cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.4680751.v1
title: Jindal et al. brood removal from A test of male infanticide as a reproductive tactic in a cichlid fish

description: Infanticide and offspring cannibalism are taxonomically widespread phenomena. In some group-living species, a new dominant individual taking over a group can benefit from infanticide if doing so induces potential mates to become reproductively available sooner. Despite widespread observations of infanticide (i.e. egg cannibalism) among fishes, no study has investigated whether egg cannibalism occurs in fishes as a result of group takeovers, or how this type of cannibalism might be adaptive. Using the cooperatively breeding cichlid, <i>Neolamprologus pulcher</i>, we tested whether new unrelated males entering the dominant position in a social group were more likely to cannibalize eggs, and whether such cannibalism would shorten the interval until the female's next spawning. Females spawned again sooner if their broods were removed than if they were cared for. Egg cannibalism occurred frequently after a group takeover event, and was rarer if the original male remained with the group. While dominant breeder females were initially highly aggressive towards newcomer takeover males, the degree of resistance depended on relative body size differences between the new pair and, ultimately, female aggression did not prevent egg cannibalism. Egg cannibalism, however, did not shorten the duration until subsequent spawning, or increase fecundity during subsequent breeding in our laboratory setting. Our results show that infanticide as mediated through group takeovers is a taxonomically widespread behaviour.
DOI: 10.6084/m9.figshare.4680715
title: S1S2S3_Murg_20160406.zip

description: Airborne image data, Murg 2016/04/06
DOI: 10.6084/m9.figshare.4680703
title: New draft item

description: Python code by Dr. Nazre Batool<br>
DOI: 10.6084/m9.figshare.4680703.v1
title: New draft item

description: Python code by Dr. Nazre Batool<br>
DOI: 10.6073/pasta/bbdc53c5f40ae9266a01e2e7937b4242
title: Grassland and mesquite shrubland soil nitrogen mineralization potential from leaching soil incubations at the Jornada Basin LTER, 1986

description: This data package contains data on soil nitrogen mineralization potential in a variety of grass and mesquite habitats during the early years of the Jornada Basin LTER project (I-II). Soil cores were collected from Jornada Experimental Range and Chihuahuan Desert Rangeland Research Center (CDRRC) lands in May 1986, and observed in a leaching incubation study. The purpose of this study was to measure inorganic soil nitrogen in the context of the shift from grasslands to mesquite dominated ecosystems. Sites include fluff grass (Dasyochloa pulchella), black grama (Bouteloua eriopoda), Sporobolus/Gutierrezia, playa mesquite (Prosopsis glandulosa), and arroyo mesquite ecosystem types. Soil samples were collected on May 12-13, 1986 within the clumps of grass or beneath mesquite at each site, generally 20 cm deep or to the hard pan (whichever came first). During the incubation study, inorganic nitrogen leaching was measured for 28 weeks for each sample. This study is complete.
DOI: 10.6084/m9.figshare.4679533
title: Raw data Mayaro virus entry into host cells

description: Raw data
DOI: 10.6084/m9.figshare.4679533.v1
title: Raw data Mayaro virus entry into host cells

description: Raw data
DOI: 10.5281/zenodo.4011995
title: The influence of human genetic variation on Epstein-Barr virus sequence diversity

description: This project is the first attempt to apply a "genome-to-genome" approach to investigate the impact of the host genetic pressure on the genome of a member of the <em>Herpesviridae</em> family. Namely, 285 pairs of human and EBV genomes were sequenced and multiple GWASes between human and EBV variations were performed. This repository contains the results of downstream analysis on the pathogen-side. The variant calling data was produced from read alignment using BWA mem using GATK HC, SNVer, VarScan2, BCFtools, freebayes and the intersection of the sets of variation from the first three. <strong>The "covstats" files</strong> contains statistics about the read alignment. <strong>The tarball SHCS_EBV_variant_call.tar.gz</strong> contains all compressed VCF files. <strong>The tarball SHCS_EBV_variant_matrices_stats.tar.gz</strong> contains all matrices used as traits in the GWASes, as well as a variety of statistics. The pipeline used to generate this data is publically available here: https://gitlab.com/ezlab/vir_var_calling/
DOI: 10.5281/zenodo.4011994
title: The influence of human genetic variation on Epstein-Barr virus sequence diversity

