cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25625/k9pbwm
title: Mawan.et.al.2022_BMC.Ecol.Evol._Collembola_species abundance per plot in two seasons 2013-2014

description: Species-abundance data per plot of 77,104 Collembola specimen from 9 families and 68 morphospecies, collected in rainforest, jungle rubber, and monocultures of rubber and oil palm in dry season 2013 and rainy season 2013-2014 in Jambi Province, Sumatra
DOI: 10.6084/m9.figshare.21518136.v1
title: Raw data

description: These dataset files contain the raw data obtained in this study. The data is structured in Excel spreadsheets. Each contains a table of data in which columns represent the tested groups and the rows represent the number of samples in each group. Each spreadsheet contains a dataset for a single test.
DOI: 10.6084/m9.figshare.21518136.v2
title: Raw data

description: These dataset files contain the raw data obtained in this study. The data is structured in Excel spreadsheets. Each contains a table of data in which columns represent the tested groups and the rows represent the number of samples in each group. Each spreadsheet contains a dataset for a single test.
DOI: 10.34740/kaggle/dsv/4471234
title: Retailrocket recommender system dataset
DOI: 10.5281/zenodo.7228179
title: Excel mapping tool for 2022 avian influenza data reporting

description: Data collection is an important task of the European Food Safety Authority (EFSA) and a fundamental component of risk assessment (Articles 22 and 23 of Regulation (EC) No 178/2002). EFSA receives a large volume of data from Member States (MSs) that is used in support of its risk assessment mission. Council Directive 2005/94/EC and Commission Decision 2010/367/EU lay down the guidelines for monitoring and reporting avian influenza surveillance data on poultry and wild birds by European Union (EU) MSs. EFSA has been assigned the task of collating, validating, analysing, and summarising in an annual report the results from the avian influenza surveillance programmes in poultry and wild birds. For the reporting of data, EFSA provides a Data Collection Framework that allows data providers to submit data in eXtensible Markup Language (XML) format through a web interface or a web service. Here, a data model describing the format, and the content requested when submitting data through the DCF, is provided. The data model supports the reporting of laboratory testing results for avian influenza in both wild birds, and poultry. The use of this reporting standard ensures that reported results are comparable between reporting countries. Data reported in this format will be used to generate epidemiological updates on the avian influenza surveillance testing carry out in Europe, and to provide scientific advice to the European Commission.
description: EU; xls; zoonoses_support@efsa.europa.eu
DOI: 10.5281/zenodo.7228178
title: Excel mapping tool for 2022 avian influenza data reporting

description: Data collection is an important task of the European Food Safety Authority (EFSA) and a fundamental component of risk assessment (Articles 22 and 23 of Regulation (EC) No 178/2002). EFSA receives a large volume of data from Member States (MSs) that is used in support of its risk assessment mission. Council Directive 2005/94/EC and Commission Decision 2010/367/EU lay down the guidelines for monitoring and reporting avian influenza surveillance data on poultry and wild birds by European Union (EU) MSs. EFSA has been assigned the task of collating, validating, analysing, and summarising in an annual report the results from the avian influenza surveillance programmes in poultry and wild birds. For the reporting of data, EFSA provides a Data Collection Framework that allows data providers to submit data in eXtensible Markup Language (XML) format through a web interface or a web service. Here, a data model describing the format, and the content requested when submitting data through the DCF, is provided. The data model supports the reporting of laboratory testing results for avian influenza in both wild birds, and poultry. The use of this reporting standard ensures that reported results are comparable between reporting countries. Data reported in this format will be used to generate epidemiological updates on the avian influenza surveillance testing carry out in Europe, and to provide scientific advice to the European Commission.
description: EU; xls; zoonoses_support@efsa.europa.eu
DOI: 10.5281/zenodo.7304879
title: Excel mapping tool for 2022 avian influenza data reporting

