cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.1019906.v19
title: smFRET example datasets for the FRETBursts software

description: This fileset contains single-molecule FRET datasets used as demonstrative dataset for the FRETBursts software (https://github.com/tritemio/FRETBursts). These datasets come from smFRET experiments on a usALEX and 8-spot smFRET setups. <strong>File format</strong> The file format is Photon-HDF5, an open binary format for single-molecule data: http://photon-hdf5.readthedocs.org/ <strong>Dataset description</strong> Currently, two datasets are published: the first is a single-spot usALEX dataset and the second one is an 8-spot smFRET with single laser excitation. <strong>usALEX: '0023uLRpitc_NTP_20dT_0.5GndCl.sm'</strong> This dataset is a usALEX measurement of 20dt ssDNA oligos doubly labeled with Cy3B and Atto647N. The excitation laser frequencies are 523nm and 635nm. The objective lens is a 1.2NA Olympus water immersion lens. The 2 detectors are both Perkin Elmer (now Excelitas) single-pixel SPADs. <strong>8-spot smFRET: '12d_New_30p_320mW_steer_3.dat'</strong> This dataset is a smFRET measurement performed on a 8-spot smFRET system employing a single laser excitation (8ps pulsed, 532nm). The setup is an 8 excitation spots smFRET setup employing 2 8-pixel SPAD arrays fabricated in custom technology by the SPADLab group at Politecnico di Milano (Italy). The 8 excitation spots are generated by an LCOS-SLM and focused in the sample with an water immersion NA 1.2 Olympus lens. The sample is 40 base-pairs dsDNA oligo doubly labeled with ATTO550 and ATTO647N. The base-pair separation between the dyes is 12 base-pairs.
DOI: 10.6084/m9.figshare.1019906.v20
title: Freely-disffusing smFRET example datasets in

description: This fileset contains single-molecule FRET datasets used as demonstrative dataset for the FRETBursts software (https://github.com/tritemio/FRETBursts). These datasets come from smFRET experiments on a usALEX and 8-spot smFRET setups. <strong>File format</strong> The file format is Photon-HDF5, an open binary format for single-molecule data: http://photon-hdf5.readthedocs.org/ <strong>Dataset description</strong> Currently, two datasets are published: the first is a single-spot usALEX dataset and the second one is an 8-spot smFRET with single laser excitation. <strong>usALEX: '0023uLRpitc_NTP_20dT_0.5GndCl.sm'</strong> This dataset is a usALEX measurement of 20dt ssDNA oligos doubly labeled with Cy3B and Atto647N. The excitation laser frequencies are 523nm and 635nm. The objective lens is a 1.2NA Olympus water immersion lens. The 2 detectors are both Perkin Elmer (now Excelitas) single-pixel SPADs. <strong>8-spot smFRET: '12d_New_30p_320mW_steer_3.dat'</strong> This dataset is a smFRET measurement performed on a 8-spot smFRET system employing a single laser excitation (8ps pulsed, 532nm). The setup is an 8 excitation spots smFRET setup employing 2 8-pixel SPAD arrays fabricated in custom technology by the SPADLab group at Politecnico di Milano (Italy). The 8 excitation spots are generated by an LCOS-SLM and focused in the sample with an water immersion NA 1.2 Olympus lens. The sample is 40 base-pairs dsDNA oligo doubly labeled with ATTO550 and ATTO647N. The base-pair separation between the dyes is 12 base-pairs.
DOI: 10.6084/m9.figshare.1018784
title: Preventing Morbidity and mortality Of ICU Patients caused by MERS-CoV By Using Angiotensin 2 And Aldosterone Blockers with Glutathione Antioxidant 1-

description: This is proposal research I would like to investigate the molecular mechanism of pathophysiology and treatment complication of coronavirus. The aim of this study is to save patients lives in ICU.
DOI: 10.6084/m9.figshare.1018784.v1
title: Preventing Morbidity and mortality Of ICU Patients caused by MERS-CoV By Using Angiotensin 2 And Aldosterone Blockers with Glutathione Antioxidant 1-

