cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.899205.v1
title: Index Reads - File A - Second Sequencing Run

description: Raw sequence files were split up due to upload limits. This file is in two parts (a and b). Concatenate these files before analysis.
DOI: 10.6084/m9.figshare.899218.v4
title: Restroom Microbiome Succession Study

description: The indoor environment is the dominant ecosystem for the majority of industrialized humanity and is unlike any biome previously experienced by our species. Bacteria commonly associated with our bodies dominate the Built Environment (BE). Using a unique ecosystem model - a public restroom - we show that surface-associated microbial communities follow a predictable ecological succession, from a community dominated by fecal microbiota to one dominated by skin and ‘outdoor’ microbiota. We analyzed microbial communities following decontamination of floors, toilet seats, and soap dispensers in 4 public restrooms hourly, daily, and weekly. Only toilet seat communities showed differentiation based on gender, with Lactobacillus dominating female seats and Roseburia and Blautia more prevalent on male seats. On floors, a late successional community developed quickly, and showed remarkably stability over weeks to months. Despite late-successional dominance by skin- and outdoor-associated microbiota, the core microbiome was composed almost exclusively of human gut bacteria, suggesting that a relatively homogenous pool of abundant fecal microbes is continuously dispersed to all floor surfaces. OTU abundances were not significantly correlated with measured physical parameters. Together, these data indicate that human-associated microbes dominate restroom surfaces and follow neutral community assembly. We suggest that BE surface environments are microbial ‘deserts’, where resources are scarce and persistence depends upon dormancy or continuous dispersal, and we show that overzealous cleaning regimes in public restrooms lead to a transient dominance of human fecal microbiota, while normal soap and water cleaning results in a stable community dominated by skin-associated microbes.
DOI: 10.6084/m9.figshare.899218.v5
title: Restroom Microbiome Succession Study

description: The indoor environment is the dominant ecosystem for the majority of industrialized humanity and is unlike any biome previously experienced by our species. Bacteria commonly associated with our bodies dominate the Built Environment (BE). Using a unique ecosystem model - a public restroom - we show that surface-associated microbial communities follow a predictable ecological succession, from a community dominated by fecal microbiota to one dominated by skin and ‘outdoor’ microbiota. We analyzed microbial communities following decontamination of floors, toilet seats, and soap dispensers in 4 public restrooms hourly, daily, and weekly. Only toilet seat communities showed differentiation based on gender, with Lactobacillus dominating female seats and Roseburia and Blautia more prevalent on male seats. On floors, a late successional community developed quickly, and showed remarkably stability over weeks to months. Despite late-successional dominance by skin- and outdoor-associated microbiota, the core microbiome was composed almost exclusively of human gut bacteria, suggesting that a relatively homogenous pool of abundant fecal microbes is continuously dispersed to all floor surfaces. OTU abundances were not significantly correlated with measured physical parameters. Together, these data indicate that human-associated microbes dominate restroom surfaces and follow neutral community assembly. We suggest that BE surface environments are microbial ‘deserts’, where resources are scarce and persistence depends upon dormancy or continuous dispersal, and we show that overzealous cleaning regimes in public restrooms lead to a transient dominance of human fecal microbiota, while normal soap and water cleaning results in a stable community dominated by skin-associated microbes.
DOI: 10.6084/m9.figshare.897984
title: Eurema hecabe reflectance spectra - rep. 1

description: Reflectance spectra of 30 male and 30 female Eurema hecabe collected as per White et al. 2012. Replicate 1.
DOI: 10.6084/m9.figshare.899176
title: Gaussian Job Archive for C42H48ClMnN2O3

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.897983
title: Eurema hecabe reflectance spectra - rep. 2

description: Reflectance spectra of 30 male and 30 female Eurema hecabe collected as per White et al. 2012. Replicate 2.
DOI: 10.6084/m9.figshare.897984.v1
title: Eurema hecabe reflectance spectra - rep. 1

description: Reflectance spectra of 30 male and 30 female Eurema hecabe collected as per White et al. 2012. Replicate 1.
DOI: 10.6084/m9.figshare.899176.v1
title: Gaussian Job Archive for C42H48ClMnN2O3