description: This project is the first attempt to apply a "genome-to-genome" approach to investigate the impact of the host genetic pressure on the genome of a member of the <em>Herpesviridae</em> family. Namely, 285 pairs of human and EBV genomes were sequenced and multiple GWASes between human and EBV variations were performed. This repository contains the results of downstream analysis on the pathogen-side. The variant calling data was produced from read alignment using BWA mem using GATK HC, SNVer, VarScan2, BCFtools, freebayes and the intersection of the sets of variation from the first three. <strong>The "covstats" files</strong> contains statistics about the read alignment. <strong>The tarball SHCS_EBV_variant_call.tar.gz</strong> contains all compressed VCF files. <strong>The tarball SHCS_EBV_variant_matrices_stats.tar.gz</strong> contains all matrices used as traits in the GWASes, as well as a variety of statistics. The pipeline used to generate this data is publically available here: https://gitlab.com/ezlab/vir_var_calling/
DOI: 10.6084/m9.figshare.4679230
title: Mesoproterozoic fluid events affecting Archean crust in the northern Olympic Cu–Au Province, Gawler Craton: insights from <sup>40</sup>Ar/<sup>39</sup>Ar thermochronology

description: The Olympic Cu–Au Province, Gawler Craton, is host to the Olympic Dam and Prominent Hill iron oxide–copper–gold (IOCG) deposits. Both of these deposits and the region between the two are covered by Neoproterozoic to Cenozoic sediment, making inferences about prospectivity in this portion of the Olympic Domain reliant on geophysical interpretation and sparse drill hole information. We present new U–Pb zircon sensitive high resolution ion microprobe (SHRIMP) dates from two basement intersecting drill holes in the region between Olympic Dam and Prominent Hill that show bimodal volcanism occurred at 2555 ± 5 Ma, and was followed by intrusion of tonalite at 2529 ± 6 Ma. Laser <sup>40</sup>Ar/<sup>39</sup>Ar dating of biotite and muscovite from the tonalite yields ages around <i>ca</i> 2000 Ma, consistent with slow cooling trends observed in Archean rocks elsewhere in the northern Gawler Craton. Step heating experiments on K-feldspar from the same tonalite yields an age spectrum with older ages around 1740 Ma from the highest temperature steps becoming progressively younger to a minimum of 1565 Ma in the lowest temperature heating steps; this is consistent with either Paleoproterozic cooling to final closure of K-feldspar by 1565 Ma or a reheating event at <i>ca</i> 1565 Ma, with the latter more likely, given the evidence for sub-solidus alteration of the K-feldspar. Sericite within hematite–sericite–chlorite altered portions of the tonalite yield a poorly defined age of <i>ca</i> 1.6 Ga. Taken together the <sup>40</sup>Ar/<sup>39</sup>Ar data providing evidence for a fluid event affecting this region between Olympic Dam and Prominent Hill during the early Mesoproterozoic. Low temperature quartz–carbonate–adularia veins occur in &lt;10 cm wide fractures within basalt in one drill hole in this region. Adularia from these veins yields <sup>40</sup>Ar/<sup>39</sup>Ar ages that span from <i>ca</i> 1.3–1.1 Ga. This age range is interpreted to approximate either the timing of adularia formation during a hydrothermal event or the timing of resetting of the <sup>40</sup>Ar/<sup>39</sup>Ar systematics within the adularia as a result of fluid flow in this sample. This is evidence for a mid-Mesoproterozoic fluid event in the Gawler Craton and necessitates a reconsideration of the long-term stability of the craton, as it appears to have been affected, at least locally, by fluid flow related to a much larger event within the Australian continent, the Musgrave Orogeny.
DOI: 10.6084/m9.figshare.4679230.v1
title: Mesoproterozoic fluid events affecting Archean crust in the northern Olympic Cu–Au Province, Gawler Craton: insights from <sup>40</sup>Ar/<sup>39</sup>Ar thermochronology

