Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
206
datasets available to search
ShareScore release 0.7.1
Dataset results
206 results for “Molecular biology”
Data for: Approaches for handling missing values and their impacts on biological inferences: a molecular rate case study
<p>These data files are associated with the manuscript entitled: "Approaches for handling missing values and their impacts on biological inferences: a molecular rate case study" by Jacqueline A. May, Zeny Feng, and Sarah J. Adamowicz. This project entailed an evaluation of missing data handling approach on inferences using a molecular evolution case study. A target mixed-type dataset was first imputed using a real data-driven strategy for imputation method selection. Both trait-only (non-phylogenetic) and phylogenetic imputation methods were used to impute the dataset. Phylogenetic generalized least squares (PGLS) analyses were then applied to the complete-case and imputed datasets, specifying the traits as predictors and molecular evolutionary rates as the response variable. Those traits that associate significantly with molecular rates were identified and PGLS models compared to determine how the approach for handling missing data impacts biological inferences and conclusions.</p> <p>The files stored here are the trees built for phylogenetic imputation (RAxML tree and ultrametric tree versions) and the corresponding GenBank accession numbers.</p>
Data from: Simultaneous and sensitive quantification of protein and low molecular weight persulfides, polysulfides, and H2S in biological samples
Open the record for dataset details and reuse information.
FIGURE 40 in Taxonomic history and invasion biology of two Phyllonorycter leaf miners (Lepidoptera: Gracillariidae) with links to taxonomic and molecular datasets
FIGURE 40. The occurrence of Phyllonorycter mespilella (red dots) and P. trifasciella (blue dots) in the Canary Islands.
FIGURE 38–39. Archive references. 38 in Taxonomic history and invasion biology of two Phyllonorycter leaf miners (Lepidoptera: Gracillariidae) with links to taxonomic and molecular datasets
FIGURE 38–39. Archive references. 38, the citation and the illustration of Tinea mespilella Hübner, 1805 from Hübner, J. 1796–1838. Sammlung europäischer Schmetterlinge. Achte Horde. Tineae Die Schaben; nach der Natur geordnet, beschrieben und vorgestellt: pl. 39, fig. 272. 39a, the title page of the list of specimens bearing Haworth's labels in the Thomas Henry Allis collection. 39b, the list, indicating that the type specimen of P. trifasciella was examined by Mr. Raymond Uffen.
FIGURES 31–33 in Taxonomic history and invasion biology of two Phyllonorycter leaf miners (Lepidoptera: Gracillariidae) with links to taxonomic and molecular datasets
FIGURES 31–33. The neotype of Phyllonorycter mespilella. 31, male, Germany, Württemberg, iv.[19]69. Scale bar 1 mm. 32, the collecting and the male genitalia preparation labels of the neotype of Phyllonorycter mespilella. 33, the male genitalia of the neotype of Phyllonorycter mespilella, gen. prep. Triberti 3175♂. Scale bar 200 µm.
FIGURES 34–37. Phyllonorycter trifasciella, adult. 34 in Taxonomic history and invasion biology of two Phyllonorycter leaf miners (Lepidoptera: Gracillariidae) with links to taxonomic and molecular datasets
FIGURES 34–37. Phyllonorycter trifasciella, adult. 34, male, Canary Islands, Tenerife, 30.xii.1982. Scale bar 1 mm. 35, male genitalia, gen. prep. De Prins 3806♂. 36, same preparation, aedoeagus. Scale bar 200 µm. 37, the lectotype of Phyllonorycter trifasciella, female, specimen No YORYM 2012.749, in the collection of the Yorkshire Museum and Gardens.
FIGURES 25–30 in Taxonomic history and invasion biology of two Phyllonorycter leaf miners (Lepidoptera: Gracillariidae) with links to taxonomic and molecular datasets
FIGURES 25–30. The biotope and leaf mines of Phyllonorycter mespilella on Malus domestica Borkh., Canary Islands, La Palma, 31.x.2007. 25, mine, adaxial view. 26, mine abaxial view. 27, mine of the third instar larva, parenchymal tissue is consumed in spots, adaxial view. 28, pupa protrudes the mine before the emergence of the adult, abaxial view. 29, the biotope of Phyllonorycter mespilella in the Canary Islands, La Palma, 31.x. 2007. 30, Malus domestica Borkh, the host plant of Phyllonorycter mespilella in the Canary Islands, La Palma.
FIGURES 19–24. Phyllonorycter mespilella, pupa. 19 in Taxonomic history and invasion biology of two Phyllonorycter leaf miners (Lepidoptera: Gracillariidae) with links to taxonomic and molecular datasets
FIGURES 19–24. Phyllonorycter mespilella, pupa. 19, same as Fig.17, detail 2. Arrows indicate dorsal, latero-dorsal and lateral setae on A2. 20, segments A7–8 with two pairs of setae, lateral view. 21, cremaster, dorsal view. 22, cremaster, lateral view. 23, cremaster, ventral view. 24, cremaster, caudal view. Scale bar as indicated.
