Find research datasets worth reusing

opencc-by-4.0Feb 2023View details →

BK Channels activation by N-type Ca2+ channels in the dendrites of neocortical pyramidal neurons

This dataset contains imaging and whole-cell electrophysiological recordings from neocortical layer-5 pyramidal neuron dendrites in brain slices of the mouse.Somatic electrophysiological and dendritic imaging recordings were done at 20 kHz. Imaging recordings were done with ~2.5 µm nm pixel resolution. These correspond to:<ul><li>Voltage imaging (Figures 1 and 7)</li><li>Calcium imaging (Figures 2,3 and 4).</li></ul>This dataset is used in the paper:Blömer LA, Giacalone E, Abbas F, Filipis L, Migliore M, Canepari M. Kinetics and functional consequences of BK Channels activation by N-type Ca2+ channels in the dendrite of mouse neocortical layer-5 pyramidal neurons. bioRxiv, 2023 (https://www.biorxiv.org/content/10.1101/2023.10.26.564136v1).

opencc-by-4.0Jan 2022View details →

Data set for "Axonal and dendritic morphology of excitatory neurons in layer 2/3 mouse barrel cortex imaged through whole-brain two-photon tomography and registered to a digital brain atlas"

Data set for: Liu Y, Foustoukos G, Crochet S and Petersen CCH (2022) Axonal and dendritic morphology of excitatory neurons in layer 2/3 mouse barrel cortex imaged through whole-brain two-photon tomography and registered to a digital brain atlas. Front Neuroanat  15: 791015. https://doi.org/10.3389/fnana.2021.791015 There are 2 files in this upload: 1. The file named "2022_Liu_FrontNeuroanat.pdf" is the Open Access pdf of the online publication in Frontiers in Neuroanatomy. 2. The file named "Liu_data_code.zip" (~1 GB) is a zipped version of a folder ‘Liu_data_code’, which contains the data analyzed in the study along with the Python codes used to generate the published figures. The original high resolution image stacks obtained through whole-brain two-photon serial tomography are unfortunately too large for Zenodo, and only highly-downsampled data are included in this upload, which were used for registration with the Allen CCFv3. Instructions on how to view and analyse the anatomical data are provided in the 'README.docx' file, which you will find upon unzipping the folder.

opencc-by-4.0Aug 2021View details →

Raw data for: "CalDAG-GEFI mediates striatal cholinergic modulation of dendritic excitability, synaptic plasticity and psychomotor behaviors"

Figure 2. CDGI mediates the M1R modulation of dendritic excitability but not the M1R modulation of somatic excitability. (A and B) Sagittal sections through the brains of CDGI knockout mice in which the direct pathway was visualized (red) in D1-tdTomato mice (A) and the indirect pathway was visualized (green) in D2-GFP mice. (C) Sample somatic voltage changes evoked by 120pA current injections in iSPNs from WT (black) and CDGI-KO (red) before and after bath application of oxo-M (10 µM). (C-D) Current-response curves of iSPNs from WT (B, n=5 cells) and CDGI-KO mice (C, n=7 cells). Somatic excitability of iSPNs was similarly enhanced by oxo-M in WT and CDGI-KO. (E) Sample somatic recordings in response to 140pA current injections in dSPNs from WT (black) and CDGI KO (red) before and after bath application of oxo-M (10 µM). (F-H) Current-response curves of dSPNs from WT (E) and CDGI-KO (F) mice (n=4-6). (I) Trains of five EPSPs were evoked by stimulation of glutamatergic afferent fibers at 40 Hz. Oxo-M (10 µM) increased EPSP summation in iSPNs of WT, but not in CDGI-KO or when M1Rs were blocked by M1R antagonist VU0255035 in WT (5 M). (J) Box plot showing the effect of oxoM on synaptic summation. The EPSP5/EPSP1 ratio was increased by oxoM in iSPNs of WT (p = 0.002, Wilcoxon test; n = 10), but not in iSPNs of 27 CDGI-KO mice (p = 0.25, n = 9) or in iSPNs of WT mice in the presence of VU0255035 (p = 0.69, n = 6). (K) Box plot showing the effect of oxoM on the kinetics of synaptic response. The decay time constant of EPSP5 was significantly increased by oxoM in iSPNs of WT (p = 0.002); but not when CDGI was genetically deleted (p = 0.65) or when M1R was pharmacologically blocked (p = 0.84).

