cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.770903.v1
title: Draft genomes from uncultured Thiohalocapsa sp. PB-PSB1 and uncultured Desulfofustis sp. PB-SRB1 from the study "Microscale sulfur cycling in the pink berry consortia of the Sippewissett salt marsh"

description: The pink berries are macroscopic, photosynthetic microbial aggregates composed primarily of two closely associated species: sulfide-oxidizing purple sulfur bacteria (uncultured Thiohalocapsa sp. PB-PSB1) of the family Chromatiaceae and sulfate reducing bacteria (uncultured Desulfofustis sp. PB-SRB1) from the Desulfobulbacaea. This dataset consists of the near-complete draft genomes for these two bacterial species. Annotations provieded here were generated by RAST. These genomes were obtained by binning assembled metagenomic data associated with ncbi bioproject: PRJNA214436. Genomes annotation data presented here was generated by the RAST automated annotation pipeline with frame-shift correction (http://rast.nmpdr.org). Full description of the methods used to generate this data and analysis of these genomes has been provided in the publication "A sulfurous symbiosis: microscale sulfur cycling in the pink berry consortia of the Sippewissett salt marsh" (Wilbanks, et al. in preparation).
DOI: 10.6084/m9.figshare.770929
title: Bits from it. Mathematical Clarification. (FQXI 2013 )

description: . R.V.L. Hartley in 1928 and C.E. Shannon in 1948 have formulated a fundamental assumption that the most natural choice for any future information theory is the logarithmic function. This assumption became common heuristic in contemporary physics, computer science and quantum information theory. Nevertheless, mathematically speaking, we may suppose that Hartley-Shannon Assumption [HSA] needs taking justification seriously. Our note represents the first attempt of re-examination of such sort of popular assumption and we show how an innocent number-theoretical finding by Shannon became “ unreasonably effective “ abstraction in contemporary theoretical physics, experimental quantum mechanics and cosmology.
DOI: 10.6084/m9.figshare.770932.v1
title: Cubic groups ( 2010 )

description: published in archive eprint cryptology 653/2010 and used in some cryptosystems based on DNA inspired post quantum cryptology
DOI: 10.6084/m9.figshare.769359
title: Files compiler AG AND gates

description: Files compiler AG AND gates, design AND gates with Salmonella or Shigella parts or 3-input AND gate (by layering AND gates). DNA sequences are dummies.
DOI: 10.6084/m9.figshare.770929.v1
title: Bits from it. Mathematical Clarification. (FQXI 2013 )

description: . R.V.L. Hartley in 1928 and C.E. Shannon in 1948 have formulated a fundamental assumption that the most natural choice for any future information theory is the logarithmic function. This assumption became common heuristic in contemporary physics, computer science and quantum information theory. Nevertheless, mathematically speaking, we may suppose that Hartley-Shannon Assumption [HSA] needs taking justification seriously. Our note represents the first attempt of re-examination of such sort of popular assumption and we show how an innocent number-theoretical finding by Shannon became “ unreasonably effective “ abstraction in contemporary theoretical physics, experimental quantum mechanics and cosmology.
DOI: 10.6084/m9.figshare.770934.v1
title: Table 20

description: Calculated as part of PhD thesis titled 'Mechanistic Insights into Organocatalysis', Imperial College London, 2013.
DOI: 10.6084/m9.figshare.769358
title: An Evaluation of Sampling Effects on Multiple DNA Barcoding Methods Leads to An Integrative Approach for Delimiting Species: A Case Study of the North American Tarantula Genus Aphonopelma (Araneae, Mygalomorphae, Theraphosidae)