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.897981
title: Eurema hecabe lamellae count data

description: Wing-scale ridge lamellae count data from Eurema hecabe as per White et al. 2012.
DOI: 10.6084/m9.figshare.897982
title: Eurema hecabe ridge count data

description: Wing-scale ridge count data from Eurema hecabe as per White et al. 2012.
DOI: 10.6084/m9.figshare.897983.v1
title: Eurema hecabe reflectance spectra - rep. 2

description: Reflectance spectra of 30 male and 30 female Eurema hecabe collected as per White et al. 2012. Replicate 2.
DOI: 10.6084/m9.figshare.897981.v1
title: Eurema hecabe lamellae count data

description: Wing-scale ridge lamellae count data from Eurema hecabe as per White et al. 2012.
DOI: 10.6084/m9.figshare.897982.v1
title: Eurema hecabe ridge count data

description: Wing-scale ridge count data from Eurema hecabe as per White et al. 2012.
DOI: 10.6084/m9.figshare.897976
title: Lomandra sp. reflectance spectra

description: Reflectance spectra of 50 Lomandra sp. These data were used in the 2013 Macquarie University workshop 'The analysis of spectral data in R using pavo ' as part of the associated example r analysis 'pavoReg'.
DOI: 10.6084/m9.figshare.897977
title: Eurema hecabe reflectance spectra

description: Reflectance spectra of 60 E. hecabe butterflies. These data were used in the 2013 Macquarie University workshop 'The analysis of spectral data in R using pavo' as a part of the associated example r analysis 'pavoReg'.
DOI: 10.6084/m9.figshare.897979
title: Analysis of spectral data in R using

description: Presentation materials, data, and example R code that was used in the 2013 MQ uni workshop 'The analysis of spectral data in R using pavo'. Updated 10/12/2014 after squashing a few bugs and adding a couple of notes.
DOI: 10.6084/m9.figshare.897974
title: Metadata Mapping File

description: File containing sample names, primer sequences, barcode sequences, and metadata.
DOI: 10.6084/m9.figshare.897972
title: Crossmark Processing slides

description: Slide set from 2013 member meeting for technical presentation of Crossmark deposit handling.
DOI: 10.6084/m9.figshare.897977.v1
title: Eurema hecabe reflectance spectra

description: Reflectance spectra of 60 E. hecabe butterflies. These data were used in the 2013 Macquarie University workshop 'The analysis of spectral data in R using pavo' as a part of the associated example r analysis 'pavoReg'.
DOI: 10.6084/m9.figshare.897974.v1
title: Metadata Mapping File

description: File containing sample names, primer sequences, barcode sequences, and metadata.
DOI: 10.6084/m9.figshare.897975.v1
title: Analysis of spectral data in R using pavo

description: Example R code that was used to to highlight some (not all!) of the analyses of spectral data that can be run using the package 'pavo' (v 0.5-1) as part of a 2013 Macquarie University workshop of the same name.
DOI: 10.6084/m9.figshare.897979.v1
title: Analysis of spectral data in R using 'pavo'

description: Presentation materials, data, and example code that was used in the 2013 MQ uni workshop 'The analysis of spectral data in R using pavo'.
DOI: 10.6084/m9.figshare.897932
title: Dataset S5

description: Dataset S5 – Variable sites across all unique haplotypes with number of ‘Polynesian’ SNPs
DOI: 10.6084/m9.figshare.897979.v2
title: Analysis of spectral data in R using 'pavo'

description: Presentation materials, data, and example code that was used in the 2013 MQ uni workshop 'The analysis of spectral data in R using pavo'.
DOI: 10.6084/m9.figshare.897930
title: Dataset S4