description: This is proposal research I would like to investigate the molecular mechanism of pathophysiology and treatment complication of coronavirus. The aim of this study is to save patients lives in ICU.
DOI: 10.6084/m9.figshare.1019906.v21
title: Freely-diffusing smFRET example datasets in Photon-HDF5 format

description: This fileset contains freely-diffusing single-molecule FRET datasets on the Photon-HDF5 file format (http://photon-hdf5.readthedocs.org/). These files are also used as demo datasets for the FRETBursts burst analysis software (https://github.com/tritemio/FRETBursts). These datasets come from smFRET experiments on a us-ALEX, ns-ALEX and 8-spot smFRET setups. <strong>File format</strong> The file format is Photon-HDF5, an open binary format for single-molecule data: http://photon-hdf5.readthedocs.org/ <strong>Dataset description</strong> Currently, two datasets are published: the first is a single-spot usALEX dataset and the second one is an 8-spot smFRET with single laser excitation. <strong>usALEX: '0023uLRpitc_NTP_20dT_0.5GndCl.sm'</strong> This dataset is a usALEX measurement of 20dt ssDNA oligos doubly labeled with Cy3B and Atto647N. The excitation laser frequencies are 523nm and 635nm. The objective lens is a 1.2NA Olympus water immersion lens. The 2 detectors are both Perkin Elmer (now Excelitas) single-pixel SPADs. <strong>8-spot smFRET: '12d_New_30p_320mW_steer_3.dat'</strong> This dataset is a smFRET measurement performed on a 8-spot smFRET system employing a single laser excitation (8ps pulsed, 532nm). The setup is an 8 excitation spots smFRET setup employing 2 8-pixel SPAD arrays fabricated in custom technology by the SPADLab group at Politecnico di Milano (Italy). The 8 excitation spots are generated by an LCOS-SLM and focused in the sample with an water immersion NA 1.2 Olympus lens. The sample is 40 base-pairs dsDNA oligo doubly labeled with ATTO550 and ATTO647N. The base-pair separation between the dyes is 12 base-pairs.
DOI: 10.6084/m9.figshare.1018771
title: Cytokines measured with ELISA kits

description: RAW 264.7 cells were treated with welding fumes suspensions or 1 μg/ml LPS (endotoxin, positive control) for 24 h. Media were collected, and ELISAs were run to measure levels of TNFα, IL-6, and IL-1β. Values represent means from replicate wells per condition.
DOI: 10.6084/m9.figshare.1018767
title: Cytotoxicity and viability assay data

description: (sheet 1) RAW 264.7 cells were treated for 24 h with suspensions of welding fumes, washed, scraped into PBS, and cell counts/viability determined using trypan blue exclusion. Values represent the means of duplicate wells per condition. (sheet 2) Cells were pre-treated with and without <em>N</em>-acetyl-L-cysteine (NAC) for 1 h and then for 24 h with suspensions of welding fumes. MultiTox-Fluor Reagent (Promega) was added to all wells for 1 h at 37° C, and plates were read at 400ex/505em to determine the fluorescence signal from live cells. Values represent means (arbitrary fluorescence units)from 3 replicate wells.
DOI: 10.6084/m9.figshare.1018770
title: Phagocyosis Assay, normalized to controls

description: RAW 264.7 cells were treated with welding fume suspensions for 3 or 6 h or cytochalasin D for 3 h. Cells were washed, pHrodo Red <em>E. coli</em> BioParticles were added for 2 h, and plates were read to measure changes in fluorescence. All values were normalized to PBS controls (=100% phagocytosis). Values represent means from 3 replicate wells per condition.
DOI: 10.6084/m9.figshare.1019906.v22
title: Freely-diffusing smFRET example datasets in Photon-HDF5 format

