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653 results for “molecular profiling”

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zenodo48/100

Bulk and single-cell gene expression profiling of SARS-CoV-2 infected human cell lines identifies molecular targets for therapeutic intervention

<p>Single cell RNA seq datasets used for analysis in the&nbsp;Bulk and single-cell gene expression profiling of SARS-CoV-2 infected human cell lines identifies molecular targets for therapeutic intervention</p>

opencc-by-4.0Sep 2020View details →
zenodo44/100

Modeling the metabolic profile of Mytilus edulis reveals molecular signatures linked to gonadal development, sex and environmental site

<p>Metabolomics dataset used in the publication &quot;Modeling the metabolic profile of Mytilus edulis reveals molecular signatures linked to gonadal development, sex and environmental site&quot;</p> <p>Jaanika Kronberg, Jonathan J. Byrne, Jeroen Jansen, Philipp Antczak, Adam Hines, John Bignell, Ioanna Katsiadaki, Mark R. Viant&nbsp;and Francesco Falciani&nbsp;</p> <p>Metabolomics dataset for metabolic bins 1 to 1045 for 376 mussels as used in the publication.</p> <p>Mussel metadata are described in a separate file (spectrum number, sample label, sex, site, species, month, temperature of water, salinity of water, ADG rate, gonadal stage, parasite load)</p> <p>Species 1: Mytilus edulis, species 2: hybrid, species 3: Mytilus galloprovincialis</p>

opencc-by-4.0Jan 2021View details →
zenodo44/100

Online Appendix for PhD Thesis Titled "Dissecting Causal Relationships and Molecular Mechanisms in Disease using Genetic Risk Profiles"

<p>This repository contains 23 tables and two figures, which are too big to be included in the Appendix section of my thesis document.</p> <p>The second version includes additional summary statistics of metabolite-PGS associations which can be found at http://mrcieu.mrsoftware.org/metabolites_PRS_atlas/.</p>

opencc-by-4.0Nov 2023View details →
zenodo40/100

Figure 24 in A description of Echinorhynchus baeri Kostylew, 1928 (Acanthocephala: Echinorhynchidae) from Salmo trutta in Turkey, with notes on synonymy, geographical origins, geological history, molecular profile, and X-ray microanalysis

Figure 24. The printout for the elemental scan (EDXA) for the miniature apical hook at the apex of the E. baeri proboscis. Note the drop in calcium and phosphorus peaks compared to that of normal hooks (Fig. 23).

opencc-by-4.0Dec 2016View details →
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Figure 1 in A description of Echinorhynchus baeri Kostylew, 1928 (Acanthocephala: Echinorhynchidae) from Salmo trutta in Turkey, with notes on synonymy, geographical origins, geological history, molecular profile, and X-ray microanalysis

Figure 1. Collection site of Echinorhynchus baeri from Salmo trutta in the Kilise Stream, Murat River, Turkey.

opencc-by-4.0Dec 2016View details →
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Figure 23 in A description of Echinorhynchus baeri Kostylew, 1928 (Acanthocephala: Echinorhynchidae) from Salmo trutta in Turkey, with notes on synonymy, geographical origins, geological history, molecular profile, and X-ray microanalysis

Figure 23. The printout of the elemental scan (EDXA) for the common large hooks for E. baeri. Note height of calcium and phosphorus peaks.

opencc-by-4.0Dec 2016View details →
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Figures 11–16 in A description of Echinorhynchus baeri Kostylew, 1928 (Acanthocephala: Echinorhynchidae) from Salmo trutta in Turkey, with notes on synonymy, geographical origins, geological history, molecular profile, and X-ray microanalysis

Figures 11–16. SEM of mature specimens of Echinorhynchus baeri from S. trutta in Turkey. 11. Proboscis of a female specimen. Note variation in hook size; smaller hooks at base 12. Anterior hooks. Note indentation at the base of the hooks (arrow). 13. Double miniature hooks at apical end of proboscis (arrow); occasionally one miniature apical hook present. 14. Higher magnification of an apical hook; note perforations. This hook has a low Ca reading (see EDAX data). 15. A gallium cut normal hook from the mid-proboscis. Note prominent calcified root. 16. A gallium cut miniature apical hook. Note the hollow base and absence of roots.