description: Data collection is an important task of the European Food Safety Authority (EFSA) and a fundamental component of risk assessment (Articles 22 and 23 of Regulation (EC) No 178/2002). EFSA receives a large volume of data from Member States (MSs) that is used in support of its risk assessment mission. Council Directive 2005/94/EC and Commission Decision 2010/367/EU lay down the guidelines for monitoring and reporting avian influenza surveillance data on poultry and wild birds by European Union (EU) MSs. EFSA has been assigned the task of collating, validating, analysing, and summarising in an annual report the results from the avian influenza surveillance programmes in poultry and wild birds. For the reporting of data, EFSA provides a Data Collection Framework that allows data providers to submit data in eXtensible Markup Language (XML) format through a web interface or a web service. Here, a data model describing the format, and the content requested when submitting data through the DCF, is provided. The data model supports the reporting of laboratory testing results for avian influenza in both wild birds, and poultry. The use of this reporting standard ensures that reported results are comparable between reporting countries. Data reported in this format will be used to generate epidemiological updates on the avian influenza surveillance testing carry out in Europe, and to provide scientific advice to the European Commission.
description: EU; xls; zoonoses_support@efsa.europa.eu
DOI: 10.5281/zenodo.7304891
title: Costs and Benefits of Energy Communities - Collection of Literature

description: The files contain references to studies of different impacts of energy communities, based on the collection reviewed in Berka & Creamer (2018) and with some additions. The typology of impacts differs from that used by Berka and Creamer.
DOI: 10.5281/zenodo.7304890
title: Costs and Benefits of Energy Communities - Collection of Literature

description: The files contain references to studies of different impacts of energy communities, based on the collection reviewed in Berka & Creamer (2018) and with some additions. The typology of impacts differs from that used by Berka and Creamer.
DOI: 10.6084/m9.figshare.21518136.v3
title: Enhancement of surface properties of polyetheretherketone implant material by fractional laser texturing

description: These dataset files contain the raw data obtained in this study. The data is structured in Excel spreadsheets. Each contains a table of data in which columns represent the tested groups and the rows represent the number of samples in each group. Each spreadsheet contains a dataset for a single test.
DOI: 10.6084/m9.figshare.6818396.v3
title: Combined treatment of human multiple myeloma cells with bortezomib and doxorubicin alters the interactome of 20S proteasomes

description: The proteasome is the key player in targeted degradation of cellular proteins and serves as a therapeutic target for treating several blood malignancies. Although in general, degradation of proteins via the proteasome requires their ubiquitination, a subset of proteins can be degraded independently of their ubiquitination by direct interaction with subunits of the 20S proteasome core. Thus, investigation of the proteasome-associated proteins may help identify novel targets of proteasome degradation and provide important insights into the mechanisms of malignant cell proteostasis. Here, using biochemical purification of proteasomes from multiple myeloma (MM) cells followed by mass-spectrometry we have uncovered 77 proteins in total that specifically interacted with the 20S proteasome via its PSMA3 subunit. Our GST pull-down assays followed by western blots validated the interactions identified by mass-spectrometry. Eleven proteins were confirmed to bind PSMA3 only upon apoptotic conditions induced by a combined treatment with the proteasome inhibitor, bortezomib, and genotoxic drug, doxorubicin. Nine of these eleven proteins contained bioinformatically predicted intrinsically disordered regions thus making them susceptible to ubiquitin-independent degradation. Importantly, among those proteins five interacted with the ubiquitin binding affinity matrix suggesting that these proteins may also be ubiquitinylated and hence degraded via the ubiquitin-dependent pathway. Collectively, these PSMA3-interacting proteins represent novel potential substrates for 20S proteasomes upon apoptosis. Furthermore, these data may shed light on the molecular mechanisms of cellular response to chemotherapy. <b>Abbreviations:</b> BD: bortezomib/doxorubicin treatment; CDK: cyclin-dependent kinases; CHCA: α-cyanohydroxycinnamic acid; IDP: intrinsically disordered proteins; IDR: intrinsically disordered regions; IPG: immobilized pI gradient; MALDI TOF/TOF: matrix-assisted laser desorption/ionization time-of-flight tandem mass-spectrometry; MM: multiple myeloma; ODC: ornithine decarboxylase; PI: proteasomal inhibitors; PSMA: alpha-type 20S proteasome subunits; PTMs: post-translational modifications; SDS-PAGE: sodium dodecylsulphate polyacrylamide gel electrophoresis; UIP: ubiquitin-independent proteasomal proteolysis.
DOI: 10.6084/m9.figshare.6938174
title: Senescence induction universally activates transposable element expression