description: This fileset contains freely-diffusing single-molecule FRET datasets on the Photon-HDF5 file format (http://photon-hdf5.readthedocs.org/). These files are also used as demo datasets for the FRETBursts burst analysis software (https://github.com/tritemio/FRETBursts). These datasets come from smFRET experiments on a us-ALEX, ns-ALEX and 8-spot smFRET setups. <strong>File format</strong> The file format is Photon-HDF5, an open binary format for single-molecule data: http://photon-hdf5.readthedocs.org/ <strong>Dataset description</strong> Currently, two datasets are published: the first is a single-spot usALEX dataset and the second one is an 8-spot smFRET with single laser excitation. <strong>usALEX: '0023uLRpitc_NTP_20dT_0.5GndCl.sm'</strong> This dataset is a usALEX measurement of 20dt ssDNA oligos doubly labeled with Cy3B and Atto647N. The excitation laser frequencies are 523nm and 635nm. The objective lens is a 1.2NA Olympus water immersion lens. The 2 detectors are both Perkin Elmer (now Excelitas) single-pixel SPADs. <strong>8-spot smFRET: '12d_New_30p_320mW_steer_3.dat'</strong> This dataset is a smFRET measurement performed on a 8-spot smFRET system employing a single laser excitation (8ps pulsed, 532nm). The setup is an 8 excitation spots smFRET setup employing 2 8-pixel SPAD arrays fabricated in custom technology by the SPADLab group at Politecnico di Milano (Italy). The 8 excitation spots are generated by an LCOS-SLM and focused in the sample with an water immersion NA 1.2 Olympus lens. The sample is 40 base-pairs dsDNA oligo doubly labeled with ATTO550 and ATTO647N. The base-pair separation between the dyes is 12 base-pairs.
DOI: 10.6084/m9.figshare.1018770.v1
title: Phagocyosis Assay, normalized to controls

description: RAW 264.7 cells were treated with welding fume suspensions for 3 or 6 h or cytochalasin D for 3 h. Cells were washed, pHrodo Red <em>E. coli</em> BioParticles were added for 2 h, and plates were read to measure changes in fluorescence. All values were normalized to PBS controls (=100% phagocytosis). Values represent means from 3 replicate wells per condition.
DOI: 10.6084/m9.figshare.1018762
title: The Location of Tropical Research Studies (Data)

description: <strong>The location of recent research in tropical forests.</strong> This is data associated with Figure 3 in Y. Malhi et al. (2014) Tropical forests in the Anthropocene. Annual Reviews in Environment and Resources. Volume 39. doi: 10.1146/annurev-environ-030713-155141. The figure is available at the following address: http://dx.doi.org/10.6084/m9.figshare.1017333 Field studies are identified from all papers with “tropical forest*” in the topic words through a search on ISI’s Web of Science for the journals <em>Biotropica, Conservation Biology, Ecology, Global Change Biology, </em>and<em> Journal of Tropical Ecology</em> (n = 321 articles, ~7% of all possible articles) between 2009-2013. We followed the methods of Pitman (2011 in Tropical Conservation Science), identifying field-based studies either by their locations or their latitude/longitude (represented in decimal degrees in the data set). Where studies had more than one site, either a single center point was chosen or the first/primary of the sites was used.
DOI: 10.6084/m9.figshare.1018763
title: Comet Assay-final % numbers

description: The values representing percentage DNA in comet tail are listed for all measured comets. The means/standard deviations of each group were used to make the graph.
DOI: 10.6084/m9.figshare.1018762.v1
title: The Location of Tropical Research Studies (Data)

description: <strong>The location of recent research in tropical forests.</strong> This is data associated with Figure 3 in Y. Malhi et al. (2014) Tropical forests in the Anthropocene. Annual Reviews in Environment and Resources. Volume 39. doi: 10.1146/annurev-environ-030713-155141. The figure is available at the following address: http://dx.doi.org/10.6084/m9.figshare.1017333 Field studies are identified from all papers with “tropical forest*” in the topic words through a search on ISI’s Web of Science for the journals <em>Biotropica, Conservation Biology, Ecology, Global Change Biology, </em>and<em> Journal of Tropical Ecology</em> (n = 321 articles, ~7% of all possible articles) between 2009-2013. We followed the methods of Pitman (2011 in Tropical Conservation Science), identifying field-based studies either by their locations or their latitude/longitude (represented in decimal degrees in the data set). Where studies had more than one site, either a single center point was chosen or the first/primary of the sites was used.
DOI: 10.6084/m9.figshare.1019906.v23
title: Freely-diffusing smFRET example datasets in Photon-HDF5 format

