cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17863/cam.41455
title: Supplementary information for the thesis: Using data-derived charge densities in electronic structure methods

description: This supplementary information contains the data sets and pieces of original code that are part of the thesis: Using data-derived charge densities in electronic structure methods. We provide configurations for each data set in the form on input files for either the orbital-free or Kohn-Sham density functional theory code PROFESS or CASTEP, respectively. The code that we submit is partitioned into 2 parts that correspond to the calculations in Chapter 4 and Chapter 5. These codes compute and infer parametric models for data-derived charge densities using the methods detailed in the main thesis. See the README file for more information.
DOI: 10.3535/0zv-8sa-21r
title: Lepidonotus squamatus (Linnaeus, 1758)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/3cw-mtc-xx3
title: Paramphistomum Fischoeder, 1901

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/64g-hd2-qt6
title: Dugesia japonica Ichikawa & Kawakatsu, 1964

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/0er-e6r-fve
title: Hediste diversicolor (O.F. Müller, 1776)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/qw3-hbe-62g
title: Dugesia japonica Ichikawa & Kawakatsu, 1964

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/1h4-jj5-d0s
title: Pontoscolex corethrurus (Muller, 1856)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/07p-cz7-8qa
title: Hediste diversicolor (O.F. Müller, 1776)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/d8v-qms-8d5
title: Nephtys hombergii Savigny in Lamarck, 1818

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/bwp-24v-dgp
title: Pista maculata (Dalyell, 1853)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/xtd-l1d-kxf
title: Cura pinguis (Weiss, 1909)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.17863/cam.39871
title: Research data supporting "Agglomeration Dynamics of 1D Materials: Gas-Phase Collision Rates of Nanotubes and Nanorods"

description: The dataset includes the following data that corresponds with figures in the Small paper. - Nanotube collision kernel versus nanotube length scale for non dimensional and dimensional nanotubes of lengths 10^2 to 10^6 nm - Smoluchowski radii for bent nanotubes of lengths 10^2–10^6 nm - Nanotube collision kernels for bent nanotubes - Nanotube collision geometries of centroid separation, collision angle and elongation due to realignment - Probability distribution of bundling process of the CNTs from an initial concentration - Number of nanotubes in a bundle - Bundling time based on collision kernel - Probability density of nanotubes in the aerogel reactor, and e) the resulting bundling time. f) The bundling time for varying nanotube lengths compared to total nanotube reactor residence time and aerogel region residence time.
DOI: 10.3535/yvl-eg3-48y
title: Arenicola marina (Linnaeus, 1758)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/nb4-wdv-a5w
title: Dilepididae Railliet & Henry, 1909

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/v1e-7vm-97n
title: Theromyzon

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/g2n-ypq-zkm
title: Dilepididae Railliet & Henry, 1909

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.15468/dl.bz6ma3
title: Occurrence Download

description: A dataset containing 649 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Otocolobus manul (Pallas, 1776)",
 "Year 2000-2024"
 ]
}

 The dataset includes 649 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037713-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3535/6e5-55l-pb0
title: Porrocaecum (Porrocaecum) ardeae (Frölich, 1802) Baylis, 1936

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/e4l-42n-jee
title: Dispharynx nasuta (Rudolphi, 1819)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/hp0-sea-ln7
title: Erpobdella

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/5px-qha-ck0
title: Scoloplos armiger (Müller, 1776)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/2lg-mef-0z9
title: Aulophorus furcatus (Müller, 1774)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/zan-0yq-kv5
title: Stenurus globicephalae Baylis & Daubney, 1925

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/0y1-f6t-2ea
title: Helobdella

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/ymf-0ea-tx1
title: Anisakis simplex (Rudolphi, 1809) Dujardin, 1845

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.c.3616427_d1.v1
title: Additional file 4: of A global assessment of the gender gap in self-reported health with survey data from 59 countries

description: Service utilization. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.c.3616430_d1.v1
title: Additional file 2: of Assessing the adequacy of essential nutrient intake in obese dogs undergoing energy restriction for weight loss: a cohort study

description: Study data. (XLSX 254Â kb)
DOI: 10.3535/hk2-rx1-t3f
title: Dugesia japonica Ichikawa & Kawakatsu, 1964

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/qda-dzs-x04
title: Paramphistomum Fischoeder, 1901

