cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.3207469.v1
title: <b>Spatial separation of replisome arrest sites influences homologous recombination quality at a Tus/</b><i><b>Ter</b></i><b>-mediated replication fork barrier</b>

description: The <i>Escherichia coli</i> replication fork arrest complex Tus/<i>Ter</i> mediates site-specific replication fork arrest and homologous recombination (HR) on a mammalian chromosome, inducing both conservative “short tract” gene conversion (STGC) and error-prone “long tract” gene conversion (LTGC) products. We showed previously that bidirectional fork arrest is required for the generation of STGC products at Tus/<i>Ter</i>-stalled replication forks and that the HR mediators BRCA1, BRCA2 and Rad51 mediate STGC but suppress LTGC at Tus/<i>Ter</i>-arrested forks. Here, we report the impact of <i>Ter</i> array length on Tus/<i>Ter</i>-induced HR, comparing HR reporters containing arrays of 6, 9, 15 or 21 <i>Ter</i> sites—each targeted to the <i>ROSA26</i> locus of mouse embryonic stem (ES) cells. Increasing <i>Ter</i> copy number within the array beyond 6 did not affect the magnitude of Tus/<i>Ter</i>-induced HR but biased HR in favor of LTGC. A “lock”-defective Tus mutant, F140A, known to exhibit higher affinity than wild type (wt)Tus for duplex <i>Ter</i>, reproduced these effects. In contrast, increasing <i>Ter</i> copy number within the array reduced HR induced by the I-SceI homing endonuclease, but produced no consistent bias towards LTGC. Thus, the mechanisms governing HR at Tus/<i>Ter</i>-arrested replication forks are distinct from those governing HR at an enzyme-induced chromosomal double strand break (DSB). We propose that increased spatial separation of the two arrested forks encountering an extended Tus/<i>Ter</i> barrier impairs the coordination of DNA ends generated by the processing of the stalled forks, thereby favoring aberrant LTGC over conservative STGC.
DOI: 10.6084/m9.figshare.3207748.v3
title: Mutation and social evolution

description: Mathematica file for the analysis,C codes for the simulations,R codes to analyse and plot the results.
DOI: 10.6084/m9.figshare.3207259
title: Kinetic constants complete results.

description: Enzyme kinetics of pure recombinant POXA 1B was characterized using ABTS as a substrate. Maximum velocity values (V<sub>max</sub>), substrate affinity or Michaelis constant (Km), catalytic constant or turnover number (K<sub>cat</sub>), and kinetic efficiency (specificity constant K<sub>cat</sub>/Km) also were found.
DOI: 10.6084/m9.figshare.3207262
title: Data After Dark OHSU BD2K Data Science Workshop Presentations from 01-14-2016

description: Data After Dark OHSU BD2K Data Science Workshop Presentations from 01-14-2016<br>Exploratory Data Analysis and visualizing your data Data, Ethics, Policies: don't get caught with your pants down with questionable data! Communicating your findings for maximal impact: Part 1: Self promotion Part 2: Pitch
DOI: 10.6084/m9.figshare.3207259.v1
title: Kinetic constants complete results.

description: Enzyme kinetics of pure recombinant POXA 1B was characterized using ABTS as a substrate. Maximum velocity values (V<sub>max</sub>), substrate affinity or Michaelis constant (Km), catalytic constant or turnover number (K<sub>cat</sub>), and kinetic efficiency (specificity constant K<sub>cat</sub>/Km) also were found.
DOI: 10.6084/m9.figshare.3207244
title: Data After Dark OHSU BD2K Data Science Workshop Presentations from 01-13-2016

description: Presentations from January 13th, 2016 for the Data After Dark short course. What is Big Data? And why it matters to you!Asking the right question, getting the right answers from your dataFinding data resources in the worldData handling 101 and OHSU data assets and tools
DOI: 10.6084/m9.figshare.3207262.v1
title: Data After Dark OHSU BD2K Data Science Workshop Presentations from 01-14-2016