description: This fileset contains freely-diffusing single-molecule FRET datasets on the Photon-HDF5 file format (http://photon-hdf5.readthedocs.org/). These files are also used as demo datasets for the FRETBursts burst analysis software (https://github.com/tritemio/FRETBursts). These datasets come from smFRET experiments on a us-ALEX, ns-ALEX and 8-spot smFRET setups. <strong>File format</strong> The file format is Photon-HDF5, an open binary format for single-molecule data: http://photon-hdf5.readthedocs.org/ <strong>Dataset description</strong> Currently, two datasets are published: the first is a single-spot usALEX dataset and the second one is an 8-spot smFRET with single laser excitation. <strong>usALEX: '0023uLRpitc_NTP_20dT_0.5GndCl.hdf5'</strong> This dataset is a usALEX measurement of 20dt ssDNA oligos doubly labeled with Cy3B and Atto647N. The excitation laser frequencies are 523nm and 635nm. The objective lens is a 1.2NA Olympus water immersion lens. The 2 detectors are both Perkin Elmer (now Excelitas) single-pixel SPADs. <strong>8-spot smFRET: '12d_New_30p_320mW_steer_3.hdf5'</strong> This dataset is a smFRET measurement performed on a 8-spot smFRET system employing a single laser excitation (8ps pulsed, 532nm). The setup is an 8 excitation spots smFRET setup employing 2 8-pixel SPAD arrays fabricated in custom technology by the SPADLab group at Politecnico di Milano (Italy). The 8 excitation spots are generated by an LCOS-SLM and focused in the sample with an water immersion NA 1.2 Olympus lens. The sample is 40 base-pairs dsDNA oligo doubly labeled with ATTO550 and ATTO647N. The base-pair separation between the dyes is 12 base-pairs.
DOI: 10.6084/m9.figshare.1019906.v24
title: Freely-diffusing smFRET example datasets in Photon-HDF5 format

description: This fileset contains freely-diffusing single-molecule FRET datasets on the Photon-HDF5 file format (http://photon-hdf5.readthedocs.org/). These files are also used as demo datasets for the FRETBursts burst analysis software (https://github.com/tritemio/FRETBursts). These datasets come from smFRET experiments on a us-ALEX, ns-ALEX and 8-spot smFRET setups. <strong>File format</strong> The file format is Photon-HDF5, an open binary format for single-molecule data: http://photon-hdf5.readthedocs.org/ <strong>Dataset description</strong> Currently, two datasets are published: the first is a single-spot usALEX dataset and the second one is an 8-spot smFRET with single laser excitation. <strong>usALEX: '0023uLRpitc_NTP_20dT_0.5GndCl.hdf5'</strong> This dataset is a usALEX measurement of 20dt ssDNA oligos doubly labeled with Cy3B and Atto647N. The excitation laser frequencies are 523nm and 635nm. The objective lens is a 1.2NA Olympus water immersion lens. The 2 detectors are both Perkin Elmer (now Excelitas) single-pixel SPADs. <strong>8-spot smFRET: '12d_New_30p_320mW_steer_3.hdf5'</strong> This dataset is a smFRET measurement performed on a 8-spot smFRET system employing a single laser excitation (8ps pulsed, 532nm). The setup is an 8 excitation spots smFRET setup employing 2 8-pixel SPAD arrays fabricated in custom technology by the SPADLab group at Politecnico di Milano (Italy). The 8 excitation spots are generated by an LCOS-SLM and focused in the sample with an water immersion NA 1.2 Olympus lens. The sample is 40 base-pairs dsDNA oligo doubly labeled with ATTO550 and ATTO647N. The base-pair separation between the dyes is 12 base-pairs.
DOI: 10.6084/m9.figshare.1019906.v26
title: Example datasets of confocal smFRET experiments in Photon-HDF5 format