opencc-by-4.0Mar 2024View details →

Correlative microscopy of mice cerebellar Purkinje cells from 20x confocal tissue imaging to super-resolution 93x 3D STED of dendritic spines

This Dataset concerns the paper entitled "From tissues to segmentation: a modular framework for multi-scale neuron isolation" by Cauzzo et al. Nature Comm (2024). S.Cauzzo$, E. Bruno, D. Boulet, P. Nazac, M. Basile, A. L. Callara, F. Tozzi, A. Ahluwalia, C. Magliaro, L. Danglot$*, N. Vanello$*    *shared senior authorship: Lydia.danglot@inserm.fr ; nicola.vanello@unipi.it $ corresponding authors : cauzzo.simone@gmail.com  ; Lydia.danglot@inserm.fr ; nicola.vanello@unipi.it

opencc-by-4.0Jun 2024View details →

Antibacterial Hydrogel Adhesives based on Bifunctional Telechelic Dendritic-Linear-Dendritic Block Copolymers

Antibiotic resistant pathogens have been declared by WHO as one of the major public health threats facing humanity.  For that reason, there is an urgent need for materials with inherent antibacterial activity able to replace the use of antibiotics, and in this context, hydrogels have emerged as a promising strategy. Herein, we introduce the next generation of cationic hydrogels with antibacterial activity and high versatility that can be cured on demand in less than twenty seconds by using Thiolene Click Chemistry (TEC) in aqueous conditions. The approach capitalizes on a two-component system: i) telechelic polyester based Dendritic-Linear-Dendritic (DLDs) block copolymers of different generations heterofunctionalized with allyl and ammonium groups, as well as ii) polyethylene glycol (PEG) crosslinkers functionalized with thiol groups. These hydrogels resulted in highly tunable materials where the antibacterial performance can be adjusted by modifying the crosslinking density. Off-stoichiometric hydrogels showed narrow antibacterial activity directed towards Gram-negative bacteria. The presence of pending allyls opens up many possibilities for functionalization with biologically interesting molecules.  As a proof-of-concept, hydrophilic cysteamine hydrochloride as well as N-hexyl-4-mercaptobutanamide, as an example of a thiol with a hydrophobic alkyl chain, generated three-component networks. In the case of cysteamine derivatives, a broader antibacterial activity was noted than the two-component networks, inhibiting also the growth of Gram-positive bacteria. Additionally, these systems presented high versatility, with storage modulus values ranging from 270 to 7024 Pa and different stability profiles ranging from 1 to 56 days in swelling experiments. Good biocompatibility towards skin cells as well as strong adhesion to multiple surfaces, place these hydrogels as interesting alternatives to conventional antibiotics.

opencc-by-4.0Jan 2023View details →

Microwave Single Scattering Properties Database (Horizontally Aligned Aggregates of Dendrites)

The database contains physical and microwave single scattering properties of horizontally aligned frozen hydrometeors as large as 11 cm in diameter.  A description of the aggregation model used for particle generation can be found in: Leinonen, J., and  Szyrmer, W. (2015),  Radar signatures of snowflake riming: A modeling study, Earth and Space Science,  2,  346– 358, doi:<a href="https://doi.org/10.1002/2015EA000102">10.1002/2015EA000102</a>. The code used for particle generation is freely available at: <a href="https://github.com/jleinonen/aggregation">https://github.com/jleinonen/aggregation</a> The scattering properties of particles were computed using discrete dipole approximation using ADDA software package (<a href="https://github.com/adda-team/adda">https://github.com/adda-team/adda</a>) Terminal velocity of snowflakes was computed using 4 hydrodynamical models that were implemented as a part of snowScat library (<a href="https://github.com/OPTIMICe-team/snowScatt">https://github.com/OPTIMICe-team/snowScatt</a>) Approximately one half of the snowflake structure files and one quarter of scattering properties (for X, Ku, Ka and W band) were generated for the publication of Leinonen and Szyrmer (2015). The remaining part of the dataset was generated using the ALICE High Performance Computing Facility at the University of Leicester.