description: The North American tarantula genus Aphonopelma provides one of the greatest challenges to species delimitation and downstream identification in spiders because traditional morphological characters appear ineffective for evaluating limits of intra- and interspecific variation in the group. We evaluated the efficacy of numerous molecular-based approaches to ‘species-delimitation’ within Aphonopelma based upon the most extensive sampling of theraphosids to date, while also investigating the sensitivity of randomized taxon sampling on the reproducibility of species boundaries. Mitochondrial DNA (cytochrome c oxidase subunit I) sequences were sampled from 682 specimens spanning the genetic, taxonomic, and geographic breadth of the genus within the United States. The effects of random taxon sampling compared traditional Neighbor-Joining with three modern quantitative species delimitation approaches (ABGD, P ID(Liberal), and GMYC). Our findings reveal remarkable consistency and congruence across various approaches and sampling regimes, while highlighting the divergent outcomes possible in GMYC. Our investigation allowed us to integrate methodologies into an efficient, consistent, and more effective general methodological workflow for estimating species boundaries within the mygalomorph spider genus Aphonopelma. Taken alone, these approaches are not particularly useful - especially in the absence of prior knowledge of the focal taxa. Only through the incorporation of multiple lines of evidence, employed in a hypothesis-testing framework, can the delimitation of confident species boundaries be determined. A key point in studying closely related species, and perhaps one of the most important aspects of DNA barcoding, is to combine a sampling strategy that broadly identifies the extent of genetic diversity across the distributions of the species of interest and incorporates previous knowledge into the "species equation" (morphology, molecules, and natural history).
DOI: 10.6084/m9.figshare.770934.v3
title: Mechanistic Insights into Organocatalysis - Lowest Energy Product Enamine Rotamers - Table 20

description: Calculated as part of PhD thesis titled 'Mechanistic Insights into Organocatalysis', Imperial College London, 2013.
DOI: 10.6084/m9.figshare.769358.v1
title: An Evaluation of Sampling Effects on Multiple DNA Barcoding Methods Leads to An Integrative Approach for Delimiting Species: A Case Study of the North American Tarantula Genus Aphonopelma (Araneae, Mygalomorphae, Theraphosidae)

description: The North American tarantula genus Aphonopelma provides one of the greatest challenges to species delimitation and downstream identification in spiders because traditional morphological characters appear ineffective for evaluating limits of intra- and interspecific variation in the group. We evaluated the efficacy of numerous molecular-based approaches to ‘species-delimitation’ within Aphonopelma based upon the most extensive sampling of theraphosids to date, while also investigating the sensitivity of randomized taxon sampling on the reproducibility of species boundaries. Mitochondrial DNA (cytochrome c oxidase subunit I) sequences were sampled from 682 specimens spanning the genetic, taxonomic, and geographic breadth of the genus within the United States. The effects of random taxon sampling compared traditional Neighbor-Joining with three modern quantitative species delimitation approaches (ABGD, P ID(Liberal), and GMYC). Our findings reveal remarkable consistency and congruence across various approaches and sampling regimes, while highlighting the divergent outcomes possible in GMYC. Our investigation allowed us to integrate methodologies into an efficient, consistent, and more effective general methodological workflow for estimating species boundaries within the mygalomorph spider genus Aphonopelma. Taken alone, these approaches are not particularly useful - especially in the absence of prior knowledge of the focal taxa. Only through the incorporation of multiple lines of evidence, employed in a hypothesis-testing framework, can the delimitation of confident species boundaries be determined. A key point in studying closely related species, and perhaps one of the most important aspects of DNA barcoding, is to combine a sampling strategy that broadly identifies the extent of genetic diversity across the distributions of the species of interest and incorporates previous knowledge into the "species equation" (morphology, molecules, and natural history).
DOI: 10.6084/m9.figshare.770933.v1
title: Figure 14

description: Calculated as part of PhD thesis titled 'Mechanistic Insights into Organocatalysis', Imperial College London, 2013.
DOI: 10.6084/m9.figshare.769353
title: WelbornLight_Geomysbreviceps

description: Microsatellite summary statistics and mitochondrial haplotype network for 5 localities of Geomys breviceps. This work part of the manuscript titled "Population genetic structure of the Baird's pocket gopher, Geomys breviceps, in eastern Texas" submitted to Western North American Naturalist
DOI: 10.6084/m9.figshare.769353.v1
title: WelbornLight_Geomysbreviceps

description: Microsatellite summary statistics and mitochondrial haplotype network for 5 localities of Geomys breviceps. This work part of the manuscript titled "Population genetic structure of the Baird's pocket gopher, Geomys breviceps, in eastern Texas" submitted to Western North American Naturalist
DOI: 10.6084/m9.figshare.769359.v1
title: Files compiler AG AND gates

description: Files compiler AG AND gates, design AND gates with Salmonella or Shigella parts or 3-input AND gate (by layering AND gates). DNA sequences are dummies.
DOI: 10.6084/m9.figshare.770933.v3
title: Mechanistic Insights into Organocatalysis - NCI Surfaces of Proline and 3,5-Ethanoproline in the HPESW Reaction - Figure 14