description: This fileset contains freely-diffusing single-molecule FRET datasets on the Photon-HDF5 file format (http://photon-hdf5.org/). These files are also used as demo datasets for the FRETBursts burst analysis software (http://tritemio.github.io/FRETBursts). These datasets come from smFRET experiments on a us-ALEX, ns-ALEX and 8-spot smFRET setups. <strong>File format</strong> The file format is Photon-HDF5, an open binary format for single-molecule data: http://photon-hdf5.org/ <strong>Dataset description</strong> Currently, two datasets are published: the first is a single-spot usALEX dataset and the second one is an 8-spot smFRET with single laser excitation. <strong>usALEX: '0023uLRpitc_NTP_20dT_0.5GndCl.hdf5'</strong> This dataset is a usALEX measurement of 20dt ssDNA oligos doubly labeled with Cy3B and Atto647N. The excitation laser frequencies are 523nm and 635nm. The objective lens is a 1.2NA Olympus water immersion lens. The 2 detectors are both Perkin Elmer (now Excelitas) single-pixel SPADs. <strong>8-spot smFRET: '12d_New_30p_320mW_steer_3.hdf5'</strong> This dataset is a smFRET measurement performed on a 8-spot smFRET system employing a single laser excitation (8ps pulsed, 532nm). The setup is an 8 excitation spots smFRET setup employing 2 8-pixel SPAD arrays fabricated in custom technology by the SPADLab group at Politecnico di Milano (Italy). The 8 excitation spots are generated by an LCOS-SLM and focused in the sample with an water immersion NA 1.2 Olympus lens. The sample is 40 base-pairs dsDNA oligo doubly labeled with ATTO550 and ATTO647N. The base-pair separation between the dyes is 12 base-pairs.
DOI: 10.6084/m9.figshare.1018702
title: UPS data set

description: Temperature data from a WSN node located indoors, monitoring the temperature by an UPS battery. 5000 data points, 1 per minute.
DOI: 10.6084/m9.figshare.1018703
title: Window data set

description: Temperature data from a WSN node located indoors, by a window. 5000 data points, 1 per minute.
DOI: 10.6084/m9.figshare.1019906.v25
title: Freely-diffusing smFRET example datasets in Photon-HDF5 format

description: This fileset contains freely-diffusing single-molecule FRET datasets on the Photon-HDF5 file format (http://photon-hdf5.readthedocs.org/). These files are also used as demo datasets for the FRETBursts burst analysis software (https://github.com/tritemio/FRETBursts). These datasets come from smFRET experiments on a us-ALEX, ns-ALEX and 8-spot smFRET setups. <strong>File format</strong> The file format is Photon-HDF5, an open binary format for single-molecule data: http://photon-hdf5.readthedocs.org/ <strong>Dataset description</strong> Currently, two datasets are published: the first is a single-spot usALEX dataset and the second one is an 8-spot smFRET with single laser excitation. <strong>usALEX: '0023uLRpitc_NTP_20dT_0.5GndCl.hdf5'</strong> This dataset is a usALEX measurement of 20dt ssDNA oligos doubly labeled with Cy3B and Atto647N. The excitation laser frequencies are 523nm and 635nm. The objective lens is a 1.2NA Olympus water immersion lens. The 2 detectors are both Perkin Elmer (now Excelitas) single-pixel SPADs. <strong>8-spot smFRET: '12d_New_30p_320mW_steer_3.hdf5'</strong> This dataset is a smFRET measurement performed on a 8-spot smFRET system employing a single laser excitation (8ps pulsed, 532nm). The setup is an 8 excitation spots smFRET setup employing 2 8-pixel SPAD arrays fabricated in custom technology by the SPADLab group at Politecnico di Milano (Italy). The 8 excitation spots are generated by an LCOS-SLM and focused in the sample with an water immersion NA 1.2 Olympus lens. The sample is 40 base-pairs dsDNA oligo doubly labeled with ATTO550 and ATTO647N. The base-pair separation between the dyes is 12 base-pairs.
DOI: 10.6084/m9.figshare.1018701
title: Ocean data set