opencc-by-4.0Dec 2016View details →
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Figures 3–10 in A description of Echinorhynchus baeri Kostylew, 1928 (Acanthocephala: Echinorhynchidae) from Salmo trutta in Turkey, with notes on synonymy, geographical origins, geological history, molecular profile, and X-ray microanalysis

Figures 3–10. Specimens of Echinorhynchus baeri collected from Salmo trutta in Turkey and proboscis hook rows of specimens of E. sevani and E. baeri, respectively, collected from Salmo ischchan in Lake Sevan, Armenia. 3. A male specimen. Note the unique amoeboid, lobulated giant nuclei in the long lemnisci (arrow), the prominent retractor muscles, and the near contiguous ovoid-elongate testes. Proboscis is usually bent ventrad. 4. A gravid female with typically long lemnisci. The reproductive system is obscured by eggs. 5. The female reproductive system. Note the very long and slender uterus and the longitudinal bulge near its distal end (upper arrow). Also note the laterally extending uterine glands at the base of the uterine bell (lower arrow). 6. The proboscis of the male specimens in Fig. 3. Note the uninucleated round cells (arrow). 7. A ripe egg with prominent polar prolongation of the fertilization membrane. 8. A ventral row of proboscis hooks from a male specimen. Note the lack of root manubria anteriorly and the gradual development of manubria with decreasing size of roots posteriorly. 9. Lateral view of hooks of E. sevani after Dinnik (1932) showing variable manubriation in all hook roots ''A = first two hooks. B &amp; C = middle hooks, D &amp; E = last two hooks of the vertical row.'' Measurement bars were not provided. 10. Lateral view of hooks of E. baeri after Kostylew (1928) showing the absence of manubria in all hook roots and the virtual absence of roots of the basal hook; measurement bars were not provided.

opencc-by-4.0Dec 2016View details →
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Figures 17–22 in A description of Echinorhynchus baeri Kostylew, 1928 (Acanthocephala: Echinorhynchidae) from Salmo trutta in Turkey, with notes on synonymy, geographical origins, geological history, molecular profile, and X-ray microanalysis

Figures 17–22. SEM of mature specimens of Echinorhynchus baeri from S. trutta in Turkey. 17. Sensory pore (arrow) at the base of the proboscis. No micropores here. 18. Epidermal micropores at midtrunk. 19. The posterior end of a female specimen showing terminal gonopore. 20. Egg mass from a dissected female specimen. 21. Bursa of a male specimen. 22. The opening of the bursa showing one ring of sensory knobs (arrow).

opencc-by-4.0Dec 2016View details →
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Figure 2 in A description of Echinorhynchus baeri Kostylew, 1928 (Acanthocephala: Echinorhynchidae) from Salmo trutta in Turkey, with notes on synonymy, geographical origins, geological history, molecular profile, and X-ray microanalysis

Figure 2. The drainage system of the historic Inner Anatolian freshwater Lake of the Middle Miocene-Pliocene period based on Demirsoy (2008). The drainage is shown to include the Aras, Murat, and Euphrates rivers. Striped lines mark the present borders and coasts of Turkey.

opencc-by-4.0Dec 2016View details →
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Figure 1 in Molecular profiling of bacterial blight resistance in Malaysian rice cultivars

Figure 1. UPGMA dendrogram showed the patterns of resistance to bacterial blight in Malaysia rice varieties, based on scoring of 13 SSR and 1 STS.

opencc-by-4.0Dec 2022View details →
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Fig. 2 in Molecular Identification, Fatty Acid Profile and Trace Elements in a Stranded Fin Whale in Sabah (Borneo, Malaysia): Implications on Migration Routes and Trophic Ecology of Southern Fin Whales.

