Making sense: talking data management with researchers

Incremental is one of eight projects in the JISC Managing Research Data programme funded to identify institutional requirements for digital research data management and pilot relevant infrastructure. Our findings concur with those of other Managing Research Data projects, as well as with several previous studies. We found that many researchers: (i) organise their data in an ad hoc fashion, posing difficulties with retrieval and re-use; (ii) store their data on all kinds of media without always considering security and back-up; (iii) are positive about data sharing in principle though reluctant in practice; (iv) believe back-up is equivalent to preservation. <br></br><br></br> The key difference between our approach and that of other Managing Research Data projects is the type of infrastructure we are piloting. While the majority of these projects focus on developing technical solutions, we are focusing on the need for ‘soft’ infrastructure, such as one-to-one tailored support, training, and easy-to-find, concise guidance that breaks down some of the barriers information professionals have unintentionally built with their use of specialist terminology. <br></br><br></br> We are employing a bottom-up approach as we feel that to support the step-by-step development of sound research data management practices, you must first understand researchers’ needs and perspectives. Over the life of the project, Incremental staff will act as mediators, assisting researchers and local support staff to understand the data management requirements within which they are expect to work, and will determine how these can be addressed within research workflows and the existing technical infrastructure. <br></br> <br></br> Our primary goal is to build data management capacity within the Universities of Cambridge and Glasgow by raising awareness of basic principles so everyone can manage their data to a certain extent. We will ensure our lessons can be picked up and used by other institutions. Our affiliation with the Digital Curation Centre and Digital Preservation Coalition will assist in this and all outputs will be released under a Creative Commons licence. The key difference between our approach and that of other MRD projects is the type of ‘infrastructure’ we are piloting. While the majority of these projects focus on developing technical solutions, we are focusing on the need for ‘soft’ infrastructure, such as one-to-one tailored support, training, and easy-to-find, concise guidance that breaks down some of the barriers information professionals have unintentionally built with their use of specialist terminology. We are employing a bottom-up approach as we feel that to support the step-by-step development of sound research data management practices, you must first understand researchers’ needs and perspectives. Over the life of the project, Incremental staff will act as mediators, assisting researchers and local support staff to understand the data management requirements within which they are expect to work, and will determine how these can be addressed within research workflows and the existing technical infrastructure. Our primary goal is to build data management capacity within the Universities of Cambridge and Glasgow by raising awareness of basic principles so everyone can manage their data to a certain extent. We’re achieving this by: - re-positioning existing guidance so researchers can locate the advice they need; - connecting researchers with one-to-one advice, support and partnering; - offering practical training and a seminar series to address key data management topics. We will ensure our lessons can be picked up and used by other institutions. Our affiliation with the Digital Curation Centre and Digital Preservation Coalition will assist in this and all outputs will be released under a Creative Commons licence

Incremental scoping study and implementation plan

This report is one of the first deliverables from the Incremental project, which seeks to investigate and improve the research data management infrastructure at the universities of Glasgow and Cambridge and to learn lessons and develop resources of value to other institutions. Coming at the end of the project’s scoping study, this report identifies the key themes and issues that emerged and proposes a set of activities to address those needs. As its name suggests, Incremental deliberately adopts a stepped, pragmatic approach to supporting research data management. It recognises that solutions will vary across different departmental and institutional contexts; and that top-down, policy-driven or centralised solutions are unlikely to prove as effective as practical support delivered in a clear and timely manner where the benefits can be clearly understood and will justify any effort or resources required. The findings of the scoping study have confirmed the value of this approach and the main recommendations of this report are concerned with the development and delivery of suitable resources. Although some differences were observed between disciplines, these seemed to be as much a feature of different organisational cultures as the nature of the research being undertaken. Our study found that there were many common issues across the groups and that the responses to these issues need not be highly technical or expensive to implement. What is required is that these resources employ jargon-free language and use examples of relevance to researchers and that they can be accessed easily at the point of need. There are resources already available (institutionally and externally) that can address researchers’ data management needs but these are not being fully exploited. So in many cases Incremental will be enabling efficient and contextualised access, or tailoring resources to specific environments, rather than developing resources from scratch. While Incremental will concentrate on developing, repurposing and leveraging practical resources to support researchers in their management of data, it recognises that this will be best achieved within a supportive institutional context (both in terms of policy and provision). The need for institutional support is especially evident when long-term preservation and data sharing are considered – these activities are clearly more effective and sustainable if addressed at more aggregated levels (e.g. repositories) rather than left to individual researchers or groups. So in addition to its work in developing resources, the Incremental project will seek to inform the development of a more comprehensive data management infrastructure at each institution. In Cambridge, this will be connected with the library’s CUPID project (Cambridge University Preservation Development) and at Glasgow in conjunction with the Digital Preservation Advisory Board

