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219 results for “phd”
Supplementary videos of the PhD of Christian Jaques
<p>PhD title: <strong>Active illumination and computational methods for temporal and spectral super-resolution microscopy</strong>.</p> <p> </p>
Datasets from PhD thesis: "Integrating classical and DNA-based approaches to advance the field of paleolimnology: Case studies of a warm monomictic lake"
<p>The general objectives of my PhD were to evaluate the advantages and limitations to using DNA-based methods in paleolimnology and to evaluate the ecological trajectory of Cultus Lake, British Columbia, using both classical paleolimnological and DNA-based approaches. The datasets therein were generated for my PhD thesis.</p> <p>Firstly, a 36-month sediment trap time series was developed to evaluate which DNA taxa can be deposited in the sediments and potentially be used as indicator taxa in paleolimnological studies. Congruence between morphological and DNA identification in water and sediment trap samples was also assessed specifically for diatoms and crustaceans. The data generated include mass accumulation rate and carbon accumulation rate, carbon and nitrogen percentage, morphological counts for diatoms and cladocerans in the sediment traps, DNA quantity for water and sediment trap samples, metabarcoding of a fragment of the V7 region of the 18S rRNA gene.</p> <p>Secondly, a multi-proxy paleolimnological study was developed to evaluate the ecological changes in Cultus Lake and the potential drivers of the changes. From this study, sedimentary delta 15N, delta 13C, percentage of carbon, percentage of nitrogen, pigments were measured and diatoms and cladoceran remains were counted and identified from a sediment core collected in 2008. The data for this project are part of a publication accepted in May 2020 in Journal of Paleolimnology: Gauthier et al (In press) Ecological dynamics of a peri-urban lake: a multi-proxy paleolimnological study of Cultus Lake (British Columbia) over the past ~200 years. doi: 10.1007/s10933-020-00147-9.</p> <p>Thirdly, a paleo-genetic project was developed to compare the ecological changes observed with sedimentary DNA with those observed with classical paleolimnological approaches. The same fragment of the V7 region of the 18S rRNA gene was targeted, percentage of carbon and nitrogen were also measured as well as DNA quantity for all intervals subsampled in a sediment core collected in 2017.</p> <p>The datasets usually come with a description of the data and meaning of abbreviations whether needed. DNA datasets will be publicly released upon acceptance of the manuscripts. For more information about the projects, methods and results, please refer to my PhD thesis published at McGill University. The number in front of the name of each file represents the chapter for which the data were generated.</p>
Data collection for Tsuji et al., 2020, Microbial ecology of phototrophs in Boreal Shield lakes, Chapter 3: Biogeography and activity of chlorophototrophs in the ferruginous water columns of Boreal Shield lakes (PhD thesis)
<p>This data collection includes supplementary or raw data files related to Chapter 3 of the PhD thesis of Jackson M. Tsuji, "Biogeography and activity of chlorophototrophs in the ferruginous water columns of Boreal Shield lakes" (in "Microbial ecology of phototrophs in Boreal Shield lakes"). Specifically, the following files are included:</p> <ul> <li>ASV_table_non_rarefied_counts.tsv.gz -- non-rarefied ASV table containing 16S rRNA gene amplicon data presented in this study as raw counts. Beyond the index column and sample columns, two additional columns, "Consensus.Lineage" and "Sequence" are included in the table. These columns include the taxonomic classification of the ASV (according to Silva) and the ASV sequence, respectively.</li> <li>ASV_table_non_rarefied_percent.tsv.gz -- same as above, but the data are normalized within each sample and expressed as percentages (i.e., sum to 100%).</li> <li>ASV_table_rarefied_counts.tsv.gz -- same as "ASV_table_non_rarefied_counts.tsv.gz", except that data is rarefied to 12,000 sequences per sample. Five samples were dropped due to having <12,000 sequences.</li> <li>ASV_table_rarefied_percent.tsv.gz -- same as above, but the data are normalized within each sample and expressed as percentages (i.e., sum to 100%).