description: Dataset S4 – Cloning results of ACAD internal replication and external replication at Durham
DOI: 10.6084/m9.figshare.897931
title: Dataset S6

description: Dataset S6 - Unique haplotype details of all sequences used in the study
DOI: 10.6084/m9.figshare.897979.v4
title: Analysis of spectral data in R using

description: Presentation materials, data, and example R code that was used in the 2013 MQ uni workshop 'The analysis of spectral data in R using pavo'. Updated 10/12/2014 after squashing a few bugs and adding a couple of notes.
DOI: 10.6084/m9.figshare.897928
title: Dataset S1

description: Dataset S1 - Location and dating information for the chicken samples successfully analyzed in this study, plus Storey et al.’s (1, 25, 26) and Dancause et al. (10) Pacific samples
DOI: 10.6084/m9.figshare.897931.v1
title: Dataset S6

description: Dataset S6 - Unique haplotype details of all sequences used in the study
DOI: 10.6084/m9.figshare.897979.v3
title: Analysis of spectral data in R using

description: Presentation materials, data, and example R code that was used in the 2013 MQ uni workshop 'The analysis of spectral data in R using pavo'.
DOI: 10.6084/m9.figshare.897917
title: Data from: Two complete mitochondrial genome sequences of white-spotted char Salvelinus leucomaenis (Salmoniformes: Salmonidae)

description: Results of the analysis of the complete mitochondrial genomes of <em>Salvelinus</em> (Salmonidae) species for evidence of recombination using various recombination detection methods implemented in the Recombination Detection Program (RDP4) (Martin et al., 2010). The comparison of KF974451–KF974452 sequences of mitochondrial genome of white-spotted char <em>S. leucomaenis</em> (Shedko, 2014) and KF513161 sequence of mitochondrial genome of <em>S. leucomaenis</em> (Zhang et al., 2013) as well as NC_000860 (<em>S. fontinalis</em>), NC_000861 (<em>S. alpinus</em>) and KC897653 (<em>Parahucho perryi</em>) sequences by using the RDP4 software (Martin et al., 2010) revealed that the KF513161 sequence is a combination of sequences from two distinct (4.9% divergence) mitochondrial DNA lineages – lineage of <em>S. fontinalis</em>, represented by NC_000860 sequence (positions 1000–15,359 and 15,869–16,337 in KF513161 sequence; 0.2% divergence) and white-spotted char, represented by the KF974451 and KF974452 sequences (positions 15,360–15,868 and 16,338–999 in KF513161 sequence; 0.6–1.0% divergence).
DOI: 10.6084/m9.figshare.897927
title: Dataset S2

description: Dataset S2 – Summary of Pacific samples from this study plus those from Storey et al. (1, 25, 26) without the use of Shrimp DNase, and the presence of the ancient haplotypes in modern chicken populations
DOI: 10.6084/m9.figshare.897928.v1
title: Dataset S1

description: Dataset S1 - Location and dating information for the chicken samples successfully analyzed in this study, plus Storey et al.’s (1, 25, 26) and Dancause et al. (10) Pacific samples
DOI: 10.6084/m9.figshare.897929
title: Dataset S3

description: Dataset S3 – Replication of PAQANA011 - internal (extract ACAD9068 using repeated PCR and Sanger sequencing) and external (at Durham University), and compared to Storey et al.’s (2007) EF535246 (PAQANA011) sequence
DOI: 10.6084/m9.figshare.897927.v1
title: Dataset S2

description: Dataset S2 – Summary of Pacific samples from this study plus those from Storey et al. (1, 25, 26) without the use of Shrimp DNase, and the presence of the ancient haplotypes in modern chicken populations
DOI: 10.6084/m9.figshare.897929.v1
title: Dataset S3