description: The Olympic Cu–Au Province, Gawler Craton, is host to the Olympic Dam and Prominent Hill iron oxide–copper–gold (IOCG) deposits. Both of these deposits and the region between the two are covered by Neoproterozoic to Cenozoic sediment, making inferences about prospectivity in this portion of the Olympic Domain reliant on geophysical interpretation and sparse drill hole information. We present new U–Pb zircon sensitive high resolution ion microprobe (SHRIMP) dates from two basement intersecting drill holes in the region between Olympic Dam and Prominent Hill that show bimodal volcanism occurred at 2555 ± 5 Ma, and was followed by intrusion of tonalite at 2529 ± 6 Ma. Laser <sup>40</sup>Ar/<sup>39</sup>Ar dating of biotite and muscovite from the tonalite yields ages around <i>ca</i> 2000 Ma, consistent with slow cooling trends observed in Archean rocks elsewhere in the northern Gawler Craton. Step heating experiments on K-feldspar from the same tonalite yields an age spectrum with older ages around 1740 Ma from the highest temperature steps becoming progressively younger to a minimum of 1565 Ma in the lowest temperature heating steps; this is consistent with either Paleoproterozic cooling to final closure of K-feldspar by 1565 Ma or a reheating event at <i>ca</i> 1565 Ma, with the latter more likely, given the evidence for sub-solidus alteration of the K-feldspar. Sericite within hematite–sericite–chlorite altered portions of the tonalite yield a poorly defined age of <i>ca</i> 1.6 Ga. Taken together the <sup>40</sup>Ar/<sup>39</sup>Ar data providing evidence for a fluid event affecting this region between Olympic Dam and Prominent Hill during the early Mesoproterozoic. Low temperature quartz–carbonate–adularia veins occur in &lt;10 cm wide fractures within basalt in one drill hole in this region. Adularia from these veins yields <sup>40</sup>Ar/<sup>39</sup>Ar ages that span from <i>ca</i> 1.3–1.1 Ga. This age range is interpreted to approximate either the timing of adularia formation during a hydrothermal event or the timing of resetting of the <sup>40</sup>Ar/<sup>39</sup>Ar systematics within the adularia as a result of fluid flow in this sample. This is evidence for a mid-Mesoproterozoic fluid event in the Gawler Craton and necessitates a reconsideration of the long-term stability of the craton, as it appears to have been affected, at least locally, by fluid flow related to a much larger event within the Australian continent, the Musgrave Orogeny.
DOI: 10.6073/pasta/521407e47fd64f1b6d27f6a0b4d90014
title: Surface soil analyses from a range of mesquite sites at Jornada Basin LTER, 1986

description: This data package contains data from a series of analyses of surface soils in mesquite habitats during the early years of Jornada Basin LTER (LTER-I and II). The objective of the study was to determine whether there have been changes in the structure and function of the surface (0-20cm) soil system, the zone most affected by litter decomposition, associated with the rapid movement of mesquite (Prosopsis glandulosa) from historical habitats (arroyo and playa fringe) into recent habitats (grassland and dunes). The mesquite soils were sampled at 4 habitats (playa, coppice dune, arroyo, and grassland) in October 1986, with subsamples analyzed and incubated in the laboratory thereafter. This data set contains analyses for gravimetric soil moisture, pH, phosphate, total Kjeldahl nitrogen, total phosphorus, NO3-N nitrogen mineralization, total inorganic nitrogen, NH4 nitrogen mineralization, organic carbon, inorganic carbon, total roots, tap roots, intermediate roots, and fine roots. This data set is complete.
DOI: 10.6084/m9.figshare.4679128
title: MCC Phylogenies

description: MCC (mean heights) for the CBS, state, and national county models, as well as the four Midwest, Northeast, South, and West county-level regional models.
DOI: 10.6084/m9.figshare.4679125
title: XMLs

description: Eight XML files for the CBR, CBS, state, and national county analyses, as well as the Midwest, Northeast, South, and West county-level regional analyses.
DOI: 10.6084/m9.figshare.4679128.v1
title: MCC Phylogenies

description: MCC (mean heights) for the CBS, state, and national county models, as well as the four Midwest, Northeast, South, and West county-level regional models.
DOI: 10.6084/m9.figshare.4679122
title: FASTA Alignments

description: Contains alignments from four county-level regional alignments (Midwest, Northeast, South, and West) and one alignment of the full dataset that was used for the CBS, state, and national county analyses.
DOI: 10.6084/m9.figshare.4679125.v1
title: XMLs

description: Eight XML files for the CBR, CBS, state, and national county analyses, as well as the Midwest, Northeast, South, and West county-level regional analyses.
DOI: 10.6084/m9.figshare.4679122.v1
title: FASTA Alignments

description: Contains alignments from four county-level regional alignments (Midwest, Northeast, South, and West) and one alignment of the full dataset that was used for the CBS, state, and national county analyses.
DOI: 10.6084/m9.figshare.4679098
title: sp500records.csv

description: S&P 500 underlying companies price records.
DOI: 10.6084/m9.figshare.4679098.v1
title: sp500records.csv