</li> <li>MAG_abundances_to_unassembled_reads.tsv.gz -- table like an ASV table showing the relative abundances (expressed as percentages) of metagenome-assembled genomes within metagenomes. Aside from the index column and sample columns, additional columns are included to provide the taxonomic classification of the MAGs (based on the Genome Taxonomy Database) and the CheckM statistics of the MAGs. Relative abundances of MAGs in a metagenome are calculated as the number of mapped reads to the MAGs from the given metagenome divided by the total number of unassembled metagenome reads for that metagenome (times 100%).</li> <li>MAG_abundances_to_assembled_reads.tsv.gz -- same as above, except that relative abundances are divided by the total number of unassembled metagenome reads for that metagenome that mapped to that metagenome's assembled contigs.</li> <li>core_sample_metadata.tsv -- table of core physico-chemical and geographic metadata for the samples in this study (used to build biplots presented in the chapter). Note that "nd" means "no data available", and any measurements below detection limits have been set to 0. A limited number of values were inferred from other sampling time points -- these are noted in the table for TDFe measurements, and in addition, the light attenuation coefficient for Lake 373 in Sept. 2017 was inferred from the Sept. 2016 coefficient due to no light data being available for Sept. 2017 samples.</li> <li>metadata_descriptions.tsv -- descriptions of all metadata columns in the above file.</li> </ul> <p> </p>
Interpreting Lee (2019)'s five dimensions through time and linking them to an 'ideal' PhD graduate
<p>Figure 1: Variation of student potential based on Lee (2019)’s five dimensions relative with time</p> <p>Figure 2: Linking Anne Lee’s approach to the ‘ideal’ profile after earning a PhD</p>
Evaluation Data [Supplement to PhD "Machine-Actionable Assessment of Research Data Products"]
<p>This deposition consists of the raw data used for the evaluation chapter 6 of the dissertation "Machine-Actionable Assessment of Research Data Products" (Tobias Weber, yet unpublished).</p>
Appendices (A, B, C and D) from Chapter 1 of Piero Zannini's PhD Thesis - Biodiversity of Sacred Natural Sites in Italy
<p>This four files are appendices from the first chapter of Piero Zannini's PhD Thesis (see the text of the Thesis).</p>
PhD theses: using or based on WMKO data
<p>SAO/NASA ADS bibcode collection for PhdD theses using data collected at the W.M. Keck Observatory, Hawaii, USA</p>
Supplementary data for PhD thesis
<p>This upload consists of XYZ coordinates of the complexes and transition states mentioned in the PhD thesis.</p>
PhD thesis Gijs Selten - Supplementary data
<p>This repository contains the Supplementary data of the experimental chapters published in the PhD thesis of Gijs Selten MSc. </p> <p>Chapter 2 - Functional capacities drive recruitment of bacteria into plant root (already online on bioRxiv --> https://www.biorxiv.org/content/10.1101/2024.08.22.609090v1.article-info)</p> <ul> <li>Supplementary data</li> <li>Supplementary tables</li> </ul> <p>Chapter 3 - Key genetic components for bacterial success in complex communities revealed using comparative metagenome analysis</p> <ul> <li>Supplementary data</li> <li>Orthogroup profiles of SynCom members</li> <li>Figures S7 and S9 (close-up) </li> </ul> <p>Chapter 4 - <em>SyFi</em>: generating and using sequence fingerprints to distinguish SynCom isolates</p> <ul> <li>SyFi bash script</li> <li>Supplementary data: <ul> <li>Microbiome tables - SyFi (minscorefraction 65, 75, 85, 95 (original), and 100%), Salmon directly on amplicons, Qiime2-VSEARCH (95, 97, 98, 99, 100% match), shotgun metagenomics table</li> <li>Percentages mapped reads</li> <li>16S copy number</li> <li>VSEARCH clustering results</li> </ul> </li> <li>16S fingerprints</li> <li>16S V3V4 fingerprints</li> <li>16S V5V7 fingerprints</li> <li>16S original sequences</li> <li>16S V3V4 original sequences</li> <li>16S V5V7 original sequences</li> </ul> <p>Chapter 5 - <em>Bacillus</em>: driver of distinct functional states in plant root bacterial synthetic communities </p> <ul> <li>Supplementary data</li> <li>Supplementary tables</li> <li>Jaccard Distance matrix on isolate composition</li> <li>Jaccard Distance matrix on genus composition</li> <li>Jaccard Distance matrix on KO composition</li> <li>Bray Curtis Distance matrix on isolate composition</li> <li>Bray Curtis Distance matrix on genus composition</li> <li>Bray Curtis Distance matrix on KO composition</li> </ul>
