathways failed to increase Tir cellular levels unlike an inhibitor of deacetylase activity (Trichostatin A; TSA). Treatments with TSA resulted in significant recovery of Tir levels, potentiation of actin polymerization and improvement in bacterial attachment to cells. Our findings have important implications for the current model of Tir-mediated actin polymerization and opens new lines of research in this area.
DOI: 10.6084/m9.figshare.1276010
title: The syntaxin 31-induced gene, LESION SIMULATING DISEASE1 (LSD1), functions in <i>Glycine max</i> defense to the root parasite <i>Heterodera glycines</i>

description: Experiments show the membrane fusion genes α soluble NSF attachment protein (α-SNAP) and syntaxin 31 (Gm-SYP38) contribute to the ability of <i>Glycine max</i> to defend itself from infection by the plant parasitic nematode <i>Heterodera glycines</i>. Accompanying their expression is the transcriptional activation of the defense genes ENHANCED DISEASE SUSCEPTIBILITY1 (EDS1) and NONEXPRESSOR OF PR1 (NPR1) that function in salicylic acid (SA) signaling. These results implicate the added involvement of the antiapoptotic, environmental response gene LESION SIMULATING DISEASE1 (LSD1) in defense. Roots engineered to overexpress the <i>G. max</i> defense genes Gm-α-SNAP, SYP38, EDS1, NPR1, BOTRYTIS INDUCED KINASE1 (BIK1) and xyloglucan endotransglycosylase/hydrolase (XTH) in the susceptible genotype <i>G. max</i><sub>[Williams 82/PI 518671]</sub> have induced Gm-LSD1 (Gm-LSD1–2) transcriptional activity. In reciprocal experiments, roots engineered to overexpress Gm-LSD1–2 in the susceptible genotype <i>G. max</i><sub>[Williams 82/PI 518671]</sub> have induced levels of SYP38, EDS1, NPR1, BIK1 and XTH, but not α-SNAP prior to infection. In tests examining the role of Gm-LSD1–2 in defense, its overexpression results in ∼52 to 68% reduction in nematode parasitism. In contrast, RNA interference (RNAi) of Gm-LSD1–2 in the resistant genotype <i>G. max</i><sub>[Peking/PI 548402]</sub> results in an 3.24–10.42 fold increased ability of <i>H. glycines</i> to parasitize. The results identify that Gm-LSD1–2 functions in the defense response of <i>G. max</i> to <i>H. glycines</i> parasitism. It is proposed that LSD1, as an antiapoptotic protein, may establish an environment whereby the protected, living plant cell could secrete materials in the vicinity of the parasitizing nematode to disarm it. After the targeted incapacitation of the nematode the parasitized cell succumbs to its targeted demise as the infected root region is becoming fortified.
DOI: 10.6084/m9.figshare.1276006
title: Revision of the giant pterygote insect <i>Bojophlebia prokopi</i> Kukalová-Peck, 1985 (Hydropalaeoptera: Bojophlebiidae) from the Carboniferous of the Czech Republic, with the first cladistic analysis of fossil palaeopterous insects

description: The holotype is redescribed of the giant pterygote insect <i>Bojophlebia prokopi</i> Kukalová-Peck, 1985 from the Pennsylvanian of the Czech Republic. Multiple errors in the original description are documented and corrected. <i>Bojophlebia prokopi</i> has neither any visible traces of a costal brace nor an anal brace, but it does show triadic branchings of MA, MP, CuA, and even, as rare a plesiomorphy, of CuP. It is therefore rejected as a fossil stem mayfly and attributed as sister group of all other Hydropalaeoptera. The first cladistic analysis of fossil palaeopterous insects, including different palaeodictyopterid groups, is presented. A revised phylogeny of Hydropalaeoptera and the stem line of Ephemeroptera are suggested. Palaeodictyopterida is recognized as sister group of Neoptera; thus Palaeoptera <i>s.l</i>. is rejected as a paraphyletic taxon. Four new higher taxa – Paranotalia, Euhydropalaeoptera, Neopterygota and Litophlebioidea superfam. nov. – are introduced, as well as the new family Lithoneuridae.http://zoobank.org/urn/urn:lsid:zoobank.org:pub:1B16D6AB-2B29-4891-A61D-7A9212A85493
DOI: 10.6084/m9.figshare.1276010.v1
title: The syntaxin 31-induced gene, LESION SIMULATING DISEASE1 (LSD1), functions in <i>Glycine max</i> defense to the root parasite <i>Heterodera glycines</i>