description: Senescent cells constitutively secrete inflammatory cytokines, known as the senescence-associated secretory phenotype (SASP). Previous work has implicated SASP in immune-mediated clearance of senescent cells; however, its regulation remains unknown. Our recent transcriptome profiling study has shown that human senescent human stem and progenitors (s-HSPCs) robustly express genomic transposable elements (TEs) and pathways of inflammation. Furthermore, hypomethylating agents have been previously shown to induce expression of TEs and activate the dsRNA recognition pathway and downstream interferon-stimulated genes, leading to immune mediated cell death. Therefore, to examine whether activation of TEs occurred universally, independent of their modality of senescence induction, we performed transcriptomic analysis in artificially-induced senescent cell-lines and observed a robust activation of TEs. Hence we propose that the expression of TEs might play a role in immune mediated clearance of senescent cells.
DOI: 10.6084/m9.figshare.6818396
title: Combined treatment of human multiple myeloma cells with bortezomib and doxorubicin alters the interactome of 20S proteasomes

description: The proteasome is the key player in targeted degradation of cellular proteins and serves as a therapeutic target for treating several blood malignancies. Although in general, degradation of proteins via the proteasome requires their ubiquitination, a subset of proteins can be degraded independently of their ubiquitination by direct interaction with subunits of the 20S proteasome core. Thus, investigation of the proteasome-associated proteins may help identify novel targets of proteasome degradation and provide important insights into the mechanisms of malignant cell proteostasis. Here, using biochemical purification of proteasomes from multiple myeloma (MM) cells followed by mass-spectrometry we have uncovered 77 proteins in total that specifically interacted with the 20S proteasome via its PSMA3 subunit. Our GST pull-down assays followed by western blots validated the interactions identified by mass-spectrometry. Eleven proteins were confirmed to bind PSMA3 only upon apoptotic conditions induced by a combined treatment with the proteasome inhibitor, bortezomib, and genotoxic drug, doxorubicin. Nine of these eleven proteins contained bioinformatically predicted intrinsically disordered regions thus making them susceptible to ubiquitin-independent degradation. Importantly, among those proteins five interacted with the ubiquitin binding affinity matrix suggesting that these proteins may also be ubiquitinylated and hence degraded via the ubiquitin-dependent pathway. Collectively, these PSMA3-interacting proteins represent novel potential substrates for 20S proteasomes upon apoptosis. Furthermore, these data may shed light on the molecular mechanisms of cellular response to chemotherapy. <b>Abbreviations:</b> BD: bortezomib/doxorubicin treatment; CDK: cyclin-dependent kinases; CHCA: α-cyanohydroxycinnamic acid; IDP: intrinsically disordered proteins; IDR: intrinsically disordered regions; IPG: immobilized pI gradient; MALDI TOF/TOF: matrix-assisted laser desorption/ionization time-of-flight tandem mass-spectrometry; MM: multiple myeloma; ODC: ornithine decarboxylase; PI: proteasomal inhibitors; PSMA: alpha-type 20S proteasome subunits; PTMs: post-translational modifications; SDS-PAGE: sodium dodecylsulphate polyacrylamide gel electrophoresis; UIP: ubiquitin-independent proteasomal proteolysis.
DOI: 10.6084/m9.figshare.6938174.v1
title: Senescence Induction Universally Activates Transposable Element Expression

description: Senescent cells constitutively secrete inflammatory cytokines, known as the senescence-associated secretory phenotype (SASP). Previous work has implicated SASP in immune-mediated clearance of senescent cells; however, its regulation remains unknown. Our recent transcriptome profiling study has shown that human senescent human stem and progenitors (s-HSPCs) robustly express genomic transposable elements (TEs) and pathways of inflammation. Furthermore, hypomethylating agents have been previously shown to induce expression of TEs and activate the dsRNA recognition pathway and downstream interferon-stimulated genes, leading to immune mediated cell death. Therefore, to examine whether activation of TEs occurred universally, independent of their modality of senescence induction, we performed transcriptomic analysis in artificially-induced senescent cell-lines and observed a robust activation of TEs. Hence we propose that the expression of TEs might play a role in immune mediated clearance of senescent cells.
DOI: 10.6084/m9.figshare.6938174.v2
title: Senescence induction universally activates transposable element expression

