cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.751550.v1
title: Davis Weather Station Standard Operating Procedure

description: This SOP has an overview of the Davis weather station operation and includes some campiagn specific instructions for downloading and setting up a Davis weather station for remote monitoring.
DOI: 10.6084/m9.figshare.751532
title: Posters

description: A poster of a complication occurring during anesthesia.
DOI: 10.6084/m9.figshare.751547.v1
title: Source file

description: Scribus files for The Open Science Cycle, July 2013 (full data).
DOI: 10.6084/m9.figshare.751549.v1
title: The Open Science Cycle, July 2013 (full data)

description: Want to do share your research today? Find the best tools available today (July 2013) for each step of the typical research cycle in this fileset: (i) The Open Science Cycle; (ii) a comparision table of several tools for sharing and track changes; (iii) a Scribus source file in case you want to update it. Let me know in the comments if you have better suggestions.
DOI: 10.6084/m9.figshare.750470
title: In silico searches for putative growth hormone family homologs in invertebrates

description: Growth hormone, prolactin and somatolactin-family sequences were sought in diverse invertebrate genome and reference sequence databases using different available strategies. None of these search strategies could identify any putative invertebrate GH/PRL/SL homologs with the characteristic amino acid motif of the family, or indeed any significant sequence similarity. One sequence with high sequence identity to human PRL was identified from a tapeworm species; however this sequence is likely the result of horizontal gene transfer or contamination. <strong>File information:</strong> <strong>In silico searches for putative growth hormone family homologs in invertebrates.pdf</strong><br>Description of methods and results, with references. <strong>130723_Taenia_prl-hit_NJtree.phb</strong><br>Neighbor joining tree file in Newick format including the identified tapeworm sequence. Vertebrate species names are abbreviated to the first letter of the genus followed by the first two letters of the species (Hsa = Homo sapiens et. c.). The tapeworm sequence is identified with the UniProt ID Q8T110_9CEST. <strong>130723_Taenia_prl-hit_NJtree.pdf</strong><br>Image of the neighbor joining tree (PDF). The tapeworm sequence is colored green. <strong>Pairwise_align_hPRL+Taenia_prl-hit.txt</strong><br>Text file with the results of the pairwise alignment between the human PRL sequence and the identified tapeworm sequence. <strong>HsaPRL+Taenia_prl-hit.aln</strong><br>Clustal alignment file containing the human PRL sequence and the identified tapeworm sequence.
DOI: 10.6084/m9.figshare.751532.v1
title: Posters

description: A poster of a complication occurring during anesthesia.
DOI: 10.6084/m9.figshare.750677
title: 6-Thiophene Conformer Study - B3lyp TDDFT & Zindo via confab

description: Small study on checking the variation of TD-DFT and Zindos oscillator strength / first transition energy for a 6-thiophene oligomer, enumerating the conformers via 'confab' (http://www.jcheminf.com/content/3/1/8). Shell scripts, structures, Gaussian job files and resulting logs provided. See blog post below for related discussion & motivation.
DOI: 10.6084/m9.figshare.750470.v1
title: In silico searches for putative growth hormone family homologs in invertebrates

description: Growth hormone, prolactin and somatolactin-family sequences were sought in diverse invertebrate genome and reference sequence databases using different available strategies. None of these search strategies could identify any putative invertebrate GH/PRL/SL homologs with the characteristic amino acid motif of the family, or indeed any significant sequence similarity. One sequence with high sequence identity to human PRL was identified from a tapeworm species; however this sequence is likely the result of horizontal gene transfer or contamination. <strong>File information:</strong> <strong>In silico searches for putative growth hormone family homologs in invertebrates.pdf</strong><br>Description of methods and results, with references. <strong>130723_Taenia_prl-hit_NJtree.phb</strong><br>Neighbor joining tree file in Newick format including the identified tapeworm sequence. Vertebrate species names are abbreviated to the first letter of the genus followed by the first two letters of the species (Hsa = Homo sapiens et. c.). The tapeworm sequence is identified with the UniProt ID Q8T110_9CEST. <strong>130723_Taenia_prl-hit_NJtree.pdf</strong><br>Image of the neighbor joining tree (PDF). The tapeworm sequence is colored green. <strong>Pairwise_align_hPRL+Taenia_prl-hit.txt</strong><br>Text file with the results of the pairwise alignment between the human PRL sequence and the identified tapeworm sequence. <strong>HsaPRL+Taenia_prl-hit.aln</strong><br>Clustal alignment file containing the human PRL sequence and the identified tapeworm sequence.
DOI: 10.6084/m9.figshare.749728
title: Crassostrea gigas high-throughput bisulfite sequencing (gill tissue)