opencc-by-4.0Jun 2023View details →

Dataset: Dendritic nanoarchitecture imparts ZSM-5 zeolite with enhanced adsorption and catalytic performance in energy applications

The development of zeolites possessing dendritic features represents a great opportunity for the design of novel materials with applications in a large variety of fields and, in particular, in the energy sector to afford its transition towards a low carbon system. In the current work, ZSM-5 zeolite showing a dendritic 3D nanoarchitecture has been synthesized by the functionalization of protozeolitic nanounits with an amphiphilic organosilane, which provokes the branched aggregative growth of zeolite embryos. Dendritic ZSM-5 exhibits outstanding accessibility arising from a highly interconnected network of radially-oriented mesopores (3 – 10 nm) and large cavities (20 – 80 nm), which add to the zeolitic micropores, thus showing a well-defined trimodal pore size distribution. These singular features provide dendritic ZSM-5 with sharply enhanced performance in comparison with nano- and hierarchical reference materials when tested in a number of energy related applications, such as VOCs (toluene) adsorption (improved capacity), plastics (low-density polyethylene) catalytic cracking (boosted activity) and hydrogen production by methane catalytic decomposition (higher activity and deactivation resistance).

Fig. 30. Rhopalondendrina tigris igen. et isp. nov. A–B in Taming an ichnotaxonomical Pandora's box: revision of dendritic and rosetted microborings (ichnofamily: Dendrinidae)

Fig. 30. Rhopalondendrina tigris igen. et isp. nov. A–B. Planar and lateral views of two specimens illustrating the diagnostic arcuate entrance tunnel and paw-shaped main chamber; SEM of epoxy casts from a bivalve shell sampled off Mauritania. C–D. SEM of specimens in an initial (C, paratype) and a mature (D, holotype) ontogenetic stage, cast in epoxy from experimental bivalve substrates that were deployed at the Great Barrier Reef, Australia. E–F. Lateral and planar views of another specimen (paratype) from the type locality.

Fig. 33. A in Taming an ichnotaxonomical Pandora's box: revision of dendritic and rosetted microborings (ichnofamily: Dendrinidae)

Fig. 33. A. Evolutionary trends in dendrinid microborings, considering the known range (based on certain end members only) of the various ichnospecies (light grey) and the number of ichnospecies making their first appearance (dark grey). Numbers are per period, except for the Paleocene to Pleistocene (global series). Relevant evolutionary radiations and extinction events are indicated. B. Same graph for all microbioerosion ichnospecies, but based on actual records only (data from Wisshak et al. 2008; numbers per period). C. Ichnodiversity curve for all bioerosion ichnogenera based on range data (data from Buatois & Mángano 2016; numbers per global series).

Fig. 32 in Taming an ichnotaxonomical Pandora's box: revision of dendritic and rosetted microborings (ichnofamily: Dendrinidae)

Fig. 32. Composite and compound trace fossils in Upper Cretaceous belemnite rostra from the "Senonian" of Lüneburg, Germany (A), Upper Campanian of Kronsmoor, Germany (B), Lower Campanian of Misburg (C–D), and Lower Maastrichtian of Rügen, Germany (E–G). A. Nice display of Dendrina dendrina (Morris, 1851), D. belemniticola Mägdefrau, 1937, D. lacerata Hofmann, 1996, Calcideletrix anomala (Mägdefrau, 1937) and C. flexuosa Mägdefrau, 1937, partly in lateral contact or overlapping and partly interconnected by tubular tunnels. B. Several D. dendrina, interconnected by tubular tunnels. C–D. Overview and close-up of a C. anomala connected to several paratypes of D. lacerata. E–G. Large C. flexuosa connected to several D. lacerata at its periphery (close-up in F), as well as to a widened tubular tunnel reminiscent of Filuroda reptans (Clarke, 1908) (close-up in G).