description: Senescent cells constitutively secrete inflammatory cytokines, known as the senescence-associated secretory phenotype (SASP). Previous work has implicated SASP in immune-mediated clearance of senescent cells; however, its regulation remains unknown. Our recent transcriptome profiling study has shown that human senescent human stem and progenitors (s-HSPCs) robustly express genomic transposable elements (TEs) and pathways of inflammation. Furthermore, hypomethylating agents have been previously shown to induce expression of TEs and activate the dsRNA recognition pathway and downstream interferon-stimulated genes, leading to immune mediated cell death. Therefore, to examine whether activation of TEs occurred universally, independent of their modality of senescence induction, we performed transcriptomic analysis in artificially-induced senescent cell-lines and observed a robust activation of TEs. Hence we propose that the expression of TEs might play a role in immune mediated clearance of senescent cells.
DOI: 10.6084/m9.figshare.6818396.v2
title: Combined treatment of human multiple myeloma cells with bortezomib and doxorubicin alters the interactome of 20S proteasomes

description: The proteasome is the key player in targeted degradation of cellular proteins and serves as a therapeutic target for treating several blood malignancies. Although in general, degradation of proteins via the proteasome requires their ubiquitination, a subset of proteins can be degraded independently of their ubiquitination by direct interaction with subunits of the 20S proteasome core. Thus, investigation of the proteasome-associated proteins may help identify novel targets of proteasome degradation and provide important insights into the mechanisms of malignant cell proteostasis. Here, using biochemical purification of proteasomes from multiple myeloma (MM) cells followed by mass-spectrometry we have uncovered 77 proteins in total that specifically interacted with the 20S proteasome via its PSMA3 subunit. Our GST pull-down assays followed by western blots validated the interactions identified by mass-spectrometry. Eleven proteins were confirmed to bind PSMA3 only upon apoptotic conditions induced by a combined treatment with the proteasome inhibitor, bortezomib, and genotoxic drug, doxorubicin. Nine of these eleven proteins contained bioinformatically predicted intrinsically disordered regions thus making them susceptible to ubiquitin-independent degradation. Importantly, among those proteins five interacted with the ubiquitin binding affinity matrix suggesting that these proteins may also be ubiquitinylated and hence degraded via the ubiquitin-dependent pathway. Collectively, these PSMA3-interacting proteins represent novel potential substrates for 20S proteasomes upon apoptosis. Furthermore, these data may shed light on the molecular mechanisms of cellular response to chemotherapy. <b>Abbreviations:</b> BD: bortezomib/doxorubicin treatment; CDK: cyclin-dependent kinases; CHCA: α-cyanohydroxycinnamic acid; IDP: intrinsically disordered proteins; IDR: intrinsically disordered regions; IPG: immobilized pI gradient; MALDI TOF/TOF: matrix-assisted laser desorption/ionization time-of-flight tandem mass-spectrometry; MM: multiple myeloma; ODC: ornithine decarboxylase; PI: proteasomal inhibitors; PSMA: alpha-type 20S proteasome subunits; PTMs: post-translational modifications; SDS-PAGE: sodium dodecylsulphate polyacrylamide gel electrophoresis; UIP: ubiquitin-independent proteasomal proteolysis.
DOI: 10.6084/m9.figshare.6807206
title: Paip2 is localized to active promoters and loaded onto nascent mRNA in <i>Drosophila</i>

description: Paip2 (Poly(A)-binding protein – interacting protein 2) is a conserved metazoan-specific protein that has been implicated in regulating the translation and stability of mRNAs. However, we have found that Paip2 is not restricted to the cytoplasm but is also found in the nucleus in <i>Drosophila</i> embryos, salivary glands, testes, and tissue culture cells. Nuclear Paip2 is associated with chromatin, and in chromatin immunoprecipitation experiments it maps to the promoter regions of active genes. However, this chromatin association is indirect, as it is RNA-dependent. Thus, Paip2 is one more item in the growing list of translation factors that are recruited to mRNAs co-transcriptionally.
DOI: 10.6084/m9.figshare.6807206.v1
title: Paip2 is localized to active promoters and loaded onto nascent mRNA in <i>Drosophila</i>

description: Paip2 (Poly(A)-binding protein – interacting protein 2) is a conserved metazoan-specific protein that has been implicated in regulating the translation and stability of mRNAs. However, we have found that Paip2 is not restricted to the cytoplasm but is also found in the nucleus in <i>Drosophila</i> embryos, salivary glands, testes, and tissue culture cells. Nuclear Paip2 is associated with chromatin, and in chromatin immunoprecipitation experiments it maps to the promoter regions of active genes. However, this chromatin association is indirect, as it is RNA-dependent. Thus, Paip2 is one more item in the growing list of translation factors that are recruited to mRNAs co-transcriptionally.
DOI: 10.6084/m9.figshare.19672936
title: The Zeeman effect in CO<sup>+</sup> observed with rotational action spectroscopy