description: This fileset contains genomic feature tracks from methylation-enriched high-throughput bisulfite sequencing and RNA-seq analysis for Pacific oyster (<em>Crassostrea gigas</em>) gill tissue. Feature tracks were developed to be viewed with Integrative Genomics Viewer (http://www.broadinstitute.org/igv/) in conjunction with the <em>C. gigas</em> genome (Fang et al. 2012). All data and instructions are also available at http://oystergen.es/bigill. File descriptions: <em>BiGill_CpG_methylation.igv</em> - Location and proportion of methylation for all analyzed CpG dinucleotides with greater than 5x coverage. <em>BiGill_exon_clc_rpkm.igv</em> - Exon-specific gene expression values (RPKM) from RNA-seq analysis. <em>BiGill_igv_charlie.xml</em> - A session file, which loads methylation and RNA-seq feature tracks as well as the location of C.gigas genome features. <em>Query to derive_CG_AllData_IGV.txt</em> - Query (SQLShare) used to derive the methylation feature track from the original methratio output (http://goo.gl/5LGq9Q) Reference: Fang X, Li L, Luo R, Xu F, Wang X, Zhu Y, Yang L, Huang Z. 2012. Genomic data from the Pacific oyster (<em>Crassostrea gigas</em>). GigaScience. http://dx.doi.org/10.5524/100030.
DOI: 10.6084/m9.figshare.750448.v1
title: Modelling Cultural Dynamics: A Macroscopic Approach To Cultural Transmission In The Prehistoric Aegean

description: In this paper we pursue a novel transdisciplinary approach to the question of cultural dynamics, focussing particularly on the transmission of cultural traits across socio-physical space. In order to think through some of the themes involved we take as a case study an inter-regional phenomenon known as ‘Minoanisation’ (Wiener 1990; Broodbank 2004). This term describes a set of processes observed in the prehistoricAegean (specifically the Middle and early Late Bronze Age) whereby ‘Minoan’ cultural traits find themselves transmitted beyond the Minoan sphere, i.e. theisland ofCrete. That is to say, communities in regions such as theCyclades, theDodecanese, coastalAsia Minor and the Greek mainland adopt aspects of Cretan culture, both in the form of actual imports fromCrete and also local imitations thereof. These cultural elements include pottery shapes and styles, stone vases, loomweights and wall paintings; not only new forms of material culture, but also, presumably, new cultural practices. Accepted for ECCS '07, Dresden October 2007. Number p106.pdf on CD. Preprint number Imperial/TP/07/TSE/1.
DOI: 10.6084/m9.figshare.750447.v1
title: Physical And Relational Networks In The Aegean Bronze Age

description: In this paper we present a new interdisciplinary perspective on regional interaction patterns in archaeological contexts. It combines insights from graph theory, social network analysis and statistical physics to treat the interactions between sites in geographical space in terms of a network which minimises an associated Hamiltonian. To explore the various issues involved a case study from a heterogeneous physical environment is chosen, the archipelago environment of the southernAegean, in particular the rich dataset of the Aegean Bronze Age. Our findings are of broader relevance for the study of interaction networks, as the use of statistical physics in this fashion represents a novel application in social science contexts.<br> Published on CD as Evans, T.S., Knappett, C., Rivers, R.J., “Physical and Relational Networks in the Aegean Bronze Age”, in the Proceedings of The European Conference on Complex Systems, 2006 (ECCS 06), eds. J. Jost, F. Reed-Tsochas and P. Schuster, ISBN 0-9554123-0-7 and 13-978-0-9554123-0-1, p.81.
DOI: 10.6084/m9.figshare.749728.v7
title: Crassostrea gigas high-throughput bisulfite sequencing (gill tissue)