description: Dataset S3 – Replication of PAQANA011 - internal (extract ACAD9068 using repeated PCR and Sanger sequencing) and external (at Durham University), and compared to Storey et al.’s (2007) EF535246 (PAQANA011) sequence
DOI: 10.6084/m9.figshare.897917.v3
title: Data from: Two complete mitochondrial genome sequences of white-spotted char Salvelinus leucomaenis (Salmoniformes: Salmonidae)

description: Results of the analysis of the complete mitochondrial genomes of chars (<em>Salvelinus, </em>Salmonidae) for evidence of recombination using various detection methods implemented in the Recombination Detection Program (RDP4) (Martin et al., 2010).
DOI: 10.6084/m9.figshare.897917.v4
title: Data from: Two complete mitochondrial genome sequences of white-spotted char Salvelinus leucomaenis (Salmoniformes: Salmonidae)

description: Results of the analysis of the complete mitochondrial genomes of Salvelinus (Salmonidae) species for evidence of recombination using various recombination detection methods implemented in the Recombination Detection Program (RDP4) (Martin et al., 2010). The comparison of KF974451–KF974452 sequences of mitochondrial genome of S. leucomaenis (Shedko, 2014) and KF513161 sequence of mitochondrial genome of S. leucomaenis (Zhang et al., 2013) as well as NC_000860 (S. fontinalis), NC_000861 (S. alpinus) and KC897653 (Parahucho perryi) sequences by using the RDP4 software (Martin et al., 2010) revealed that the KF513161 sequence is a combination of sequences from two distinct (4.9% divergence) mitochondrial DNA lineages – lineage of S. fontinalis, represented by NC_000860 sequence (positions 1000–15,359 and 15,869–16,337 in KF513161 sequence; 0.2% divergence) and white-spotted char, represented by the KF974451 and KF974452 sequences (positions 15,360–15,868 and 16,338–999 in KF513161 sequence; 0.6–1.0% divergence).
DOI: 10.6084/m9.figshare.897917.v5
title: Data from: Two complete mitochondrial genome sequences of white-spotted char Salvelinus leucomaenis (Salmoniformes: Salmonidae)

description: Results of the analysis of the complete mitochondrial genomes of <em>Salvelinus</em> (Salmonidae) species for evidence of recombination using various recombination detection methods implemented in the Recombination Detection Program (RDP4) (Martin et al., 2010). The comparison of KF974451–KF974452 sequences of mitochondrial genome of white-spotted char <em>S. leucomaenis</em> (Shedko, 2014) and KF513161 sequence of mitochondrial genome of <em>S. leucomaenis</em> (Zhang et al., 2013) as well as NC_000860 (<em>S. fontinalis</em>), NC_000861 (<em>S. alpinus</em>) and KC897653 (<em>Parahucho perryi</em>) sequences by using the RDP4 software (Martin et al., 2010) revealed that the KF513161 sequence is a combination of sequences from two distinct (4.9% divergence) mitochondrial DNA lineages – lineage of <em>S. fontinalis</em>, represented by NC_000860 sequence (positions 1000–15,359 and 15,869–16,337 in KF513161 sequence; 0.2% divergence) and white-spotted char, represented by the KF974451 and KF974452 sequences (positions 15,360–15,868 and 16,338–999 in KF513161 sequence; 0.6–1.0% divergence).
DOI: 10.6084/m9.figshare.895893
title: Paying for Health - Game Theory

description: This incomplete game theory model demonstrates that insurers are perfectly incentivized to improve the health of their patients if patients are fully informed--and not if not.
DOI: 10.6084/m9.figshare.895893.v1
title: Paying for Health - Game Theory

description: This incomplete game theory model demonstrates that insurers are perfectly incentivized to improve the health of their patients if patients are fully informed--and not if not.
DOI: 10.6084/m9.figshare.895752
title: ESIP Winter Meeting 2014

description: Poster presented at the ESIP Winter Meeting 2014, on Use Case Activities from the 2013 AGU annual meeting
DOI: 10.6084/m9.figshare.895753
title: National Geothermal Database