Fig. 2. (a) The phylogenetic tree showing the stranded baleen whale (Baleen whale KP/Sabah/02082012) clustered together with the fin whale Balaenoptera physalus (U13103, Z18633 and X61145). (b) The phylogenetic analysis of the cytochrome b gene sequence indicating that the stranded fin whale (Baleen whale KP/Sabah/02082012) is closely related to the specimen of fin whales from the southern hemisphere with accession number KC572845, which represents Balaenoptera physalus quoi.

opencc-by-4.0Dec 2022View details →
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Fig. 1 in Molecular Identification, Fatty Acid Profile and Trace Elements in a Stranded Fin Whale in Sabah (Borneo, Malaysia): Implications on Migration Routes and Trophic Ecology of Southern Fin Whales.

Fig. 1. Stranding site (red-filled triangle) of the fin whale at the Sitompok River (Lat. 05°34'672"N; Long.115°39'710"E) near Kuala Penyu (KP), a coastal town overlooking the South China Sea on the western shores of Sabah (Borneo, Malaysia) (inset map). The approximate location of the sighting of possible fin whales reported by De Boer (2000) is marked with a blue-filled circle. The distribution ranges of rorquals species, including fin whales, in the Philippine waters reported by Slijper et al. (1964) and Acebes (2014) are marked with green-filled circles. The locations of fin whales' migration ranges in Australian waters according to Aulich et al. (2019) are shown using red-filled circles. The stranding site of the unconfirmed fin whale species at Pulau Sugi (Junge 1950) is indicated by a yellow-filled circle.

opencc-by-4.0Dec 2022View details →
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Fig. 4 in Molecular Identification, Fatty Acid Profile and Trace Elements in a Stranded Fin Whale in Sabah (Borneo, Malaysia): Implications on Migration Routes and Trophic Ecology of Southern Fin Whales.

Fig. 4. (a) Concentrations of trace elements (Mean ± SD) in the skin and blubber of the southern fin whale recorded in the present study compared to (b) the concentrations of trace elements in the skin of southern right whales (Eubalaena australis) extracted from the results of Martino et al. (2013).

opencc-by-4.0Dec 2022View details →
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Fig. 3 in Molecular Identification, Fatty Acid Profile and Trace Elements in a Stranded Fin Whale in Sabah (Borneo, Malaysia): Implications on Migration Routes and Trophic Ecology of Southern Fin Whales.

Fig. 3. Comparison of the percentages of fatty acid profiles for (a) SFA, (b) MUFA and (c) PUFA in the tissues of adult male (M) and female (F) southern humpback whales during the early and late migrations extracted from the results of Waugh et al. (2012), epipelagic and mesopelagic (i.e., average) fish in the South China Sea (SCS) extracted from the supplementary data of Wang et al. (2019) and the southern fin whale in the present study.

opencc-by-4.0Dec 2022View details →
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Fig. 4 in Molecular profiling of 18S rRNA reveals seasonal variation and diversity of diatoms community in the Han River, South Korea

Fig. 4. Principal component analysis (PCA) biplot showing the seasonal variation of (A) all the diatom OTU reads, (B) most frequent diatom OTU detected, sampled in March (spring), June (summer), September (autumn), and December (winter). Calculated based on the number of OTU reads in each sample. Each dot represents diatom OTU recovered in this study.

opencc-by-4.0Dec 2021View details →
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Fig. 2 in Molecular profiling of 18S rRNA reveals seasonal variation and diversity of diatoms community in the Han River, South Korea

Fig. 2. Rarefaction curves representing the numbers of Operational Taxonomic Units (OTUs) of diatoms vs. the number of tags sampled from pyrosequencing data.

opencc-by-4.0Dec 2021View details →
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Fig. 1 in Molecular profiling of 18S rRNA reveals seasonal variation and diversity of diatoms community in the Han River, South Korea