description: Temperature data extracted from CTD data collected by NDBC (a part of NOAA). Original Data was collected at 7N 180W, on Mars 29, 2008. 1000 data points.
DOI: 10.6084/m9.figshare.1018700
title: Garden data set

description: Temperature data from a WSN node located in a garden. 5000 data points, 1 per minute.
DOI: 10.6084/m9.figshare.1018699
title: New <i>Australonura</i> Cassagnau 1980 (Neanuridae: Neanurinae) from Brazil

description: Two new species of <i>Australonura</i> Cassagnau 1980 from Brazil, <i>Australonura neotropica</i> sp. nov. and <i>Australonura gili</i> sp. nov., are described and illustrated. The species occur in sympatry at a high altitude plateau of the ‘Serra de Itatiaia’, a mountainous range in the southeast region of the country. These two species are the first record of <i>Australonura</i> for Brazil. A modified diagnosis of the genus is provided.http://zoobank.org/urn:lsid:zoobank.org:pub:8B898086-A0D4-4219-B5F4-EEA5D912F097
DOI: 10.6084/m9.figshare.1018600
title: Differences in vocalisations, morphology and mtDNA support species status for New Zealand saddleback <i>Philesturnus</i> spp

description: Appropriate definitions of species limits are critical for scientific study and conservation management. Many subspecies of birds are defined on the basis of phenotypic variation. However, it has been suggested that following close examination many of these subspecies will be recognised as good species. North Island (NI) (<i>Philesturnus rufusater</i>) and South Island (SI) saddlebacks (<i>P. carunculatus</i>) differ in plumage and apparent vulnerability to introduced predators and, until recently, were considered subspecific. Here, we formally compare vocalisations, morphology and mtDNA between NI and SI saddlebacks. We show significant differences in male song and chatter calls which are fundamental saddleback vocalisations. A discriminant analysis correctly allocated 90% of birds based on significantly larger tarsus, weight and wing measurements in SI saddlebacks relative to NI saddlebacks. Finally, molecular data show c. 5% sequence divergence in mtDNA between the two groups. We concur with previous work elevating NI and SI saddleback to full species.
DOI: 10.6084/m9.figshare.1018600.v1
title: Differences in vocalisations, morphology and mtDNA support species status for New Zealand saddleback <i>Philesturnus</i> spp

description: Appropriate definitions of species limits are critical for scientific study and conservation management. Many subspecies of birds are defined on the basis of phenotypic variation. However, it has been suggested that following close examination many of these subspecies will be recognised as good species. North Island (NI) (<i>Philesturnus rufusater</i>) and South Island (SI) saddlebacks (<i>P. carunculatus</i>) differ in plumage and apparent vulnerability to introduced predators and, until recently, were considered subspecific. Here, we formally compare vocalisations, morphology and mtDNA between NI and SI saddlebacks. We show significant differences in male song and chatter calls which are fundamental saddleback vocalisations. A discriminant analysis correctly allocated 90% of birds based on significantly larger tarsus, weight and wing measurements in SI saddlebacks relative to NI saddlebacks. Finally, molecular data show c. 5% sequence divergence in mtDNA between the two groups. We concur with previous work elevating NI and SI saddleback to full species.
DOI: 10.6084/m9.figshare.1018699.v2
title: New <i>Australonura</i> Cassagnau 1980 (Neanuridae: Neanurinae) from Brazil

description: Two new species of <i>Australonura</i> Cassagnau 1980 from Brazil, <i>Australonura neotropica</i> sp. nov. and <i>Australonura gili</i> sp. nov., are described and illustrated. The species occur in sympatry at a high altitude plateau of the ‘Serra de Itatiaia’, a mountainous range in the southeast region of the country. These two species are the first record of <i>Australonura</i> for Brazil. A modified diagnosis of the genus is provided.http://zoobank.org/urn:lsid:zoobank.org:pub:8B898086-A0D4-4219-B5F4-EEA5D912F097