The Dataset of the PhD thesis titled "Operationalizing Values in Mobile Applications: A Mixed-Methods Empirical Study on Agriculture Apps for Bangladeshi Female Farmers"
<p>This package includes the survey (PVQ) questionnaire, demographic questions, focus groups questionnaire, interview questionnaire, and member checking summary used in this thesis.</p>
PhD thesis codes and datasets
<p>The codes and data used for the analyses and results shown in the PhD thesis of Janice Lynn Ayog.</p>
Observations from PhD thesis : Analysis of Space and Ground Observations of Thunderstorms
<p>This folder includes videos and images of lightning and TLEs made during the PhD project "Analysis of Space and Ground Observations of Thunderstorms" conducted at DTU Space at The Technical University of Denmark. The observations are analysed in detail in the associated PhD thesis. Each file includes a brief discription. </p>
PhD Dataset for Television Mental Emotional & Social Health 500+ cases
<p>Dataset for research of Mental, Emotional and Social Health barriers and issues Self image Poverty finances Work Related. Chicagoland and radius. Televisied help and support with cases identified and categorized.</p>
Data for PhD Thesis: "Chemical and electronic structure of Cu$_2$O, NiO, and Cu$_2$O-NiO combinatorial material libraries as hole-transport material for halide perovskite solar cells"
<p>Here, the whole data measured during the PhD time of L. CW. Bodenstein-Dresler + Labbook is uploaded. T data in the "data"-folder was measured at HZB with XPS, UPS and IPES. </p> <p> </p> <p>The PEYS and CPD and XRD data was measured by A. Kama at BIU. </p> <p> </p>
Testbed Results for PhD Thesis
<p>These testbed results are to be analysed with the code available from: https://bitbucket.org/MBradbury/slp-algorithms-tinyos</p>
CWD3 systematic review data set used in Bardella (2016)'s PhD research
<p><a href="http://gvcm.ipen.br/cwd3/">CWD3</a> is a dynamic infographic platform built using the <a href="https://d3js.org/">D3JS</a> library to support systematic review analysis of crystallographic software used in <a href="http://www.teses.usp.br/teses/disponiveis/85/85134/tde-14102016-141711/en.php">Bardella (2016)'s PhD research</a>.</p> <p>As proposed by the author, initial software list was obtained from <a href="https://www.iucr.org/resources/other-directories/software">IUCR’s software database</a>. Research's evaluation criteria and protocol is detailed in <a href="http://www.teses.usp.br/teses/disponiveis/85/85134/tde-14102016-141711/en.php">Bardella (2016)</a>. This file is a record of the data set used in the research.</p> <p> </p>
Simulation Results for PhD Thesis
<p>These simulations are to be analysed with the code available from: https://bitbucket.org/MBradbury/slp-algorithms-tinyos</p>
Delphi Second Round Results, PhD thesis supplementary material
<p>Supplementary material for the PhD thesis:</p> <p>The Impact of Primary Care Structure in Care Delivery and Outcomes: an Analysis Using European Country Cases</p> <p>Ana Belén Espinosa González, Department of Surgery and Cancer, Imperial College London</p>
Delphi First Round Results, PhD thesis supplementary material
<p>Supplementary material for the PhD thesis:</p> <p>The Impact of Primary Care Structure in Care Delivery and Outcomes: an Analysis Using European Country Cases</p> <p>Ana Belén Espinosa González, Department of Surgery and Cancer, Imperial College London</p>
Better metadata, better management: improving PhD support in universities
<p><span>This case study is about how we improved the management of information about PhDs in universities and ultimately produced a software product called PhD Manager. Our solution for managing information about PhDs was built on top of a system, a platform, that was designed to enable us to represent the real world. It's an open source platform called Haplo.</span></p>
ScienceDex guides
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OpenNeuro
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