description: This fileset contains two files in generic feature format (GFF) of methylation-enriched high-throughput bisulfite sequencing data for Pacific oyster (Crassostrea gigas), gill tissue. The first GFF includes the location and proportion of methylation for all analyzed CpG dinucleotides with greater than 5x coverage Cgigas_gill_HTbisulfiteSeq_CG_AllData.gff. The second GFF is limited to those CpG loci where the proportion of methylation is ≥ 0.5 (Cgigas_gill_HTbisulfiteSeq_CG_methylated.gff) In addition, this fileset includes the SQL queries used to derive each of the GFF files from the original <em>methratio</em> output. A link to the public <em>methratio</em> dataset, which includes the unfiltered methylation data for all cytosines covered, can be found below.
DOI: 10.6084/m9.figshare.749728.v8
title: Crassostrea gigas high-throughput bisulfite sequencing (gill tissue)

description: This fileset contains two files in generic feature format (GFF) of methylation-enriched high-throughput bisulfite sequencing data for Pacific oyster (Crassostrea gigas), gill tissue. The first GFF includes the location and proportion of methylation for all analyzed CpG dinucleotides with greater than 5x coverage Cgigas_gill_HTbisulfiteSeq_CG_AllData.gff. The second GFF is limited to those CpG loci where the proportion of methylation is ≥ 0.5 (Cgigas_gill_HTbisulfiteSeq_CG_methylated.gff) In addition, this fileset includes the SQL queries used to derive each of the GFF files from the original <em>methratio</em> output. A link to the public <em>methratio</em> dataset, which includes the unfiltered methylation data for all cytosines covered, can be found below.
DOI: 10.6084/m9.figshare.749728.v10
title: Crassostrea gigas high-throughput bisulfite sequencing (gill tissue)

description: This fileset contains genomic feature tracks from methylation-enriched high-throughput bisulfite sequencing and RNA-seq analysis for Pacific oyster (<em>Crassostrea gigas</em>) gill tissue. Feature tracks were developed to be viewed with Integrative Genomics Viewer (http://www.broadinstitute.org/igv/) in conjunction with the <em>C. gigas</em> genome (Fang et al. 2012). All data and instructions are also available at http://oystergen.es/bigill. File descriptions: <em>BiGill_CpG_methylation.igv</em> - Location and proportion of methylation for all analyzed CpG dinucleotides with greater than 5x coverage. <em>BiGill_exon_clc_rpkm.igv</em> - Exon-specific gene expression values (RPKM) from RNA-seq analysis. <em>BiGill_igv_charlie.xml</em> - A session file, which loads methylation and RNA-seq feature tracks as well as the location of C.gigas genome features. <em>Query to derive_CG_AllData_IGV.txt</em> - Query (SQLShare) used to derive the methylation feature track from the original methratio output (http://goo.gl/5LGq9Q) Reference: Fang X, Li L, Luo R, Xu F, Wang X, Zhu Y, Yang L, Huang Z. 2012. Genomic data from the Pacific oyster (<em>Crassostrea gigas</em>). GigaScience. http://dx.doi.org/10.5524/100030.
DOI: 10.6084/m9.figshare.749690
title: Season total densities of arthropods (total and individual groups) on caged & control branches in four vertical strata