description: Calculated as part of PhD thesis titled 'Mechanistic Insights into Organocatalysis', Imperial College London, 2013.
DOI: 10.6084/m9.figshare.770934.v2
title: Mechanistic Insights into Organocatalysis - Product Enamine Table 20

description: Calculated as part of PhD thesis titled 'Mechanistic Insights into Organocatalysis', Imperial College London, 2013.
DOI: 10.6084/m9.figshare.769352
title: WelbornLight_Geomysbreviceps

description: Microsatellite summary statistics and mitochondrial haplotype network for 5 localities of Geomys breviceps. This work part of the manuscript titled "Population genetic structure of the Baird's pocket gopher, Geomys breviceps, in eastern Texas" submitted to Western North American Naturalist
DOI: 10.6084/m9.figshare.770933.v2
title: Mechanistic Insights into Organocatalysis - NCI surfaces of Proline and 3,5-ethanoproline in the HPESW reaction - Figure 14

description: Calculated as part of PhD thesis titled 'Mechanistic Insights into Organocatalysis', Imperial College London, 2013.
DOI: 10.6084/m9.figshare.769337
title: The Timing Experiments of Libet and Grey Walter

description: The neurological experiments conducted by Benjamin Libet (1985) and Grey Walter (1993, in Dennett) provide evidence that our actions are caused by non-conscious brain events beyond our conscious awareness. Normally, we assume that our conscious choices lead us to do things. If these researchers have interpreted their evidence correctly, it may be that we lack free-will, for we could not control a non-conscious brain state. Libet however provides evidence that agents can “change their minds” just before performing some action. He felt that this was the elbow-room for free-will. But it may be incon- sistent for him to suggest this, since his evidence indicates that there is no room for conscious choice. In this paper we discuss these results and various objections to the interpretation of the work.
DOI: 10.6084/m9.figshare.769352.v1
title: WelbornLight_Geomysbreviceps

description: Microsatellite summary statistics and mitochondrial haplotype network for 5 localities of Geomys breviceps. This work part of the manuscript titled "Population genetic structure of the Baird's pocket gopher, Geomys breviceps, in eastern Texas" submitted to Southwestern Naturalist
DOI: 10.6084/m9.figshare.769352.v2
title: WelbornLight_Geomysbreviceps

description: Microsatellite summary statistics and mitochondrial haplotype network for 5 localities of Geomys breviceps. This work part of the manuscript titled "Population genetic structure of the Baird's pocket gopher, Geomys breviceps, in eastern Texas" submitted to Western North American Naturalist
DOI: 10.6084/m9.figshare.769327
title: Diels-Alder cycloaddition between 120C (5,5) SWNT +quinodimethane

description: Frequency calculations for TS and second order saddle points in the Diels-Alder cycloadditon between quinodimethane and 120C (5,5) SWNT computed using ONIOM, target and low real levels of theory - examining the effect of the ONIOM partition
DOI: 10.6084/m9.figshare.769332
title: Diels-Alder cycloaddition between maleic anhydride and cyclohexadiene

description: Diels-Alder cycloaddition between maleic anhydride and cyclohexadiene - frequency calculations analysing the effect of ONIOM method combination
DOI: 10.6084/m9.figshare.769327.v1
title: Diels-Alder cycloaddition between 120C (5,5) SWNT +quinodimethane

description: Frequency calculations for TS and second order saddle points in the Diels-Alder cycloadditon between quinodimethane and 120C (5,5) SWNT computed using ONIOM, target and low real levels of theory - examining the effect of the ONIOM partition
DOI: 10.6084/m9.figshare.769315
title: Results of herbivore damage in ant exclusion experiments

description: Ant exclusion experiments were performed on <em>Vachellia erioloba</em> trees in Namibia. This dataset records the damage to leaflets on trees in both experimental and control treatments. The results of analyses on the data are presented in "Thorn-dwelling ants provide antiherbivore defence for camelthorn trees, <em>Vachellia erioloba</em>, in Namibia" by Heather Campbell, Ian R. Townsend, Mark D. E. Fellowes, James M. Cook in African Journal of Ecology
DOI: 10.6084/m9.figshare.769315.v1
title: Results of herbivore damage in ant exclusion experiments