description: S&P 500 underlying companies price records.
DOI: 10.6084/m9.figshare.4676266
title: Gain-Based mechanism for pH Sensing Based on Random Lasing

description: Here, we investigate the mechanism of a random-lasing-based sensor which shows pH sensitivity<br>exceeding by 2 orders of magnitude that of a conventional fluorescence sensor. We explain the sensing<br>mechanism as related to gain modifications and lasing-threshold nonlinearities. A dispersive diffusive lasing<br>theory matches the experimental results well, and it allows us to predict the optimal sensing conditions and a<br>maximal sensitivity as large as 200 times that of an identical fluorescence-based sensor. The lack of complex<br>alignment and the high sensitivity make this mechanism promising for future biosensing applications.
DOI: 10.6084/m9.figshare.4676098
title: Participants' scores on the CFMT and PI20 from Robust associations between the 20-item prosopagnosia index and the Cambridge face memory test in the general population

description: Developmental prosopagnosia (DP) is a neurodevelopmental condition, characterized by lifelong face recognition deficits. Leading research groups diagnose the condition using complementary computer-based tasks and self-report measures. In an attempt to standardize the reporting of self-report evidence, we recently developed the 20-item prosopagnosia index (PI20), a short questionnaire measure of prosopagnosic traits suitable for screening adult samples for DP. Strong correlations between scores on the PI20 and performance on the Cambridge face memory test (CFMT) appeared to confirm that individuals possess sufficient insight into their face recognition ability to complete a self-report measure of prosopagnosic traits. However, the extent to which people have insight into their face recognition abilities remains contentious. A lingering concern is that feedback from formal testing, received prior to administration of the PI20, may have augmented the self-insight of some respondents in the original validation study. To determine whether the significant correlation with the CFMT was an artefact of previously delivered feedback, we sought to replicate the validation study in individuals with no history of formal testing. We report highly significant correlations in two independent samples drawn from the general population, confirming (i) that a significant relationship exists between PI20 scores and performance on the CFMT, and (ii) that this is not dependent on the inclusion of individuals who have previously received feedback. These findings support the view that people have sufficient insight into their face recognition abilities to complete a self-report measure of prosopagnosic traits.
DOI: 10.6084/m9.figshare.4676089
title: Supplement 1. Individual participant time normalised data for ankle, knee and hip joint angles and moments during all experimental conditions from Modulation of leg joint function to produce emulated acceleration during walking and running in humans

description: Understanding how humans adapt gait mechanics for a wide variety of locomotor tasks is important for inspiring the design of robotic, prosthetic and wearable assistive devices. We aimed to elicit the mechanical adjustments made to leg joint functions that are required to generate accelerative walking and running, using metrics with direct relevance to device design. Twelve healthy male participants completed constant speed (CS) walking and running and emulated acceleration (ACC) trials on an instrumented treadmill. External force and motion capture data were combined in an inverse dynamics analysis. Ankle, knee and hip joint mechanics were described and compared using angles, moments, powers and normalized functional indexes that described each joint as relatively more: spring, motor, damper or strut-like. To accelerate using a walking gait, the ankle joint was switched from predominantly spring-like to motor-like, while the hip joint was maintained as a motor, with an increase in hip motor-like function. Accelerating while running involved no change in the primary function of any leg joint, but involved high levels of spring and motor-like function at the hip and ankle joints. Mechanical adjustments for ACC walking were achieved primarily via altered limb positioning, but ACC running needed greater joint moments.
DOI: 10.6084/m9.figshare.4676089.v1
title: Supplement 1. Individual participant time normalised data for ankle, knee and hip joint angles and moments during all experimental conditions from Modulation of leg joint function to produce emulated acceleration during walking and running in humans

description: Understanding how humans adapt gait mechanics for a wide variety of locomotor tasks is important for inspiring the design of robotic, prosthetic and wearable assistive devices. We aimed to elicit the mechanical adjustments made to leg joint functions that are required to generate accelerative walking and running, using metrics with direct relevance to device design. Twelve healthy male participants completed constant speed (CS) walking and running and emulated acceleration (ACC) trials on an instrumented treadmill. External force and motion capture data were combined in an inverse dynamics analysis. Ankle, knee and hip joint mechanics were described and compared using angles, moments, powers and normalized functional indexes that described each joint as relatively more: spring, motor, damper or strut-like. To accelerate using a walking gait, the ankle joint was switched from predominantly spring-like to motor-like, while the hip joint was maintained as a motor, with an increase in hip motor-like function. Accelerating while running involved no change in the primary function of any leg joint, but involved high levels of spring and motor-like function at the hip and ankle joints. Mechanical adjustments for ACC walking were achieved primarily via altered limb positioning, but ACC running needed greater joint moments.
DOI: 10.6084/m9.figshare.4675924
title: Supplementary Material for: Recurrent Angioedema: Occurrence, Features, and Concomitant Diseases in an Italian Single-Center Study