description: Data from a 2007 field study in the Morgan Arboretum, Ste-Anne-de-Bellevue, Québec. Associated with a published paper (https://peerj.com/articles/138/). This dataset has 11 columns and 160 rows of data. Column titles: TRT = cage (caged branch) or control (no cage) Stratum = one of four vertical strata (UN = understory; LC = lower canopy; MC = mid canopy; UC = upper canopy) Rep = tree identity; 20 mature sugar maple trees were used, with control and caged branches in each stratum (i.e. 8 branches per tree) The next 8 columns contain the densities of the various groups on each branch. Note that density is provided as individuals per gram of dry leaf weight. ART = all arthropods combined Ara = spiders (Araneae) Col = beetles (Coleoptera) Der = earwigs (Dermaptera) Hem = true bugs (Hemiptera) Hym = ants, bees & wasps (Hymenoptera) Lep = caterpillars (Lepidoptera) Opi = harvestmen (Opiliones) Note that two branches contain NAs - the cages on these branches were lost during the study.
DOI: 10.6084/m9.figshare.749689
title: Results of a bait trial testing predation in four vertical strata

description: Data from a 2007 field study in the Morgan Arboretum, Ste-Anne-de-Bellevue, Québec. Associated with a published paper (https://peerj.com/articles/138/). This is a data file of 9 columns and 168 rows. Column information is as follows: Tree = tree identity, 21 mature sugar maples were used Stratum = vertical stratum of the branch used for the trial, including: UN - understory; LC = lower canopy; MC - mid canopy; UC - upper canopy Note that five mealworm baits were pinned to the branch in each stratum, and that baits were checked a total of four times over 150 minutes. The first observation was recorded after 60 minutes, and each successive observation was taken 30 minutes after the previous one. Baits were also checked after an overnight period. totpred = number of mealworm baits that were predated during the four observation periods notpred = number of mealworm baits not predated during the four observation periods t.1st = time (in number of observation periods) till first observed predation on a bait on that branch maxpred = maximum number of predators observed during one observation period on that branch p.rmvd = proportion of baits removed after overnight period rmvd = number of baits removed after overnight period left = number of baits left after overnight period
DOI: 10.6084/m9.figshare.749667
title: CNR-IC website: download count (Nov 2013)

description: Download count data for all the files hosted on the CNR-IC website (updated 2 Nov 2013). Format: CVS. The website was developed and maintained by Sabino Maggi in the last 4 years.
DOI: 10.6084/m9.figshare.749680
title: Netlogo model: Josephson Cooperative

description: NetLogo has been used here to solve a typical numerical problem, namely a non-linear differential equation. In this case the interacting agents are the solutions of the equation at previous time steps. The equation considered here describes the behavior of a superconducting Josephson junction, however it should be simple to adapt the program to different differential equations.
DOI: 10.6084/m9.figshare.749666
title: smallTopologiesForSuccessorPaper

description: Topology Layout for successor relation's results
DOI: 10.6084/m9.figshare.749667.v1
title: CNR-IC website: download count (Nov 2013)

description: Download count data for all the files hosted on the CNR-IC website (updated 2 Nov 2013). Format: CVS. The website was developed and maintained by Sabino Maggi in the last 4 years.
DOI: 10.6084/m9.figshare.749690.v1
title: Season total densities of arthropods (total and individual groups) on caged & control branches in four vertical strata

description: Data from a 2007 field study in the Morgan Arboretum, Ste-Anne-de-Bellevue, Québec. Associated with a paper in press. This dataset has 11 columns and 160 rows of data. Column titles: TRT = cage (caged branch) or control (no cage) Stratum = one of four vertical strata (UN = understory; LC = lower canopy; MC = mid canopy; UC = upper canopy) Rep = tree identity; 20 mature sugar maple trees were used, with control and caged branches in each stratum (i.e. 8 branches per tree) The next 8 columns contain the densities of the various groups on each branch. Note that density is provided as individuals per gram of dry leaf weight. ART = all arthropods combined Ara = spiders (Araneae) Col = beetles (Coleoptera) Der = earwigs (Dermaptera) Hem = true bugs (Hemiptera) Hym = ants, bees & wasps (Hymenoptera) Lep = caterpillars (Lepidoptera) Opi = harvestmen (Opiliones) Note that two branches contain NAs - the cages on these branches were lost during the study.
DOI: 10.6084/m9.figshare.749666.v1
title: smallTopologiesForSuccessorPaper