Fig. 1. Seasonal variation in water temperature and DO (A), pH and conductivity (B) and TN and TP (C), and cell counts and Chl­a (D) at the Seongsan Bridge of Han River, Korea.

opencc-by-4.0Dec 2021View details →
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Fig. 3 in Molecular profiling of 18S rRNA reveals seasonal variation and diversity of diatoms community in the Han River, South Korea

Fig. 3. (A) Proportion of each eukaryotic taxon (eukaryote, phytoplankton, and diatom), (B) relative abundance of phytoplankton, and (C) relative abundance of diatom taxa. These data were calculated by using 18S rRNA pyrosequencing reads. Taxonomic identity of "others" represents taxa with less than 1% composition of total reads.

opencc-by-4.0Dec 2021View details →
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Source molecular simulation data for calculating energy and friction profiles and permeability coefficients through model lipid membranes

<p>Energy files from GROMACS molecular dynamics simulations with enhanced free energy sampling contain time-dependent evolution of the free energy profiles and friction profiles (and other energies and simulation properties) that were used for calculating permeability coefficients in the publication https://www.biorxiv.org/content/10.1101/2021.07.16.452599v1</p> <p>Simulation system contains a lipid POPC or DPPC bilayer with a varying amount of cholesterol (specified as mol% in the file name). Hydrophobic level of the permeating particle is specified as &quot;level-I&quot;, &quot;level-II&quot; etc. When unspecified in the file name, the particle is hydrophobic level &quot;III&quot;. Lipids D-C14-PC denote PC lipids with both tails monounsaturated of length 14 carbon atoms. DOPC is equivalent to D-C18-PC. (Detailed description in the publication)</p> <p>Adaptive Weighted Histogram (AWH) method was used to sample the free energy profile of translocating small molecule through the lipid bilayer.</p> <p>GROMACS tool `gmx awh` reads the files and provides the described profiles.</p> <p>Files were generated by GROMACS `mdrun` simulation engine version 2019.3.</p> <p>&nbsp;</p> <p>Coarse-grained MARTINI 3.0 model was used for modeling the biomolecular interactions.</p> <p>Scripts to perform the simulations and the files with initial configurations and simulation settings are stored in a public GitHub repository depozited on Zenodo.org: <a href="https://doi.org/10.5281/zenodo.5082249">https://doi.org/10.5281/zenodo.5082249</a>.</p> <p>&nbsp;</p> <p>Abraham, M. J. et al. GROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers. SoftwareX 1&ndash;2, 19&ndash;25 (2015).</p> <p>Lindahl, V., Lidmar, J. &amp; Hess, B. Accelerated weight histogram method for exploring free energy landscapes. J. Chem. Phys. 141, 044110 (2014).</p> <p>Souza, P. C. T. et al. Martini 3: a general purpose force field for coarse-grained molecular dynamics. Nat. Methods 18, 382&ndash;388 (2021).</p> <p>Melcr, J. Git repository with analysis scripts for MD simulations of permeability through lipid membranes. (2021) doi:<a href="https://doi.org/10.5281/zenodo.5082249">https://doi.org/10.5281/zenodo.5082249</a>.</p>

opencc-by-4.0Feb 2022View details →

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Allen Brain Atlas

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allen-brain-atlas
neuroscienceopenDocumentation, web resources, and API references are available online.
Last verified 2026-04-30Open record

Annotated Behaviour and Observability Dataset (ABODe)

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abode-home-cage
behavioral-neuroscienceopenThe DataShare record exposes download links for annotations, documentation, license text, and the zipped per-snippet data directory.
Last verified 2026-04-30Open record

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.

dandi-nwb
electrophysiologyopenPublished Dandiset metadata and archive endpoints are available through the production DANDI API.
Last verified 2026-04-30Open record

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.

ibl
behavioral-neuroscienceopenPublic sessions can be searched and loaded from the IBL public data server through ONE.
Last verified 2026-04-29Open record

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.

openneuro
neuroscienceopenPublished datasets are available on demand over the internet.
Last verified 2026-04-29Open record