Fig. 29. Rhopalondendrina contra igen. et isp. nov. A–E in Taming an ichnotaxonomical Pandora's box: revision of dendritic and rosetted microborings (ichnofamily: Dendrinidae)

Fig. 29. Rhopalondendrina contra igen. et isp. nov. A–E. Overviews and close-ups of the holotype, illustrating the morphology of the entrance tunnel (arrows in A and D; close-ups in C and E) and the anastomosing plexus, covered with short and spiny protrusions (close-up in B). SEM of epoxy cast of a bivalve shell sampled in Middle Miocene strata at Balcome Bay, Victoria, Australia (same for F–H). F. Juvenile specimen (paratype) with clearly visible entrance tunnel (arrow indicating initial point of entry). G–H. Larger specimen (paratype) with the plexus developed on the opposite surface of the bivalve shell from the initial point of entry (arrow in G).

Fig. 25. Pyrodendrina belua isp. nov. A in Taming an ichnotaxonomical Pandora's box: revision of dendritic and rosetted microborings (ichnofamily: Dendrinidae)

Fig. 25. Pyrodendrina belua isp. nov. A. SEM planar view of holotype, surrounded by a carpet of other microborings in an epoxy cast prepared from a bivalve shell sampled from the Middle Pennsylvanian Buckhorn Asphalt Lagerstätte in Oklahoma, USA. B–C. Lateral views of holotype illustrating vertically oriented galleries, parts of which bearing perpendicular side braches. D. Detail of terminal widening and spiny ornamentation. E. Detail of slender prostrate galleries with terminal swellings and typical branching pattern; an anastomosis is developed at the lower right.

Fig. 26. Pyrodendrina villosa isp. nov. A in Taming an ichnotaxonomical Pandora's box: revision of dendritic and rosetted microborings (ichnofamily: Dendrinidae)

Fig. 26. Pyrodendrina villosa isp. nov. A. Holotype in a Pleistocene skeleton of the coral Lophelia pertusa (Linnaeus, 1758) from Rhodes, Greece, prior to epoxy casting. B. SEM of same holotype in epoxy cast. C. Detail of holotype illustrating hairy ornamentation (collapsed to cast surface). D. Detail of central part of holotype, showing diagnostic vertically oriented protrusions. E. Numerous specimens in the same coral fragment as the holotype. F. Same type of traces in a Recent skeleton of Lophelia pertusa from Stjernsund, Norway. G. SEM of another specimen with an elongate overall morphology, found in a Pleistocene cold water coral from Rhodes, Greece. H. Specimen with a more rosette-shaped outline, found in a skeleton of the coral Keratoisis Wright, 1869 from the Pleistocene of Messina, Sicily. I. Transmission light micrograph of a specimen in a shell of the bivalve Delectopecten vitreus (Gmelin, 1791) from Sula Reef, off Norway.

Fig. 23. Pyrodendrina cupra Tapanila, 2008. A–B in Taming an ichnotaxonomical Pandora's box: revision of dendritic and rosetted microborings (ichnofamily: Dendrinidae)

Fig. 23. Pyrodendrina cupra Tapanila, 2008. A–B. SEM of the holotype, cast in epoxy from a shell of the brachiopod Pentamerus palaformis Jin & Copper, 2000 from the Early Silurian of Anticosti Island, Canada.

Fig. 28. Rhopalondendrina acanthina igen. et isp. nov. A in Taming an ichnotaxonomical Pandora's box: revision of dendritic and rosetted microborings (ichnofamily: Dendrinidae)

Fig. 28. Rhopalondendrina acanthina igen. et isp. nov. A. SEM of holotype, partly obscured by other microborings, with point of entry at the lower left, in an epoxy cast of a Middle Pleistocene bivalve shell from the Island of Rhodes, Greece. B–C. Planar and oblique views of the paratype, illustrating an early ontogenetic stage with short vertical entrance tunnel; same epoxy cast as the holotype. D–F. SEM of three different ontogenetic stages (arrows indicating initial points of entry), in epoxy casts from experimental bivalve shells deployed at Faial Island in the Azores (same for G–I). G. Oblique view of a specimen with vertical entrance tunnel and short spiny protrusions connecting the trace to the substrate surface. H–I. Two specimens of a related dendrinid from the Azores experiment, awaiting ichnotaxonomical treatment as soon as more material becomes available.