description: Topology Layout for successor relation's results
DOI: 10.6084/m9.figshare.749624
title: Sunsong

description: A short audio feature about Very Low Frequency (VLF) Waves, broadcast on Resonance FM. <strong><br></strong> <strong>Sunsong</strong> The skies are never silent. Invisible to the naked eye, VLF, or Very Low Frequency radio waves, are the sonic equivalent to the stunning visual aurorae that illuminate the planet's poles. Caused by the interaction of solar energy with the charged part of the Earth’s atmosphere, they can only be made audible with special equipment. This audio feature blends original recordings of VLF sounds with the voices of those who work with them, from science to sound art, King’s Cross to California. With thanks to: Dan Tapper, sound artist (www.magneticsignals.tumblr.com) Stephen McGreevy, VLF recordist (www.auroralchorus.com) Dr Simon Foster, Imperial College London Camley Street Natural Park Produced by Patrick Sykes (www.patricksykes.blogspot.com)
DOI: 10.6084/m9.figshare.749619
title: Drosophila dissection training movies

description: These films were generated as a public resource at the Manchester Fly Facility. This facility supports <em>Drosophila</em> research through infrastructure & services, advice, training, and opportunities for collaboration. To learn more about us, see the link below.
DOI: 10.6084/m9.figshare.749617
title: Gaussian Job Archive for C42H46N6O6

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749613
title: Gaussian Job Archive for C42H46N6O6

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749615
title: Gaussian Job Archive for C21H28O7

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749616
title: Gaussian Job Archive for C21H28O7

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749617.v1
title: Gaussian Job Archive for C42H46N6O6

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749615.v1
title: Gaussian Job Archive for C21H28O7

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749611
title: Gaussian Job Archive for C42H46N6O6

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749612
title: Gaussian Job Archive for C42H46N6O6

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749613.v1
title: Gaussian Job Archive for C42H46N6O6

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749616.v1
title: Gaussian Job Archive for C21H28O7

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749603
title: Gaussian Job Archive for C2H6

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749604
title: Gaussian Job Archive for C30H18

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749611.v1
title: Gaussian Job Archive for C42H46N6O6

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749612.v1
title: Gaussian Job Archive for C42H46N6O6

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749603.v1
title: Gaussian Job Archive for C2H6

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749604.v1
title: Gaussian Job Archive for C30H18

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749619.v1
title: Drosophila dissection training movies

description: These films were generated as a public resource at the Manchester Fly Facility. This facility supports <em>Drosophila</em> research through infrastructure & services, advice, training, and opportunities for collaboration. To learn more about us, see the link below.
DOI: 10.6084/m9.figshare.749597
title: Gaussian Job Archive for C18H23NO3

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749598
title: Gaussian Job Archive for C18H23NO3

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749599
title: Gaussian Job Archive for C18H23NO3

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749596
title: Gaussian Job Archive for C18H23NO3

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749598.v1
title: Gaussian Job Archive for C18H23NO3

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749599.v1
title: Gaussian Job Archive for C18H23NO3

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749595
title: Gaussian Job Archive for C18H23NO3

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749596.v1
title: Gaussian Job Archive for C18H23NO3

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749597.v1
title: Gaussian Job Archive for C18H23NO3

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749619.v2
title: Drosophila dissection training movies

description: These films were generated as a public resource at the Manchester Fly Facility. This facility supports <em>Drosophila</em> research through infrastructure & services, advice, training, and opportunities for collaboration. To learn more about us, see the link below.
DOI: 10.6084/m9.figshare.749592
title: Gaussian Job Archive for C18H23NO3

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749594
title: Gaussian Job Archive for C18H23NO3

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.749592.v1
title: Gaussian Job Archive for C18H23NO3

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.