description: Data After Dark OHSU BD2K Data Science Workshop Presentations from 01-14-2016<br>Exploratory Data Analysis and visualizing your data Data, Ethics, Policies: don't get caught with your pants down with questionable data! Communicating your findings for maximal impact: Part 1: Self promotion Part 2: Pitch
DOI: 10.6084/m9.figshare.3207244.v1
title: Presentations from 01-13-2016

description: Presentations from January 13th, 2016 for the Data After Dark short course. What is Big Data? And why it matters to you!Asking the right question, getting the right answers from your dataFinding data resources in the worldData handling 101 and OHSU data assets and tools
DOI: 10.6084/m9.figshare.3207262.v3
title: Data After Dark OHSU BD2K Data Science Workshop Presentations from 01-14-2016

description: Data After Dark OHSU BD2K Data Science Workshop Presentations from 01-14-2016<br>Exploratory Data Analysis and visualizing your data Data, Ethics, Policies: don't get caught with your pants down with questionable data! Communicating your findings for maximal impact: Part 1: Self promotion Part 2: Pitch
DOI: 10.6084/m9.figshare.3207244.v3
title: Data After Dark OHSU BD2K Data Science Workshop Presentations from 01-13-2016

description: Presentations from January 13th, 2016 for the Data After Dark short course. What is Big Data? And why it matters to you!Asking the right question, getting the right answers from your dataFinding data resources in the worldData handling 101 and OHSU data assets and tools
DOI: 10.6084/m9.figshare.3207262.v2
title: Data After Dark OHSU BD2K Data Science Workshop Presentations from 01-14-2016

description: Data After Dark OHSU BD2K Data Science Workshop Presentations from 01-14-2016<br>Exploratory Data Analysis and visualizing your data Data, Ethics, Policies: don't get caught with your pants down with questionable data! Communicating your findings for maximal impact: Part 1: Self promotion Part 2: Pitch
DOI: 10.6084/m9.figshare.3207244.v2
title: Data After Dark OHSU BD2K Data Science Workshop Presentations from 01-13-2016

description: Presentations from January 13th, 2016 for the Data After Dark short course. What is Big Data? And why it matters to you!Asking the right question, getting the right answers from your dataFinding data resources in the worldData handling 101 and OHSU data assets and tools
DOI: 10.6084/m9.figshare.3206923
title: NellDB

description: NellDB is an interlinked ontology.
DOI: 10.6084/m9.figshare.3206872
title: Effects of exotic pastures on tadpole assemblages in Pantanal floodplains: assessing changes in species composition

description: Land use change has been identified as a major driver of amphibian decline around the world. Yet we generally lack an understanding of how conversion to exotic pastures affects freshwater communities. This study examined tadpole assemblages in areas converted to exotic pastures and native wooded grasslands in northern Pantanal wetland, Midwestern Brazil. We tested the differences in site occupancy probability and assemblage composition during a flood season. We registered thirteen tadpole species, but only five were detected at levels suitable for occupancy modelling. For most species, tadpole occupancy was higher at the beginning of the flood season. Only <i>Scinax fuscomarginatus </i>occupancy was related with vegetation cover. Occupancy probability for three species (<i>Dendropsophus nanus</i>, <i>Physalaemus centralis</i>, and <i>Physalaemus cuvieri</i>) was associated positively with species richness of fish. Multivariate analyses demonstrated that exotic pastures hosted a different tadpole assemblage than native areas. The assemblage composition gradient was associated with species richness of fish, vegetation cover and volume of herbaceous vegetation and leaf litter. These differences likely relate to specific traits of individual anuran species (dietary plasticity, reproductive mode, and habitat preference). The study showed that some generalist species were able to cope with replacement of native vegetation by exotic species. However, management practices have maintained many areas in the Pantanal at a stage of a near-pristine wetland ecosystem and replacement of native vegetation by exotic pastures should be done with caution.
DOI: 10.6084/m9.figshare.3206887
title: The TRICLOBS Dynamic Multiband Image Dataset