description: Ant exclusion experiments were performed on <em>Vachellia erioloba</em> trees in Namibia. This dataset records the damage to leaflets on trees in both experimental and control treatments. The results of analyses on the data are presented in "Thorn-dwelling ants provide antiherbivore defence for camelthorn trees, <em>Vachellia erioloba</em>, in Namibia" by Heather Campbell, Ian R. Townsend, Mark D. E. Fellowes, James M. Cook in African Journal of Ecology
DOI: 10.6084/m9.figshare.769332.v1
title: Diels-Alder cycloaddition between maleic anhydride and cyclohexadiene

description: Diels-Alder cycloaddition between maleic anhydride and cyclohexadiene - frequency calculations analysing the effect of ONIOM method combination
DOI: 10.6084/m9.figshare.769352.v4
title: WelbornLight_Geomysbreviceps

description: Microsatellite summary statistics and mitochondrial haplotype network for 5 localities of Geomys breviceps. This work part of the manuscript titled "Population genetic structure of the Baird's pocket gopher, Geomys breviceps, in eastern Texas" submitted to Western North American Naturalist
DOI: 10.6084/m9.figshare.769309
title: Potassium Decay Data

description: Data taken with Timepix hybrid silicon detector to measure the attenuation of beta particles from KCl in Aluminium of varying thickness. Detector settings can be found in .dsc files alongside data. The distances used were as close to the source as possible, while allowing the varying thicknesses of Aluminium to fit between the source and detector. Inside the zip file, the data for each thickness of aluminium is saved in a file with the thickness as its filename. Data is stored in data.txt files in X,Y,C format, where X is the x-co-ordinate of the hit pixel in the Timepix detector's 256x256 pixel silicon sensor element, Y is the y-co-ordinate of the pixel, and C is the number of counts recorded in the pixel. The counts recorded is equivalent to the charge deposited in the pixel about a predetermined threshold value. The detector is run in Time Over Threshold mode, where it measures the charge for the amount of time it is above the threshold value.
DOI: 10.6084/m9.figshare.769352.v3
title: WelbornLight_Geomysbreviceps

description: Microsatellite summary statistics and mitochondrial haplotype network for 5 localities of Geomys breviceps. This work part of the manuscript titled "Population genetic structure of the Baird's pocket gopher, Geomys breviceps, in eastern Texas" submitted to Western North American Naturalist
DOI: 10.6084/m9.figshare.769285
title: Recent papers

description: Recent papers on sociology and sociological phenomenology
DOI: 10.6084/m9.figshare.769308
title: Strontium Decay Data

description: Data taken with Timepix hybrid silicon detector to measure the attenuation of beta particles from Strontium-90 in Aluminium of varying thickness. Detector settings can be found in .dsc files alongside data. Distance from source to detector = 9.3cm, Distance from source to Aluminium = 4cm. Inside the zip file, the data for each thickness of aluminium is saved in a file with the thickness as its filename. Data is stored in data.txt files in X,Y,C format, where X is the x-co-ordinate of the hit pixel in the Timepix detector's 256x256 pixel silicon sensor element, Y is the y-co-ordinate of the pixel, and C is the number of counts recorded in the pixel. The counts recorded is equivalent to the charge deposited in the pixel about a predetermined threshold value. The detector is run in Time Over Threshold mode, where it measures the charge for the amount of time it is above the threshold value.
DOI: 10.6084/m9.figshare.769309.v1
title: Potassium Decay Data

description: Data taken with Timepix hybrid silicon detector to measure the attenuation of beta particles from KCl in Aluminium of varying thickness. Detector settings can be found in .dsc files alongside data. The distances used were as close to the source as possible, while allowing the varying thicknesses of Aluminium to fit between the source and detector. Inside the zip file, the data for each thickness of aluminium is saved in a file with the thickness as its filename. Data is stored in data.txt files in X,Y,C format, where X is the x-co-ordinate of the hit pixel in the Timepix detector's 256x256 pixel silicon sensor element, Y is the y-co-ordinate of the pixel, and C is the number of counts recorded in the pixel. The counts recorded is equivalent to the charge deposited in the pixel about a predetermined threshold value. The detector is run in Time Over Threshold mode, where it measures the charge for the amount of time it is above the threshold value.
DOI: 10.6084/m9.figshare.769285.v1
title: Recent papers

description: Recent papers on sociology and sociological phenomenology
DOI: 10.6084/m9.figshare.769308.v1
title: Strontium Decay Data