description: Files related to the Geological Survey's contributions to the National Geothermal Database System, particularly related to the development of the system
DOI: 10.6084/m9.figshare.895883
title: PyPy benchmarks with 300 iterations

description: Two runs with 300 iterations for PyPy's benchmarks. Shows that many of them have problems in that they show rather erratic behaviour.
DOI: 10.6084/m9.figshare.895750
title: Firefox Blocker [CHANGED]

description: Firefox content blocker hinders usability.
DOI: 10.6084/m9.figshare.895753.v1
title: National Geothermal Database

description: Files related to the Geological Survey's contributions to the National Geothermal Database System, particularly related to the development of the system
DOI: 10.6084/m9.figshare.895746
title: Nitrogen and Carbon fixation by cryptogams

description: Carbon and Nitrogen fixation by cryptogamic ground and plant cover in g/m^2/yr as published in Fig. 3 (MODIS) and S2 (Olson) of Elbert et al. (2012), DOI:10.1038/ngeo1486 Each file contains 3 variables: CGC: fixation by cryptogamic ground cover<br>CPC: fixation by cryptogamic plant cover<br>CGC_CPC: the sum of both Keep in mind that not all ecosystems were covered and "empty" areas or low values do not mean nothing is fixed there by cryptogams. If you have further qustions don't hesitate to ask. Please cite the original article, if you use this dataset.
DOI: 10.6084/m9.figshare.895746.v1
title: Nitrogen and Carbon fixation by cryptogams

description: Carbon and Nitrogen fixation by cryptogamic ground and plant cover in g/m^2/yr as published in Fig. 3 (MODIS) and S2 (Olson) of Elbert et al. (2012), DOI:10.1038/ngeo1486 Each file contains 3 variables: CGC: fixation by cryptogamic ground cover<br>CPC: fixation by cryptogamic plant cover<br>CGC_CPC: the sum of both Keep in mind that not all ecosystems were covered and "empty" areas or low values do not mean nothing is fixed there by cryptogams. If you have further qustions don't hesitate to ask. Please cite the original article, if you use this dataset.
DOI: 10.6084/m9.figshare.895752.v1
title: ESIP Winter Meeting 2014

description: Poster presented at the ESIP Winter Meeting 2014, on Use Case Activities from the 2013 AGU annual meeting
DOI: 10.6084/m9.figshare.895737
title: Dentin reactions detected from SM and PLMQ

description: Data file 1: Radiopacity versus translucency of dentin This file contains normalized data on translucency and radiopacity of histological sites from five ground sections. Data file 2: SW, SD, NFNBC, NFBC, FBC and PLMQ scores per histological site ICDAS scores for each carious lesion and the SW, SD, NFNBC, NFBC, FBC, and PLMQ scores for each histological site of each ground section. Codes for SM scores: 1 (normal), 2 (carious), and 3 (translucent). Codes for MR scores: 1 (normal), 2 (demineralised), and 3 (hypermineralized). Codes for PLMQ scores: 1 (positive birefringence) and 2 (negative birefringence).
DOI: 10.6084/m9.figshare.895739
title: Macrofungi in Mediterranean maquis along seashore and altitudinal transects