description: The TRICLOBS dynamic multiband image dataset contains registered visual (400-700 nm) , near-infrared (NIR, 700-1000 nm) and longwave infrared (LWIR, 8-14 µm) motion sequences. This dataset is primarily intended for the development and evaluation of image fusion and color mapping algorithms for (military and civilian) surveillance applications. The imagery was collected during several field trials with the TRICLOBS (TRI-band Color Low-light OBServation) all-day all-weather surveillance system. The TRICLOBS system registers a scene in the Visual, NIR and LWIR part of the electromagnetic spectrum using three optically aligned sensors (two digital image intensifiers and an uncooled longwave infrared microbolometer). The three sensor signals are mapped to the three individual RGB color channels, digitized and stored as uncompressed RGB (false) color frames. The TRICLOBS image dataset contains 16 motion sequences representing different military and civilian surveillance scenarios and registered at three different locations. It is expected that the dataset will be useful for the development and evaluation of (both static and dynamic) image fusion and color mapping algorithms. To enable the development or realistic color remapping procedures, the dataset also contains color photographs of each of the three scenes. The color statistics derived from these photographs may be used to define color mappings that give the multiband imagery a realistic color appearance. Some color remapped examples are provides as MP4 movies.<br>
DOI: 10.6084/m9.figshare.3206872.v1
title: Effects of exotic pastures on tadpole assemblages in Pantanal floodplains: assessing changes in species composition

description: Land use change has been identified as a major driver of amphibian decline around the world. Yet we generally lack an understanding of how conversion to exotic pastures affects freshwater communities. This study examined tadpole assemblages in areas converted to exotic pastures and native wooded grasslands in northern Pantanal wetland, Midwestern Brazil. We tested the differences in site occupancy probability and assemblage composition during a flood season. We registered thirteen tadpole species, but only five were detected at levels suitable for occupancy modelling. For most species, tadpole occupancy was higher at the beginning of the flood season. Only <i>Scinax fuscomarginatus </i>occupancy was related with vegetation cover. Occupancy probability for three species (<i>Dendropsophus nanus</i>, <i>Physalaemus centralis</i>, and <i>Physalaemus cuvieri</i>) was associated positively with species richness of fish. Multivariate analyses demonstrated that exotic pastures hosted a different tadpole assemblage than native areas. The assemblage composition gradient was associated with species richness of fish, vegetation cover and volume of herbaceous vegetation and leaf litter. These differences likely relate to specific traits of individual anuran species (dietary plasticity, reproductive mode, and habitat preference). The study showed that some generalist species were able to cope with replacement of native vegetation by exotic species. However, management practices have maintained many areas in the Pantanal at a stage of a near-pristine wetland ecosystem and replacement of native vegetation by exotic pastures should be done with caution.
DOI: 10.6084/m9.figshare.3206962.v1
title: AHYST-Lena: The Lena River Hydrology and Statistics

description: This dataset contains mean annual and extreme flow data, compiled for the Lena River basin, Northern Eurasia. Current version: 1.1 (04 August 2016). Distributed under CC0 license.<br>This dataset should be cited as:<b>AHYST.Lena (2016) Compilative dataset on mean annual and extreme flows in the Lena River basin (compiled by Lebedeva L., Makarieva O., Tananaev N.), figshare, version 1.1 (04 August 2016), doi: 10.6084/m9.figshare.3206962</b><br>This database is subject to a precautive post-publication embargo on datafiles only. The embargo will be lifted on 11 August 2016.
DOI: 10.6084/m9.figshare.3206869
title: Equine gluteus medius muscle activity during locomotion on the treadmill

description: datasets supporting the conclusions of the research article
DOI: 10.6084/m9.figshare.3206923.v2
title: NellDB

description: NellDB is an interlinked ontology.
DOI: 10.6084/m9.figshare.3206923.v1
title: New draft item

description: NellDB is an interlinked ontology.
DOI: 10.6084/m9.figshare.3206869.v1
title: Equine gluteus medius muscle activity during locomotion on the treadmill

description: datasets supporting the conclusions of the research article
DOI: 10.6084/m9.figshare.3206962.v2
title: AHYST.Lena: The Lena River Hydrology and Statistics