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/8y9-h90-n03
title: Echinuria uncinata (Rudolphi, 1819)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/pp3-1nz-5wp
title: Glossiphonia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.c.3616412_d7.v1
title: MOESM3 of Temozolomide promotes genomic and phenotypic changes in glioblastoma cells

description: Additional file 3: Table S3. Table S3. A list of CCAs/NCCAs and their copy number variation in T98G and T98GTMZ cells.
DOI: 10.6084/m9.figshare.c.3616436_d1.v1
title: Additional file 8: Table S7. of Identification of oncogenic driver mutations by genome-wide CRISPR-Cas9 dropout screening

description: Top hits for the CHP-212 cell line including genes that are not essential, not present in the top 1 000 for the HCC-827 line, and ranked based on their cumulative screening score and expression level. (XLSX 48Â kb)
DOI: 10.3535/z5g-xp2-kr0
title: Nais barbata Müller, 1774

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/8fh-83q-kha
title: Eteone longa (Fabricius, 1780)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/aay-4m4-g73
title: Benhamia malayana Horst, 1894

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.c.3616427_d2.v1
title: Additional file 3: of A global assessment of the gender gap in self-reported health with survey data from 59 countries

description: Country data. (XLSX 20Â kb)
DOI: 10.3535/84s-9tp-4em
title: Angiostrongylus cantonensis (Chen, 1935)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/t7n-0fw-e43
title: Zygonemertes Montgomery, 1897

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/qvx-sk6-c43
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/4dz-5er-zzq
title: Sphalloplana de Beauchamp, 1931

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/q5f-xbe-mle
title: Capillariidae Railliet, 1915

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.c.3616436_d2.v1
title: Additional file 2: Table S1. of Identification of oncogenic driver mutations by genome-wide CRISPR-Cas9 dropout screening

description: Correlation of sgRNA library distribution between technical replicates in HCC-827 and CHP-212 cells. (XLSX 28Â kb)
DOI: 10.3535/43v-pny-add
title: Onchocercidae Leiper, 1911

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/k7m-ww6-pd0
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.17863/cam.96331
title: Research data supporting "Planar cell polarity: intracellular asymmetry and supracellular gradients of Frizzled"

description: Data of the accumulation of tagged Frizzled in membranes of developing histoblasts. Scripts for plotting the data. Modelling of the data shows that there is a gradient of Fz across the segment (A and P compartments) and that there is more Fz at the posterior than the anterior membranes in all cells of the segment.
DOI: 10.3535/nh8-frn-db9
title: Circumvitellatrema phasidi (Stunkard, 1929) Dronen & Blend, 2015

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/swj-7bx-gh0
title: Erpobdella

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.c.3616412_d8.v1
title: MOESM6 of Temozolomide promotes genomic and phenotypic changes in glioblastoma cells

description: Additional file 6: Table S6. Table S6. Detailed description of copy number alterations (CNAs) in C6 and C6TMZ cells.
DOI: 10.3535/k00-6mr-k7p
title: Cylicostephanus longibursatus (Yorke & Macfie, 1918) Cram, 1924

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/cl9-4vp-h7x
title: Lamellibrachia luymesi van der Land & Nørrevang, 1975

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/kdm-ym0-p6t
title: Micrura fasciolata Ehrenberg, 1828

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.27613891
title: Automated Threshold Selection and Associated Inference Uncertainty for Univariate Extremes

description: Threshold selection is a fundamental problem in any threshold-based extreme value analysis. While models are asymptotically motivated, selecting an appropriate threshold for finite samples is difficult and highly subjective through standard methods. Inference for high quantiles can also be highly sensitive to the choice of threshold. Too low a threshold choice leads to bias in the fit of the extreme value model, while too high a choice leads to unnecessary additional uncertainty in the estimation of model parameters. We develop a novel methodology for automated threshold selection that directly tackles this bias-variance tradeoff. We also develop a method to account for the uncertainty in the threshold estimation and propagate this uncertainty through to high quantile inference. Through a simulation study, we demonstrate the effectiveness of our method for threshold selection and subsequent extreme quantile estimation, relative to the leading existing methods, and show how the method’s effectiveness is not sensitive to the tuning parameters. We apply our method to the well-known, troublesome example of the River Nidd dataset.
DOI: 10.6084/m9.figshare.c.3616436_d3.v1
title: Additional file 7: Table S6. of Identification of oncogenic driver mutations by genome-wide CRISPR-Cas9 dropout screening

description: mRNA expression levels for kinases of top the 20 list for CHP-212 cells. Several members of the RAS pathway from the top-ranking hits were expressed at high levels in the parental NRAS-mutant CHP-212 line, e.g. 12.03, 3.86 and 15.93 FPKMs for MAP2K1, MAP2K6 and RAF-1 respectively. (XLSX 38Â kb)
DOI: 10.3535/4tn-21w-7x4
title: Contracaecum variegatum (Rudolphi, 1809)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/cdt-pva-ta2
title: Proteocephalus sagittus (Grimm, 1872) La Rue, 1911