Fig. 31. Antodendrina ligula igen. et isp. nov. A in Taming an ichnotaxonomical Pandora's box: revision of dendritic and rosetted microborings (ichnofamily: Dendrinidae)

Fig. 31. Antodendrina ligula igen. et isp. nov. A. Typical cluster, including the holotype (arrow), visible on the inner side of an Inoceramus bivalve shell from the upper Campanian of Kronsmoor, Germany, prior to epoxy casting. B–C. SEM planar and oblique views of the holotype in respective epoxy cast, showing initial point of entry (arrow) and slender distal galleries (to the right); surrounded by etching pattern of polygonal shell microstructure as well as granular microborings. D. Paratype with less distinct and shallower central area. E. Initial ontogenetic stage. F–G. Incipient and transmission light micrographs of a shell showing traces in various ontogenetic stages. H. Detail of F showing a mature specimen with six radiating lobes and peripheral filaments following the boundaries of the polygonal crystallites of the prismatic shell layer.

Fig. 21 in Taming an ichnotaxonomical Pandora's box: revision of dendritic and rosetted microborings (ichnofamily: Dendrinidae)

Fig. 21. Nododendrina paleodendrica (Elias, 1957). A. Original illustration of holotype (actually syntypes) in the dorsal valve of the brachiopod Buxtonia semicircularis (Sutton & Wagner, 1931) from the Late Mississippian Redoak Hollow Formation of Oklahoma, USA (reproduced from Elias 1957: pl. 39, fig. 9). B–C. Original illustrations of further specimens in two shells of the brachiopod Chonetes Fischer de Waldheim, 1830 from the Late Mississippian Redoak Hollow Formation of Oklahoma, USA (reproduced from Elias 1957: pl. 39, figs 4 and 3, respectively).

Fig. 20 in Taming an ichnotaxonomical Pandora's box: revision of dendritic and rosetted microborings (ichnofamily: Dendrinidae)

Fig. 20. Nododendrina incomposita (Mägdefrau, 1937) comb. nov. A. Lectotype (arrow) and several paralectotypes in a brachiopod shell from the upper Maastrichtian of Rügen, Germany. B. Topotypic shell of the brachiopod Chatwinothyris Sahni, 1925 with several specimens in various ontogenetic stages. C. Mirror-symmetrical SEM image of epoxy cast of the same shell. D–G. SEM close-ups of various specimens from the same shell, illustrating an ontogenetic series. H–I. Cluster of traces and close-up of holotype of junior synonym Hyellomorpha microdendritica Vogel et al., 1987, in a cast of the brachiopod Mediospirifer Bublichenko, 1959 from the Devonian at Lake Erie, New York, USA. J–K. Reflective and transmitted light micrographs of syntypes of the junior synonym Dendrina minor Mägdefrau, 1937 in an Ordovician trilobite fragment from erratics found near Köthen, Germany.

Fig. 19 in Taming an ichnotaxonomical Pandora's box: revision of dendritic and rosetted microborings (ichnofamily: Dendrinidae)

Fig. 19. Nododendrina europaea (Fischer, 1875). A–B. Original illustrations of the trace as observed in a transparent shell of the bivalve Pecten opercularis (Linnaeus, 1758) from the Gulf of Gascogne, France (reproduced from Fischer 1875: pl. XVI, figs 5–6; no scale). C–E. SEM overview and close-up of the neotype (= holotype of the junior synonym Semidendrina pulchra Bromley et al., 2007) in an epoxy cast of an Upper Jurassic Lopha shell from Villers-sur-Mer, France. F. SEM of an ontogenetic series as recorded in an epoxy cast of a bivalve shell that was exposed for two years at a depth of 15 m in the Kosterfjord, Sweden (modified from Wisshak 2006).