description: This dataset contains mean annual and extreme flow data, compiled for the Lena River basin, Northern Eurasia. Current version: 1.1 (04 August 2016). Distributed under CC0 license.<br>This dataset should be cited as:<b>AHYST.Lena (2016) Compilative dataset on mean annual and extreme flows in the Lena River basin (compiled by Lebedeva L., Makarieva O., Tananaev N.), figshare, version 1.1 (04 August 2016), doi: 10.6084/m9.figshare.3206962</b><br>This database is subject to a precautive post-publication embargo on datafiles only. The embargo will be lifted on 11 August 2016.
DOI: 10.6084/m9.figshare.3206962.v3
title: AHYST.Lena: The Lena River Hydrology and Statistics

description: This dataset contains mean annual and extreme flow data, compiled for the Lena River basin, Northern Eurasia. Current version: 1.1 (04 August 2016). Distributed under CC0 license.<br>This dataset should be cited as:<b>AHYST.Lena (2016) Compilative dataset on mean annual and extreme flows in the Lena River basin (compiled by Lebedeva L., Makarieva O., Tananaev N.), figshare, version 1.1 (04 August 2016), doi: 10.6084/m9.figshare.3206962</b><br>This database is subject to a precautive post-publication embargo on datafiles only. The embargo will be lifted on 11 August 2016.
DOI: 10.4225/03/5726f9f4f3ead
title: Endang Larasati - Wayang Kulit (shadow puppet)

description: Endang Larasati, third wife of Prince Arjuna. Leather shadow puppet in Yogyakarta style.
DOI: 10.6084/m9.figshare.3206962.v4
title: AHYST.Lena: The Lena River Hydrology and Statistics

description: This dataset contains mean annual and extreme flow data, compiled for the Lena River basin, Northern Eurasia. Current version: 1.1 (04 August 2016). Data origin: digitized official Hydrological Yearbooks, Soviet (Russian) Hydrometeorological Service (1925-2007); online data, Russian Federal Water Resources Agency (2008-2013). Distributed under CC0 license.<br>This dataset should be cited as:<b>AHYST.Lena (2016) Arctic Hydrology and Statistics for the Lena River basin. Compilative dataset on mean annual and extreme flows in the Lena River basin (compiled by Makarieva O., Tananaev N., </b><b>Lebedeva L.</b><b>), figshare, version 1.1 (04 August 2016), doi: 10.6084/m9.figshare.3206962</b><br>This database is subject to a precautive post-publication embargo on datafiles only. The embargo will be lifted on 11 August 2016.
DOI: 10.4225/03/5726f9d957d94
title: Kareta Kencana - Wayang Kulit (shadow puppet)

description: Kareta Kencana, a carriage with driver, used in performances of any story, as appropriate.<b> </b>Leather shadow puppet in Yogyakarta(?)
DOI: 10.4225/03/5726f9cb282e3
title: Srimpi or Bedhaya Srimpi - Wayang Kulit (shadow puppet)

description: A composite puppet called Srimpi or Bedhaya Srimpi, named from sacred Javanese court dances, showing several female dancers carrying offerings to present to the King in his audience chamber. (Also called: Banyak Dalang, Sawunggaling, Kacu mas, Dwipanggi Mara Retna). Leather shadow puppet in Yogyakarta style.
DOI: 10.6084/m9.figshare.3206962.v5
title: AHYST.Lena: The Lena River Hydrology and Statistics

description: This dataset contains mean annual and extreme flow data, compiled for the Lena River basin, Northern Eurasia. Current version: 1.1 (04 August 2016). Data origin: digitized official Hydrological Yearbooks, Soviet (Russian) Hydrometeorological Service (1925-2007); online data, Russian Federal Water Resources Agency (2008-2013). Distributed under CC0 license.<br>This dataset should be cited as:<b>AHYST.Lena (2016) Arctic Hydrology and Statistics for the Lena River basin. Compilative dataset on mean annual and extreme flows in the Lena River basin (compiled by Makarieva O., Tananaev N., </b><b>Lebedeva L.</b><b>), figshare, version 1.1 (04 August 2016), doi: 10.6084/m9.figshare.3206962</b><br><br>
DOI: 10.4225/03/5726f9b9c8bab
title: Semar - Wayang Kulit (shadow puppet)