description: <b><i>Background:</i></b> Angioedema (AE) is a potentially life-threatening condition with hereditary (HAE), acquired (AAE), or iatrogenic causes. A careful workup allows for the identification of the etiology of attacks and the appropriate management. In this cohort study, based on a clinical practice setting, we aimed at investigating clinical and laboratory findings concerning different features of patients with recurrent AE who were referred to a single, tertiary-level center for HAE. <b><i>Methods:</i></b> Clinical and laboratory data of patients fulfilling the criteria for C1-inhibitor-deficient HAE (C1-INH-HAE), C1-INH-AAE, angiotensin-converting enzyme inhibitor-related AE (ACEI-RA), and idiopathic AAE (I-AAE) were evaluated. Descriptive statistics were analyzed by means of the Mann-Whitney U test. The Fisher exact test was used for group comparisons. <b><i>Results:</i></b> Patients were diagnosed with type 1 HAE (<i>n</i> = 14), type 2 HAE (<i>n</i> = 1), C1-INH-AAE (<i>n</i> = 8), ACEI-RA (<i>n</i> = 16), or I-AAE (<i>n</i> = 26). We included only patients with concomitant autoimmune diseases from the I-AAE group (<i>n</i> = 8, aut-I-AAE). Age at disease onset and at diagnosis was younger in type 1 HAE than in all the other groups. The diagnostic delay was longer in type 1 HAE than in ACEI-RA. C4 and C1q levels were lower in C1-INH-AAE than in type 1 HAE, ACEI-RA, and aut-I-AAE. Both HAE and C1-INH-AAE showed lower C1-INH antigen and function compared to the other groups. Peripheral attacks were more frequent in type 1 HAE, while airway, abdominal, and oral attacks were prevalent in C1-INH-AAE. <b><i>Conclusion:</i></b> Investigating the clinical and laboratory features of recurrent AE without wheals represents a major topic for facilitating early diagnosis and improving treatment strategies for this heterogeneous and misdiagnosed condition.
DOI: 10.6084/m9.figshare.4675801
title: Serrano-Mislata_et_al_2017_ image_analysis

description: Image analysis software, original confocal image stacks, processed images and metadata used in the publication “DELLA genes restrict inflorescence meristem function independently of plant height” (authors: Antonio Serrano-Mislata, Stefano Bencivenga, Max Bush, Katharina Schiessl, Scott Boden and Robert Sablowski, from the Cell and Developmental Biology Department, John Innes Centre, Norwich Research Park, Norwich, NR4 7UH, United Kingdom). <br> Zipped folders containing image files, metadata and cell measurements correspond to the images listed in Supplementary Tables S3 and S4 in Serrano-Mislata et al 2017. <br>To use the software, download and inflate the file "Supplementary software", then follow the instructions placed in ther subfolder "Instructions".
DOI: 10.6084/m9.figshare.4675801.v1
title: Serrano-Mislata_et_al_2017_ image_analysis

description: Image analysis software, original confocal image stacks, processed images and metadata used in the publication “DELLA genes restrict inflorescence meristem function independently of plant height” (authors: Antonio Serrano-Mislata, Stefano Bencivenga, Max Bush, Katharina Schiessl, Scott Boden and Robert Sablowski, from the Cell and Developmental Biology Department, John Innes Centre, Norwich Research Park, Norwich, NR4 7UH, United Kingdom). <br> Zipped folders containing image files, metadata and cell measurements correspond to the images listed in Supplementary Tables S3 and S4 in Serrano-Mislata et al 2017. <br>To use the software, download and inflate the file "Supplementary software", then follow the instructions placed in ther subfolder "Instructions".
DOI: 10.6084/m9.figshare.4675759
title: A modeling approach to evaluate the influence of the spatial and temporal network structure of an epidemiological surveillance network on the intensity of phytosanitary treatments on crops

description: A modeling approach based on dynamic Bayesian Network was implemented to simulate epidemics evolution and control using an Epidemio Surveillance Network.<br><br>