FIGURES 13–18. Phyllonorycter mespilella, pupa. 13 in Taxonomic history and invasion biology of two Phyllonorycter leaf miners (Lepidoptera: Gracillariidae) with links to taxonomic and molecular datasets
FIGURES 13–18. Phyllonorycter mespilella, pupa. 13, cocoon cutter, lateral view. 14, pupa, segments A5–10, lateral view. 15, abdominal segments, lateral view. 16, minute spines on caudal segments. 17, overview with mapped details of setation. 18, same, detail 1. Arrows indicate dorsal and latero-dorsal setae on TIII. Scale bar as indicated.
The Great British Liverwort Hunt – collecting wild accessions for molecular biology research while engaging the public
<p>During the lockdowns of the COVID-19 pandemic, outreach activities of universities were significantly perturbed. The Sainsbury Laboratory Cambridge University (SLCU) outreach project for the Cambridge festival in 2021 was therefore a fully online project, which asked people from across the mainland of the United Kingdom to send in plant samples of <i>Marchantia polymorpha</i>, and <i>Lunularia cruciata. </i>The samples were, upon arrival, established into axenic culture for use in research. Here, we deposit the names and locational data of the lines established in axenic culture for the wider use of the research community. Out of 76 samples received, 68 were successfully established in sterile tissue culture. This dataset also includes an analysis of the sex of the <i>M. polymorpha</i> accessions.</p>
Deciphering the significant role of biological ice nucleators in precipitation at the organic molecular level
<p>FT-ICR-MS, INPs and other related environmental data reported in the manuscript "Deciphering the significant role of biological ice nucleators in precipitation at the organic molecular level ". </p>
Plant Terpenoid Permeability through Biological Membranes Explored via Molecular Simulations
<p>Input structures for a manuscript, along with selected output data and structures. This directory structure contains a cut-down copy of the directories used to generate the simulation data and the analysis. In order to make this fit into the 50GB Zenodo limit, it was constructed with the following tar command: tar -zcvf terpenoidpermeability.tar.gz --exclude="*BAK" --exclude="*#" --exclude="*log" --exclude="*xsc" --exclude="*coor" --exclude="*vel" --exclude="*[0-9].out" --exclude="*old" --exclude="*dcd" --exclude="*tmp" --exclude="*ppm" --exclude="*png" --exclude="*pdf" --exclude="*catchy*" --exclude="*svg" --exclude="*restart*" --exclude="*history" --exclude="core.*" --exclude="FFTW_NAMD*" --exclude="*avi" --exclude="*mp4" Terpenoid-Permeability, which intentionally excludes large files. The full dataset that includes trajectories is available upon request.</p> <p>The data is split into two directories initially "<strong>build</strong>" and "<strong>Simulations</strong>"</p> <ul> <li>"<strong>build</strong>" directory is the part where initial system for unbiased and biased simulation were build using "<strong>resolvate.tcl</strong>" and "<strong>smd-single-build-system.tcl</strong>" respectively.</li> <li>"<strong>Simulations</strong>" directory has the different namd files for running unbiased simulation, steered molecular dynamics and replica exchange umbrella sampling.</li> </ul> <p>The folder structure was generated using "<strong>gendirs*.py</strong>".<br> The unbiased simulations were run using "<strong>run.namd</strong>".<br> Steered molecular dynamics namd files were with name "<strong>step*.namd</strong>" and colvars configuration file are named "<strong>step*.conf</strong>".<br> <br> Replica exchange moleuclar dynamics (REUS) system was generated using "<strong>buildreplicas.tcl</strong>".<br> Replica windows size and force constant were written into a namd configuration file using "<strong>reus-genscript.py</strong>".<br> REUS general configuration file containing the parameters and forcefield is named as "<strong>base.namd</strong>".<br> Colvars for REUS are in "<strong>replicadistZcolvars.conf</strong>".<br> Umbrella sampling is performed with "<strong>umbrella.namd</strong>".</p>
Supplementary material 1 from: Jochum A, Slapnik R, Klussmann-Kolb A, Páll-Gergely B, Kampschulte M, Martels G, Vrabec M, Nesselhauf C, Weigand AM (2015) Groping through the black box of variability: An integrative taxonomic and nomenclatural re-evaluation of Zospeum isselianum Pollonera, 1887 and allied species using new imaging technology (Nano-CT, SEM), conchological, histological and molecular data (Ellobioidea, Carychiidae). Subterranean Biology 16: 123-165. https://doi.org/10.3897/subtbiol.16.5758
List of localities of Zospeum isselianum: Explanation note: List of localities of Zospeum isselianum. A − Austria, BiH − Bosnia and Herzegovina, Cro − Croatia, Slo − Slovenia, Ita − Italy, CBSS − Collection of Croatian Biospeleological Society, CSR SASA – Malacological collection of the Biological Institute of the Centre for Scientific Research of the Slovenian Academy of Sciences and Arts in Ljubljana, SMNH – Malacological collection of the Slovenian Museum of Natural History, LIT – data from literature.