description: We discuss newly measured rotational transitions of CO<sup>+</sup> (X2Σ+) in its vibrational ground state <i>v</i> = 0, in particular the fine-structure components of the <i>N</i> = 0−1 and <i>N</i> = 1−2 transitions. We employed a rotational action spectroscopic technique in a cryogenic ion trap for the measurements. The recorded low-temperature and high-resolution spectra of CO<sup>+</sup> show resolved Zeeman splittings caused by the Earth's magnetic field. The highly accurate experimental transition frequencies and derived molecular constants agree with previous measurements and improve the spectroscopic parameters for this known interstellar molecular ion.
DOI: 10.6084/m9.figshare.19672936.v1
title: The Zeeman effect in CO<sup>+</sup> observed with rotational action spectroscopy

description: We discuss newly measured rotational transitions of CO<sup>+</sup> (X2Σ+) in its vibrational ground state <i>v</i> = 0, in particular the fine-structure components of the <i>N</i> = 0−1 and <i>N</i> = 1−2 transitions. We employed a rotational action spectroscopic technique in a cryogenic ion trap for the measurements. The recorded low-temperature and high-resolution spectra of CO<sup>+</sup> show resolved Zeeman splittings caused by the Earth's magnetic field. The highly accurate experimental transition frequencies and derived molecular constants agree with previous measurements and improve the spectroscopic parameters for this known interstellar molecular ion.
DOI: 10.6084/m9.figshare.20254555
title: Analysis of the ν<sub>1</sub>+ν<sub>3</sub> band of T<sub>2</sub><sup>16</sup>O and the ν <sub>1</sub> + ν <sub>3</sub> and 2ν<sub>2</sub> + ν<sub>3</sub> bands of DT<sup>16</sup>O

description: We present the ν1+ν3 band of T216O and the ν1+ν3 and 2ν2+ν3 bands of DT16O that have been analysed for the first time using high-resolution infrared spectra of tritiated water vapour. The spectrum for T216O has been recorded from a custom-built light-pipe cell at room temperature using a Bruker 125HR Fourier-transform spectrometer at a resolution of 0.025cm−1. For the DT16O species, an optimised version of the optical cell with 10 times larger maximum activity with regard to previous studies has been employed. For the ν1+ν3 band of T216O, we report 206 new experimental line positions in the range from 4415 to 4645cm−1. In the range of 4780–5175cm−1, 356 new experimental line positions of the DT16O have been assigned for the ν1+ν3 band and 161 line positions for the 2ν2+ν3 band. The analysis agrees with previous observations showing a systematic shift of the individual line positions compared to the variationally calculated line positions from the Tomsk database. This shift is depending on the rotational quantum number Ka. For each band, the assigned lines were used to determine the spectroscopic constants of the <i>A</i>-reduced Watson-type Hamiltonian.
DOI: 10.6084/m9.figshare.20254555.v1
title: Analysis of the ν<sub>1</sub>+ν<sub>3</sub> band of T<sub>2</sub><sup>16</sup>O and the ν <sub>1</sub> + ν <sub>3</sub> and 2ν<sub>2</sub> + ν<sub>3</sub> bands of DT<sup>16</sup>O

description: We present the ν1+ν3 band of T216O and the ν1+ν3 and 2ν2+ν3 bands of DT16O that have been analysed for the first time using high-resolution infrared spectra of tritiated water vapour. The spectrum for T216O has been recorded from a custom-built light-pipe cell at room temperature using a Bruker 125HR Fourier-transform spectrometer at a resolution of 0.025cm−1. For the DT16O species, an optimised version of the optical cell with 10 times larger maximum activity with regard to previous studies has been employed. For the ν1+ν3 band of T216O, we report 206 new experimental line positions in the range from 4415 to 4645cm−1. In the range of 4780–5175cm−1, 356 new experimental line positions of the DT16O have been assigned for the ν1+ν3 band and 161 line positions for the 2ν2+ν3 band. The analysis agrees with previous observations showing a systematic shift of the individual line positions compared to the variationally calculated line positions from the Tomsk database. This shift is depending on the rotational quantum number Ka. For each band, the assigned lines were used to determine the spectroscopic constants of the <i>A</i>-reduced Watson-type Hamiltonian.