description: In semi-arid Mediterranean environments, fungal activity is fundamental for buffering biotic and abiotic stress to the plant and for sustaining a vegetation cover. Despite the important role that fungi play in habitats stability, mycological data from Mediterranean ecosystems are scarce and fragmentary. We investigated fungal diversity in several areas characterized by Mediterranean maquis, from continental Italy, Sicily, and Greece in order to contribute to the analysis of distribution, ecology, and diversity of macrofungi in evergreen sclerophyllous shrublands at different elevation and distance from the seashore across the Mediterranean Basin. Several fungal taxa that are remarkable due to their ecology, rarity, and limited geographical distribution were recovered. Among them, the ectomycorrhizal species <i>Amanita dunensis</i> and <i>A. valens</i> were recorded for the first time in Italy. The wood-inhabiting macrofungi, <i>Aleurodiscus dextrinoideocerussatus</i>, <i>Peniophorella tsugae</i>, <i>Perenniporia meridionalis</i>, <i>Phanerochaete martelliana</i>, <i>Vararia ochroleuca</i>, and six <i>Peniophora</i> species were reported for the first time in Greece. Some species, such as <i>Gloeodontia columbiensis</i>, <i>Ceriporia aurantiocarnescens</i>, <i>Peniophora pithya</i>, and <i>P. tamaricicola</i> were collected on new substrates. For the two rare basidiomycetes <i>Amanita eliae</i> and <i>Battarrea phalloides</i>, molecular identification and phylogenetic analysis gave valuable information on their relationship with similar taxa.
DOI: 10.6084/m9.figshare.895740
title: Nuclear DNA C-values for biodiversity screening: Case of the Lebanese flora

description: The geographic position of Lebanon in the Mediterranean basin at the transition of two major landmasses, Eurasia and Africa, has contributed to its high plant diversity and makes its flora particularly interesting to study. This paper contributes to the plant DNA C-value database of native Lebanese taxa. These data should reinforce biodiversity evaluation, systematic and evolution studies involving processes of speciation such as polyploidisation. C-values have been estimated by flow cytometry using propidium iodide as intercalary fluorochrome stain. Each sample comprised at least five individuals. Where possible, several populations were measured for each species. This study presents C-values for 225 taxa belonging to 55 families and 141 genera. C-values are novel for 193 taxa including 126 plants endemic to the Eastern Mediterranean region. These are the first values for 50 genera. In this panel, genome size ranged from 1C = 0.28 pg in <i>Hypericum thymifolium</i> to 54.69 pg in <i>Fritillaria alfredae.</i> The life growth form and life cycle type are analysed according to the genome size class. Cases of polyploidy are reported for some species usually considered as only diploid. Examination of C-value variation through flow cytometry constitutes a powerful tool to screen taxonomic heterogeneity, opening further investigations.
DOI: 10.6084/m9.figshare.895883.v1
title: PyPy benchmarks with 300 iterations

description: Two runs with 300 iterations for PyPy's benchmarks. Shows that many of them have problems in that they show rather erratic behaviour.
DOI: 10.6084/m9.figshare.895736
title: Osteology and phylogenetic relationships of <i>Tyrannotitan chubutensis</i> Novas, de Valais, Vickers-Rich and Rich, 2005 (Theropoda: Carcharodontosauridae) from the Lower Cretaceous of Patagonia, Argentina

description: The theropod clade Carcharodontosauridae is a broadly distributed group of large allosauroid theropods. The carcharodontosaurids recorded in the Albian–Cenomanian of Gondwana are the youngest and most derived members of this clade. <i>Tyrannotitan chubutensis</i>, from the Cerro Castaño Member of Cerro Barcino Formation (Albian; Chubut Group), Central Patagonia, Argentina, is of prime interest among Gondwanan carcharodontosaurids as it represents the oldest record of the group. Here we offer a detailed osteological comparative description of the holotype and paratype of <i>Tyrannotitan chubutensis</i> together with a new diagnosis of the species. The new information results in a better understanding of this taxon and Carcharodontosauridae. Furthermore, a comparative study of the anatomy of the pectoral girdle of <i>Giganotosaurus</i> is reinterpreted as very similar to that of <i>Tyrannotitan</i> and <i>Mapusaurus.</i> We also present a phylogenetic analysis of Carcharodontosauridae that recovers <i>Tyrannotitan</i> as a derived carcharodontosaurid, being the sister group of the clade formed by <i>Giganotosaurus</i> and <i>Mapusaurus</i>, all nested in the clade Giganotosaurini.