Dataset for "Open Educational Resources for distributed hands-on teaching in molecular biology"
<p>This is the raw data for an article that describes novel OER consisting of low cost and locally produced public domain biological reagents, open source hardware and free software collaborative notebooks to teach LAMP DNA amplification, RT-PCR RNA detection, enzyme kinetics and fluorescence imaging. </p>
Figure 2 in The morphological and molecular analyses of a new South American urban tardigrade offer new insights on the biological meaning of the Macrobiotus hufelandi group of species (Tardigrada: Macrobiotidae)
Figure 2. Macrobiotus kristenseni sp. nov. (A) Claws of the hind pair of legs; (B) claws of the hind legs and cuticular dots on the external surface of the leg (arrow); (C) cuticular "pores" (arrow) in the body cuticle; (D) drawing of the claws of the hind legs; (E) claws of the second pair of legs; (F) claws of a hind leg. A–C: scanning electron micrographs; E, F: holotype (phase contrast). Scale bars: A–C = 5 µm; E, F = 10 µm.
Figure 5 in The morphological and molecular analyses of a new South American urban tardigrade offer new insights on the biological meaning of the Macrobiotus hufelandi group of species (Tardigrada: Macrobiotidae)
Figure 5. Macrobiotus kristenseni sp. nov. (A) Egg; (B) egg processes with filamentous matter developing from their tips (arrows); (C, D) egg processes with annulated surface (arrow) and filamentous matter developing from their tips (arrow head). A–D: scanning electron micrographs. Scale bars: A = 10 µm; B–D = 2 µm.
Figure 4 in The morphological and molecular analyses of a new South American urban tardigrade offer new insights on the biological meaning of the Macrobiotus hufelandi group of species (Tardigrada: Macrobiotidae)
Figure 4. Macrobiotus kristenseni sp. nov. (A) Embryonated eggs; (B) egg surface with small rounded meshes (arrow) bearing elongated conical processes; (C) egg with embryo buccopharyngeal apparatus in development (arrow); (D) egg processes with filamentous matter developing from their tips (arrow). A–D: phase contrast. Scale bars: A–C = 20 µm; D = 5 µm.
Figure 1 in The morphological and molecular analyses of a new South American urban tardigrade offer new insights on the biological meaning of the Macrobiotus hufelandi group of species (Tardigrada: Macrobiotidae)
Figure 1. Macrobiotus kristenseni sp. nov. (A) Habitus; (B) anterior portion of the animal; (C) bucco-pharyngeal apparatus in ventral view; (D) dorsal and (E) ventral transversal crests of the buccal armature; (F) buccal pharyngeal apparatus in lateral view. (A–C) holotype (phase contrast); (D–F) paratypes (differential interference contrast). Scale bars: A = 50 µm; B, C, F, = 20 µm; D, E = 5 µm.
Figure 7 in The morphological and molecular analyses of a new South American urban tardigrade offer new insights on the biological meaning of the Macrobiotus hufelandi group of species (Tardigrada: Macrobiotidae)
Figure 7. Bayesian inference dendrogram computed on 18S rRNA sequences. Numbers near nodes indicate posterior probability. Macrobiotus kristenseni sp. nov. specimen is shown in bold (C3291 A02-V2).
Figure 3 in The morphological and molecular analyses of a new South American urban tardigrade offer new insights on the biological meaning of the Macrobiotus hufelandi group of species (Tardigrada: Macrobiotidae)
Figure 3. Macrobiotus kristenseni sp. nov. (A) Most anterior end of the animal bearing the mouth opening, regular ring of pores (arrow), buccal sensory lobes (L), peribuccal lamellae (asterisk); (B) mouth opening with buccal lamellae (asterisk) and buccal armature: first band of teeth (arrow head), second band of teeth (arrow); (C) mouth opening with buccal lamellae (asterisk) and buccal armature: second band of teeth (arrow head), transversal crests (arrow); (D) mouth opening with buccal lamellae (asterisk) and protruding piercing stylets (ps). A–D: scanning electron micrographs. Scale bars: A, D = 5 µm; B, C = 2 µm.
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.