On three-dimensional Weyl structures with reduced holonomy

Cartan's list of 3-dimensional Weyl structures with reduced holonomy is revisited. We show that the only Einstein-Weyl structures on this list correspond to the structures generated by the solutions of the dKP equation

A Lack of Sexual Dimorphism in Width-to-Height Ratio in White European Faces Using 2D Photographs, 3D Scans, and Anthropometry

Facial width-to-height ratio has received a great deal of attention in recent research. Evidence from human skulls suggests that males have a larger relative facial width than females, and that this sexual dimorphism is an honest signal of masculinity, aggression, and related traits. However, evidence that this measure is sexually dimorphic in faces, rather than skulls, is surprisingly weak. We therefore investigated facial width-to-height ratio in three White European samples using three different methods of measurement: 2D photographs, 3D scans, and anthropometry. By measuring the same individuals with multiple methods, we demonstrated high agreement across all measures. However, we found no evidence of sexual dimorphism in the face. In our third study, we also found a link between facial width-to-height ratio and body mass index for both males and females, although this relationship did not account for the lack of dimorphism in our sample. While we showed sufficient power to detect differences between male and female width-to-height ratio, our results failed to support the general hypothesis of sexual dimorphism in the face

Why do starless cores appear more flattened than protostellar cores?

We evaluate the intrinsic three dimensional shapes of molecular cores, by analysing their projected shapes. We use the recent catalogue of molecular line observations of Jijina et al. and model the data by the method originally devised for elliptical galaxies. Our analysis broadly supports the conclusion of Jones et al. that molecular cores are better represented by triaxial intrinsic shapes (ellipsoids) than biaxial intrinsic shapes (spheroids). However, we find that the best fit to all of the data is obtained with more extreme axial ratios ($1:0.8:0.4$) than those derived by Jones et al. More surprisingly, we find that starless cores have more extreme axial ratios than protostellar cores -- starless cores appear more `flattened'. This is the opposite of what would be expected from modeling the freefall collapse of triaxial ellipsoids. The collapse of starless cores would be expected to proceed most swiftly along the shortest axis - as has been predicted by every modeller since Zel'dovich - which should produce more flattened cores around protostars, the opposite of what is seen.Comment: 7 pages, 3 figure

Multiyear defoliations in southern New England increases oak mortality

After decades of multiyear defoliation episodes in southern New England, Lymantria dispar dispar (LDD; previously gypsy moth) populations collapsed with the appearance of the LDD fungus in 1989. Multiyear defoliations did not occur again until 2015-2018. To assess the impact of the return of multiyear defoliations, we examined 3095 oaks on 29 permanent study areas in Connecticut and Rhode Island that were established at least eleven years before the latest outbreaks. Pre-defoliation stand level oak mortality averaged 2% (three-year basis). Post-defoliation mortality did not differ between managed and unmanaged stands, but was much higher in severely defoliated stands (36%) than in stands with moderate (7%) or low-no defoliation (1%). Pre-defoliation mortality of individual trees differed among species, was lower for larger diameter trees and on unmanaged than managed stands. Post-defoliation mortality on plots with no to moderate defoliation was similar to pre-defoliation mortality levels. Following multiyear defoliations, white oak mortality was higher than for northern red and black oak. There was weak evidence that mortality was elevated on stands with higher basal area following severe defoliation. Natural resource managers should not assume that oaks that survived earlier multiyear defoliations episodes will survive future multiyear outbreaks, possibly because trees are older

Anti-self-dual conformal structures with null Killing vectors from projective structures

Using twistor methods, we explicitly construct all local forms of four--dimensional real analytic neutral signature anti--self--dual conformal structures $(M,[g])$ with a null conformal Killing vector. We show that $M$ is foliated by anti-self-dual null surfaces, and the two-dimensional leaf space inherits a natural projective structure. The twistor space of this projective structure is the quotient of the twistor space of $(M,[g])$ by the group action induced by the conformal Killing vector. We obtain a local classification which branches according to whether or not the conformal Killing vector is hyper-surface orthogonal in $(M, [g])$. We give examples of conformal classes which contain Ricci--flat metrics on compact complex surfaces and discuss other conformal classes with no Ricci--flat metrics.Comment: 43 pages, 4 figures. Theorem 2 has been improved: ASD metrics are given in terms of general projective structures without needing to choose special representatives of the projective connection. More examples (primary Kodaira surface, neutral Fefferman structure) have been included. Algebraic type of the Weyl tensor has been clarified. Final version, to appear in Commun Math Phy