description: Experiments show the membrane fusion genes alpha soluble NSF attachment protein (α-SNAP) and syntaxin 31 (Gm-SYP38) contribute to the ability of <i>Glycine max</i> to defend itself from infection by the plant parasitic nematode <i>Heterodera glycines</i>. Accompanying their expression is the transcriptional activation of the defense genes ENHANCED DISEASE SUSCEPTIBILITY1 (EDS1) and NONEXPRESSOR OF PR1 (NPR1) that function in salicylic acid (SA) signaling. These results implicate the added involvement of the antiapoptotic, environmental response gene LESION SIMULATING DISEASE1 (LSD1) in defense. Roots engineered to overexpress the <i>G. max</i> defense genes Gm-α-SNAP, SYP38, EDS1, NPR1, BOTRYTIS INDUCED KINASE1 (BIK1) and xyloglucan endotransglycosylase/hydrolase (XTH) in the susceptible genotype <i>G. max</i><sub>[Williams 82/PI 518671]</sub> have induced Gm-LSD1 (Gm-LSD1-2) transcriptional activity. In reciprocal experiments, roots engineered to overexpress Gm-LSD1-2 in the susceptible genotype <i>G. max</i><sub>[Williams 82/PI 518671]</sub> have induced levels of SYP38, EDS1, NPR1, BIK1 and XTH, but not α-SNAP prior to infection. In tests examining the role of Gm-LSD1-2 in defense, its overexpression results in ∼52 to 68% reduction in nematode parasitism. In contrast, RNA interference (RNAi) of Gm-LSD1-2 in the resistant genotype <i>G. max</i><sub>[Peking/PI 548402]</sub> results in an 3.24-10.42 fold increased ability of <i>H. glycines</i> to parasitize. The results identify that Gm-LSD1-2 functions in the defense response of <i>G. max</i> to <i>H. glycines</i> parasitism. It is proposed that LSD1, as an antiapoptotic protein, may establish an environment whereby the protected, living plant cell could secrete materials in the vicinity of the parasitizing nematode to disarm it. After the targeted incapacitation of the nematode the parasitized cell succumbs to its targeted demise as the infected root region is becoming fortified.
DOI: 10.6084/m9.figshare.1276006.v1
title: Revision of the giant pterygote insect <i>Bojophlebia prokopi</i> Kukalová-Peck, 1985 (Hydropalaeoptera: Bojophlebiidae) from the Carboniferous of the Czech Republic, with the first cladistic analysis of fossil palaeopterous insects

description: The holotype is redescribed of the giant pterygote insect <i>Bojophlebia prokopi</i> Kukalová-Peck, 1985 from the Pennsylvanian of the Czech Republic. Multiple errors in the original description are documented and corrected. <i>Bojophlebia prokopi</i> has neither any visible traces of a costal brace nor an anal brace, but it does show triadic branchings of MA, MP, CuA, and even, as rare a plesiomorphy, of CuP. It is therefore rejected as a fossil stem mayfly and attributed as sister group of all other Hydropalaeoptera. The first cladistic analysis of fossil palaeopterous insects, including different palaeodictyopterid groups, is presented. A revised phylogeny of Hydropalaeoptera and the stem line of Ephemeroptera are suggested. Palaeodictyopterida is recognized as sister group of Neoptera; thus Palaeoptera <i>s.l</i>. is rejected as a paraphyletic taxon. Four new higher taxa – Paranotalia, Euhydropalaeoptera, Neopterygota and Litophlebioidea superfam. nov. – are introduced, as well as the new family Lithoneuridae.http://zoobank.org/urn/urn:lsid:zoobank.org:pub:1B16D6AB-2B29-4891-A61D-A9212A85493