description: Semar, clown-god, depicted with an older brown face. Used in the Mahabharata and Ramayana cycles. Leather shadow puppet in the Surakarta style.
DOI: 10.4225/03/5726f860ea6ec
title: Prince Panji - Wayang Klithik (wooden puppet)

description: Prince Panji, from the Panji cycle. A wooden puppet used in Wayang Klithik (wooden puppet) theatre in Central Java<b> </b>(Yogyakarta).
DOI: 10.4225/03/5726f9a9d7697
title: King Baladewa - Wayang Kulit (shadow puppet)

description: Kinda Baladewa, from the Mahabharata epic. Leather shadow puppet in the Yogyakarta style.
DOI: 10.4225/03/5726f9969a964
title: Emban or Parekan (single) - Wayang Kulit (shadow puppet)

description: Emban or Parekan, leather shadow puppet in the Cirebon style.
DOI: 10.4225/03/5726f987b86e2
title: Jaya Anggeni - Wayang Kulit (shadow puppet)

description: Jaya Anggeni, leather shadow puppet in the Surakarta style.
DOI: 10.4225/03/5726f9587567b
title: Jaya Anggeni - Wayang Kulit (shadow puppet)

description: Jaya Anggeni, Leather shadow puppet in the Cirebon style.
DOI: 10.4225/03/5726f96756fa4
title: Bathara Kamajaya or Sang Hyang Kamajaya (God of Love) - Wayang Kulit (shadow puppet)

description: Bathara Kamajaya, leather shadow puppet in the Surakarta style.
DOI: 10.4225/03/5726f93081ac5
title: Rambut Geni - Wayang Kulit (shadow puppet)

description: Rambut Geni, a giant.<b> </b>Leather shadow puppet in the Cirebon style.
DOI: 10.4225/03/5726f947499f0
title: Semar - Wayang Kulit (shadow puppet)

description: Semar, clown-god, depicted with a newer white face. Used in the Mahabharata and Ramayana cycles. Leather shadow puppet in the Surakarta style .
DOI: 10.4225/03/5726f8fc2ef0e
title: Togog - Wayang Kulit (shadow puppet)

description: Togog, a popular clown in Cirebon and West Java. Leather shadow puppet in the Cirebon style.
DOI: 10.4225/03/5726f90fb49e7
title: Petruk - Wayang Kulit (shadow puppet)

description: Petruk, god-clown – one of the four main clowns in Javanese wayang theatre. Used in the Mahabharata and Ramayana cycles. Leather shadow puppet in the Cirebon style.
DOI: 10.4225/03/5726f91e76b86
title: Gareng - Wayang Kulit (shadow puppet)

description: Gareng, one of the four main clowns in Javanese wayang theatre. Leather shadow puppet in the Cirebon style.
DOI: 10.4225/03/5726f8dbea24c
title: Bagong - Wayang Kulit (shadow puppet)

description: Bagong, one of the four main clowns in Javanese wayang theatre. Leather shadow puppet in the Cirebon style.
DOI: 10.4225/03/5726f8ed2bf8a
title: King Karna - Wayang Kulit (shadow puppet)

description: King Karna, (warrior and half-brother of Bima). Leather shadow puppet in the Cirebon style. From the Mahabharata.
DOI: 10.4225/03/5726f8c9716cd
title: Setanan (demon) - Wayang Kulit (shadow puppet)

description: Setanan, leather shadow puppet in Cirebon style. From the Mahabharata.
DOI: 10.4225/03/5726f8b659270
title: King Danapati - Wayang Kulit (shadow puppet)

description: King Danapati<b> </b>from the kingdom of Lokapala.<b> </b>Leather shadow puppet in Yogyakarta style.
DOI: 10.4225/03/5726f7fb13c58
title: Kekayon or Gunungan (feminine) - Tree of Life (shadow puppet)

description: Kekayon or Gunungan (feminine) usually translated as ‘Tree of Life’. Leather shadow puppet in Cirebon style. From the Mahabharata.
DOI: 10.4225/03/5726f8a429399
title: Srikandi - Wayang Kulit (shadow puppet)

description: Srikandi, a warrior princess.<b> </b>Leather shadow puppet in Yogyakarta style. From the Mahabharata
DOI: 10.6084/m9.figshare.3206680
title: WS3 maturity model - Plots and tables

description: Tables and plots
DOI: 10.6084/m9.figshare.3206698
title: Coordinates of TCP-seq reads, mapped to yeast mRNAs.