Einstein--Maxwell--Dilaton metrics from three--dimensional Einstein--Weyl structures

A class of time dependent solutions to $(3+1)$ Einstein--Maxwell-dilaton theory with attractive electric force is found from Einstein--Weyl structures in (2+1) dimensions corresponding to dispersionless Kadomtsev--Petviashvili and $SU(\infty)$ Toda equations. These solutions are obtained from time--like Kaluza--Klein reductions of $(3+2)$ solitons.Comment: 12 pages, to be published in Class.Quantum Gra

Observing Strategies for the Detection of Jupiter Analogs

To understand the frequency, and thus the formation and evolution, of planetary systems like our own solar system, it is critical to detect Jupiter-like planets in Jupiter-like orbits. For long-term radial-velocity monitoring, it is useful to estimate the observational effort required to reliably detect such objects, particularly in light of severe competition for limited telescope time. We perform detailed simulations of observational campaigns, maximizing the realism of the sampling of a set of simulated observations. We then compute the detection limits for each campaign to quantify the effect of increasing the number of observational epochs and varying their time coverage. We show that once there is sufficient time baseline to detect a given orbital period, it becomes less effective to add further time coverage-rather, the detectability of a planet scales roughly as the square root of the number of observations, independently of the number of orbital cycles included in the data string. We also show that no noise floor is reached, with a continuing improvement in detectability at the maximum number of observations N = 500 tested here.Peer reviewe

VSGdb: a database for trypanosome variant surface glycoproteins, a large and diverse family of coiled coil proteins

RIGHTS : This article is licensed under the BioMed Central licence at http://www.biomedcentral.com/about/license which is similar to the 'Creative Commons Attribution Licence'. In brief you may : copy, distribute, and display the work; make derivative works; or make commercial use of the work - under the following conditions: the original author must be given credit; for any reuse or distribution, it must be made clear to others what the license terms of this work are.Background: Trypanosomes are coated with a variant surface glycoprotein (VSG) that is so densely packed that it physically protects underlying proteins from effectors of the host immune system. Periodically cells expressing a distinct VSG arise in a population and thereby evade immunity. The main structural feature of VSGs are two long alpha-helices that form a coiled coil, and sets of relatively unstructured loops that are distal to the plasma membrane and contain most or all of the protective epitopes. The primary structure of different VSGs is highly variable, typically displaying only similar to 20% identity with each other. The genome has nearly 2000 VSG genes, which are located in subtelomeres. Only one VSG gene is expressed at a time, and switching between VSGs primarily involves gene conversion events. The archive of silent VSGs undergoes diversifying evolution rapidly, also involving gene conversion. The VSG family is a paradigm for a helical coiled coil structures, epitope variation and GPI-anchor signals. At the DNA level, the genes are a paradigm for diversifying evolutionary processes and for the role of subtelomeres and recombination mechanisms in generation of diversity in multigene families. To enable ready availability of VSG sequences for addressing these general questions, and trypanosome- specific questions, we have created VSGdb, a database of all known sequences.|Description: VSGdb contains fully annotated VSG sequences from the genome sequencing project, with which it shares all identifiers and annotation, and other available sequences. The database can be queried in various ways. Sequence retrieval, in FASTA format, can deliver protein or nucleotide sequence filtered by chromosomes or contigs, gene type ( functional, pseudogene, etc.), domain and domain sequence family. Retrieved sequences can be stored as a temporary database for BLAST querying, reports from which include hyperlinks to the genome project database ( GeneDB) CDS Info and to individual VSGdb pages for each VSG, containing annotation and sequence data. Queries (text search) with specific annotation terms yield a list of relevant VSGs, displayed as identifiers leading again to individual VSG web pages.|Conclusion: VSGdb http://www.vsgdb.org/is a freely available, web-based platform enabling easy retrieval, via various filters, of sets of VSGs that will enable detailed analysis of a number of general and trypanosome- specific questions, regarding protein structure potential, epitope variability, sequence evolution and recombination events