description: Data taken with Timepix hybrid silicon detector to measure the attenuation of beta particles from Strontium-90 in Aluminium of varying thickness. Detector settings can be found in .dsc files alongside data. Distance from source to detector = 9.3cm, Distance from source to Aluminium = 4cm. Inside the zip file, the data for each thickness of aluminium is saved in a file with the thickness as its filename. Data is stored in data.txt files in X,Y,C format, where X is the x-co-ordinate of the hit pixel in the Timepix detector's 256x256 pixel silicon sensor element, Y is the y-co-ordinate of the pixel, and C is the number of counts recorded in the pixel. The counts recorded is equivalent to the charge deposited in the pixel about a predetermined threshold value. The detector is run in Time Over Threshold mode, where it measures the charge for the amount of time it is above the threshold value.
DOI: 10.6084/m9.figshare.769283
title: Pavey, A, Allen-Collinson, J and Pavey, T (2013) The lived experience of diagnosis delivery in Motor Neurone Disease: a sociological-phenomenological study, Sociological Research Online, 18 (2).

description: <strong>Abstract</strong> Relatively few previous studies of individuals receiving a diagnosis of Motor Neurone Disease within the UK health care system have employed qualitative approaches to examine the diagnostic journey from a patient perspective. A qualitative sociological study was undertaken, involving interviews with 42 participants diagnosed with MND, to provide insight into their experiences of undergoing testing and receiving a diagnosis. Adopting a sociological-phenomenological perspective, this article examines key themes that emerged from participant accounts surrounding the lived experience of the diagnostic journey. The key themes that emerged were: The diagnostic quest; living with uncertainty; hearing bad news; communication difficulties; and a reified body of medical interest.
DOI: 10.6084/m9.figshare.769282.v1
title: Allen-Collinson, J (2011) Feminist phenomenology and the woman in the running body, Sport, Ethics & Philosophy, 5 (3): 287-302.

description: <strong>Abstract</strong> Modern phenomenology, with its roots in Husserlian philosophy, has been taken up and utilised in a myriad of ways within different disciplines, but until recently has remained relatively under-used within sports studies. A corpus of sociological-phenomenological work is now beginning to develop in this domain, alongside a longer standing literature in feminist phenomenology. These specific social-phenomenological forms explore the situatedness of lived-body experience within a particular social structure. After providing a brief overview of key strands of phenomenology, this article considers some of the ways in which sociological, and particularly feminist phenomenology, might be used to analyse female sporting embodiment. For illustrative purposes, data from an autophenomenographic project on female distance running are also included, in order briefly to demonstrate the application of phenomenology within sociology, as both theoretical framework and methodological approach.
DOI: 10.6084/m9.figshare.769283.v1
title: Pavey, A, Allen-Collinson, J and Pavey, T (2013) The lived experience of diagnosis delivery in Motor Neurone Disease: a sociological-phenomenological study, Sociological Research Online, 18 (2).

description: <strong>Abstract</strong> Relatively few previous studies of individuals receiving a diagnosis of Motor Neurone Disease within the UK health care system have employed qualitative approaches to examine the diagnostic journey from a patient perspective. A qualitative sociological study was undertaken, involving interviews with 42 participants diagnosed with MND, to provide insight into their experiences of undergoing testing and receiving a diagnosis. Adopting a sociological-phenomenological perspective, this article examines key themes that emerged from participant accounts surrounding the lived experience of the diagnostic journey. The key themes that emerged were: The diagnostic quest; living with uncertainty; hearing bad news; communication difficulties; and a reified body of medical interest.
DOI: 10.6084/m9.figshare.769281.v1
title: Allen-Collinson, J and Brown, R (2012) I’m a Reddie and a Christian! Identity negotiations amongst first-year university students, Studies in Higher Education, 37 (4): 497-511.

description: Currently, there exists relatively scant sociological research on the identities of first-year UK university students, and specifically those holding a strong Christian identity. Employing a symbolic interactionist framework, this article explores issues of identity construction amongst a group of first-year undergraduate students based at a UK university, who self-identify as committed Christians. Based on a qualitative, exploratory study of the transition experiences of first-year students living on campus, we examine students’ accounts of identity, transition, negotiation and confirmation. After an initial period of anxiety and uncertainty vis-a-vis establishing new identities, participants recounted themes of commitment to Christian identity, and considered that they had been accepted and integrated into the ‘jock’ campus subculture despite transgressing certain of its values and norms, primarily those ‘commanding’ heavy drinking.
DOI: 10.6084/m9.figshare.769275
title: St. Croix Ground Lizard

description: Maps indicate survey sites and occupancy of Ameiva polops in 2013