description: Dynamics of ribosome scanning and recycling revealed by translation complex profiling. Dataset contains alignment information of RNA-seq reads produced in TCP-seq in yeast, mapped to a reference consisting of spliced transcript sequences (SacCer2) plus up to 1000nt flanking sequence.<br><br>Description of column headers:<br>gene: The gene to whose transcript the read was mapped. read: Unique read identifier (some reads mapped more than once)<br>start: The start position of the read relative to the gene's annotated start codon ('A' in AUG set to zero; all coordinates are inclusive of the end-nucleotides in the FPs) <br>min_end: The 5'-most possible position of the RNA fragment's 3' end. In cases of an ambiguity caused by the end falling on an oligo-A tract, this will be less than max_end. <br>max_end: The 3'-most possible position of the RNA fragment's 3' end. In cases of an ambiguity caused by the end falling on an oligo-A tract, this will be greater than min_end. sample: The sample / fraction from which the library was generated.<br>
DOI: 10.4225/03/5726f7ca82293
title: Raden Antareja - Wayang Kulit (shadow puppet)

description: Raden AntarejaSon of Bima and his first wife Bathari Nagagini. From the Mahabharata epic. This puppet was made in 1918 (the date is etched on the lower bar). Leather shadow puppet in Yogyakarta style.
DOI: 10.6084/m9.figshare.3206677
title: WS3 maturity model - DataSets

description: Data Sets used in the experiments
DOI: 10.6084/m9.figshare.3206668
title: Bat skin microbiome: metadata

description: <b>mapping_bats.txt</b> is the sampled bats mapping file<br><br><b>Bat_OTUs_table_TAX.biom</b> is the taxonomy assigned OTU by library matrix with of only non-chimeric sequences<br><br><b>unique.dbOTU.nonchimera.fasta</b> is a fasta file of only non-chimeric OTU representatives<br><br><b>BatTree</b> is the phylogenetic tree built with FastTree 2.1.8<strong><br><br>Summarize_OTUs_Table_bat_only </strong>is a summary file of the information in the biom table<strong> <br><br><br></strong><br><br> <sup> <br> <br> </sup>
DOI: 10.6084/m9.figshare.3206677.v2
title: WS3 maturity model - DataSets

description: Data Sets used in the experiments
DOI: 10.6084/m9.figshare.3206698.v1
title: FP_metagene.txt.gz

description: Dynamics of ribosome scanning and recycling revealed by translation complex profiling. Dataset contains alignment information of RNA-seq reads produced in TCP-seq in yeast, mapped to a reference consisting of spliced transcript sequences (SacCer2) plus up to 1000nt flanking sequence.<br><br>Description of column headers:<br>gene: The gene to whose transcript the read was mapped. read: Unique read identifier (some reads mapped more than once)<br>start: The start position of the read relative to the gene's annotated start codon ('A' in AUG set to zero; all coordinates are inclusive of the end-nucleotides in the FPs) <br>min_end: The 5'-most possible position of the RNA fragment's 3' end. In cases of an ambiguity caused by the end falling on an oligo-A tract, this will be less than max_end. <br>max_end: The 3'-most possible position of the RNA fragment's 3' end. In cases of an ambiguity caused by the end falling on an oligo-A tract, this will be greater than min_end. sample: The sample / fraction from which the library was generated.<br>
DOI: 10.6084/m9.figshare.3206677.v1
title: DataSets

description: Data Sets used in the experiments
DOI: 10.6084/m9.figshare.3206641
title: IGUANA Feasible Benchmark 2016

description: Set of figures with charts of the results. <br>Datasets: DBpedia, SWDF<br>SPARQL Users: 1,4,16<br>Update Users, 0,1<br>
DOI: 10.6084/m9.figshare.3206680.v1
title: Plots and tables

description: Tables and plots