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.27613891.v2
title: Automated Threshold Selection and Associated Inference Uncertainty for Univariate Extremes

description: Threshold selection is a fundamental problem in any threshold-based extreme value analysis. While models are asymptotically motivated, selecting an appropriate threshold for finite samples is difficult and highly subjective through standard methods. Inference for high quantiles can also be highly sensitive to the choice of threshold. Too low a threshold choice leads to bias in the fit of the extreme value model, while too high a choice leads to unnecessary additional uncertainty in the estimation of model parameters. We develop a novel methodology for automated threshold selection that directly tackles this bias-variance tradeoff. We also develop a method to account for the uncertainty in the threshold estimation and propagate this uncertainty through to high quantile inference. Through a simulation study, we demonstrate the effectiveness of our method for threshold selection and subsequent extreme quantile estimation, relative to the leading existing methods, and show how the method’s effectiveness is not sensitive to the tuning parameters. We apply our method to the well-known, troublesome example of the River Nidd dataset.
DOI: 10.6084/m9.figshare.c.3616412_d9.v1
title: MOESM5 of Temozolomide promotes genomic and phenotypic changes in glioblastoma cells

description: Additional file 5: Table S5. Table S5. A list of CCAs/NCCAs and their copy number variation in C6, C6TMZ, C6R1, and C6R2TMZ cells.
DOI: 10.3535/jhh-ww6-q75
title: Tubificoides benedii (d'Udekem, 1855)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.27613891.v1
title: Automated threshold selection and associated inference uncertainty for univariate extremes

description: Threshold selection is a fundamental problem in any threshold-based extreme value analysis. While models are asymptotically motivated, selecting an appropriate threshold for finite samples is difficult and highly subjective through standard methods. Inference for high quantiles can also be highly sensitive to the choice of threshold. Too low a threshold choice leads to bias in the fit of the extreme value model, while too high a choice leads to unnecessary additional uncertainty in the estimation of model parameters. We develop a novel methodology for automated threshold selection that directly tackles this bias-variance trade-off. We also develop a method to account for the uncertainty in the threshold estimation and propagate this uncertainty through to high quantile inference. Through a simulation study, we demonstrate the effectiveness of our method for threshold selection and subsequent extreme quantile estimation, relative to the leading existing methods, and show how the method’s effectiveness is not sensitive to the tuning parameters. We apply our method to the well-known, troublesome example of the River Nidd dataset.
DOI: 10.3535/335-q35-e0b
title: Ancylostoma caninum (Ercolani, 1859) Hall, 1913

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/3yb-lpm-0w0
title: Harmothoe extenuata (Grube, 1840)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/asv-bc4-fwh
title: Ostertagia (Ostertagia) leptospicularis Assadov, 1953

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.c.3616436_d4.v1
title: Additional file 3: Table S2. of Identification of oncogenic driver mutations by genome-wide CRISPR-Cas9 dropout screening

description: Correlation of sgRNA library distribution between technical replicates of HCC-827 and CHP-212 cells. (XLSX 30Â kb)
DOI: 10.3535/ms7-5e8-sg0
title: Lamellibrachia luymesi van der Land & Nørrevang, 1975

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/3we-nhn-1vc
title: Rhabdias bufonis (Schrank, 1788) Stiles & Hassall, 1905

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/qk0-e36-0ba
title: Glossiphonia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/1f3-hv7-l4r
title: Carinoma armandi (McIntosh, 1875)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/fxt-jnk-7vd
title: Potamothrix moldaviensis Vejdovský & Mrázek, 1903

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/af2-tcc-cgp
title: Phocanema decipiens (Krabbe, 1878) Myers, 1959

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/jd4-t41-8er
title: Otostrongylus circumlitus (Railliet, 1899) de Bruyn, 1933

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/v0q-2rm-lwc
title: Otostrongylus circumlitus (Railliet, 1899) de Bruyn, 1933

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/d5x-9hw-9cr
title: Theromyzon

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/jfc-wfb-y08
title: Erpobdella

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/4hw-6j4-4tp
title: Girardia Ball, 1974

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/6a6-qhj-9cr
title: Alboglossiphonia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/ln2-yw7-1de
title: Dugesia hymanae (Sivickis, 1928)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/nt8-dtt-tfe
title: Nephtys longosetosa Örsted, 1842

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.c.3616436_d9.v1
title: Additional file 5: Table S4. of Identification of oncogenic driver mutations by genome-wide CRISPR-Cas9 dropout screening

description: First 1 000 most depleted genes for CHP-212 cell lines. This table shows the list of 1 000 most depleted genes in the CHP-212 cells along with their sgRNA fold changes at the days 14, 21 and 28. Gene expression of target genes is indicated as average FPKMs across 3 replicates. Cumulative scores are calculated as the sum of log2 FC scores obtained at either two or all three time points. Genes are ranked by the cumulative score obtained at all three time points (e.g. as the sum of log FC scores at days 14, 21 and 28 sorted in ascending order). Essential genes identified in recent genetic screens are reported. Genes expressed at low levels in the parental cell line (FPKM
DOI: 10.3535/7cb-3ve-8kx
title: Anoplocephalidae Cholodkovsky, 1902

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/ypx-4ff-7aq
title: Pygospio elegans Claparède, 1863

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/d3l-42e-c0y
title: Scolelepis (Scolelepis) squamata (O.F. Muller, 1806)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/xl3-gm9-pnb
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.17863/cam.101998
title: Research data supporting "Bumblebee responses to variation in pollinator-attracting traits of Vicia faba flowers"

description: These datasets and R code are associated with the article “Bumblebee responses to variation in pollinator-attracting traits of Vicia faba flowers”, published in Ecology and Evolution with Article ID: ECE310617 Doi.org/10.1002/ece3.10617 Further descriptions of the datasets are given in relevant excel and .txt files, and detailed methods can be found in the associated research paper. Dataset: Bailesetal-Measurements-dataset.xlsx contains all datasets associated with Bailesetal_Flower_traits_Rcode_final_models.Rmd (which contains the R code for statistics conducted on the data). The data is of morphological/phenotypic measurements of Vicia faba (field bean) flowers across up to 30 inbred lines. Measurements included in this dataset are: Wing petal length Wing petal Width Wing petal shape (length:width ratio) Corolla tube length Standard Height Wing area Petal spot area Bee experiments datasets: .csv files (listed below) are provided containing the data associated with Bailesetal_BeeStats_R.Rmd (which contains the R code for statistics conducted on the data). The data is of bee flower choices across 6 different experiments that test preferences between different types of bean flowers. Further description of the csv files are found in the file “Bee_data_description.txt”: Datasets: Experiment 1) Can bees perceive differences in the scent of flowers from NV641 and NV676? Vol_diff_ch.csv Vol_diff_R.csv Experiment 2) Do bees prefer the scent of flowers from NV641 or NV676? TT_first.csv TT_pref.csv Experiment 3) Do bees prefer flowers with wing petal spots? spot_pref.csv spot_first.csv Experiment 4) Can bees perceive the difference between large and small spotted petal models? Size_diff_data.csv Size_diff_R.csv Experiment 5) Do bees prefer large or small wing petal spots? size_first.csv Size_pref.csv Experiment 6) Do bees prefer flowers with shorter corolla tubes? TubeLength_feeding.csv TubeLength_landings.csv Dataset: Bailesetal_Vfaba_VOC_raw_data.xlsx. This dataset contains data on the volatiles collected from flowers of the lines NV676 and NV641 of V. faba. There are no statistics (R file) associated with this data. Dataset: Bailesetal_Vfaba_colour_raw data.xlsx. This dataset contains data on the colour (%reflectance at different wavelengths) and associated co-ordinated in bee colour space collected from flowers of 30 lines of V. faba at three different locations – the standard petal, wing petal tip and wing petal spot. There are no statistics (R file) associated with this data.
DOI: 10.3535/bpb-t8l-r8h
title: Valenciniidae Hubrecht, 1879

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.5281/zenodo.14506726
title: Demonstrator data files for teaching Open Research

description: Folder of test files of generated data and metadata for Open Science postgraduate module at RCSI.