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59 results for “Fluorescent proteins”
Arabidopsis SAUR63 seedling phenotypes and fluorescent fusion protein localization
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Training sets of complexes of fluorescent proteins chromophores in pi-stacking with substituted benzenes and imidazoles
<p>each zip archive containes a subset with the corresponding chromophore</p>
Data from: Fluorescent protein-mediated colour polymorphism in reef corals: multi-copy genes extend the adaptation/acclimatization potential to variable light environments
The genomic framework that enables corals to adjust to unfavourable conditions is crucial for coral reef survival in a rapidly changing climate. We have explored the striking intraspecific variability in the expression of coral pigments from the green fluorescent protein (GFP) family to elucidate the genomic basis for the plasticity of stress responses among reef corals. We show that multi-copy genes can greatly increase the dynamic range over which corals can modulate transcript levels in response to the light environment. Using the red fluorescent protein amilFP597 in the coral Acropora millepora as a model, we demonstrate that its expression increases with light intensity, but both the minimal and maximal gene transcript levels vary markedly among colour morphs. The pigment concentration in the tissue of different morphs is strongly correlated with the number of gene copies with a particular promoter type. These findings indicate that colour polymorphism in reef corals can be caused by the environmentally regulated expression of multi-copy genes. High-level expression of amilFP597 is correlated with reduced photodamage of zooxanthellae under acute light stress, supporting a photoprotective function of this pigment. The cluster of light-regulated pigment genes can enable corals to invest either in expensive high-level pigmentation, offering benefits under light stress, or to rely on low tissue pigment concentrations and use the conserved resources for other purposes, which is preferable in less light-exposed environments. The genomic framework described here allows corals to pursue different strategies to succeed in habitats with highly variable light stress levels. In summary, our results suggest that the intraspecific plasticity of reef corals' stress responses is larger than previously thought.
Fig. 11 in Expression of green fluorescent protein defines a specific population of lamina II excitatory interneurons in the GRP::eGFP mouse
Fig. 11. Hoplocryptus japonicus sp. nov. (A-D, KPM-NK 75771) and H. maculatus sp. nov. (E-I, KPM-NK 75781) ― A, E, lateral habitus; B, F, head, mesosoma and metasoma, dorsal view; C, G, head, frontal view; D, H, propodeum, dorsal view; I, left fore wing.
Nature-Inspired Recycling of a Protein Mixture into a Green Fluorescent Protein-based hydrogel
<p>Dataset for scientific publication entitled Nature-Inspired Recycling of a Protein Mixture into a Green Fluorescent Protein-based hydrogel</p>
Green fluorescent protein-like pigments optimize the internal light environment in symbiotic reef building corals
<p>Pigments homologous to the Green Fluorescent Protein (GFP) have been proposed to fine-tune the internal light microclimate of corals, facilitating photoacclimation of photosynthetic coral symbionts (Symbiodiniaceae) to life in different reef habitats and environmental conditions. However, direct measurements of the <i>in vivo</i> light conditions inside the coral tissue supporting this conclusion are lacking. Here, we quantified the intra-tissue spectral light environment of corals expressing GFP-like proteins from widely different light regimes. We focus on (1) photoconvertible red fluorescent proteins (pcRFPs), thought to enhance photosynthesis in mesophotic habitats via wavelength conversion, and (2) chromoproteins (CPs), which provide photoprotection to the symbionts in shallow water via light absorption. Optical microsensor measurements indicated that both pigment groups strongly alter the<i> </i>coral tissue light environment. Estimates derived from light spectra measured in pcRFP-containing corals showed that fluorescence emission can contribute to >50% of orange-red light available to the photosynthetic symbionts at mesophotic depths. We further show that upregulation of pink CPs in shallow-water corals during bleaching leads to a reduction of orange light by 10-20% compared to low-CP tissue. Thus, screening by CPs has an important role in mitigating the light-enhancing effect of coral tissue scattering during bleaching. Our results provide the first experimental quantification of the importance of GFP-like proteins in fine-tuning the light microclimate of corals during photoacclimation.</p>
Green fluorescent protein-like pigments optimize the internal light environment in symbiotic reef building corals
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Data from: Acclimatization of symbiotic corals to mesophotic light environments through wavelength transformation by fluorescent protein pigments
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Data from: Fluorescent protein-mediated colour polymorphism in reef corals: multi-copy genes extend the adaptation/acclimatization potential to variable light environments
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A framework to validate fluorescently labeled DNA-binding proteins for single-molecule experiments
GEO Series GSE212751. Bacillus subtilis PY79. 8 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
RNA-Seq data for AKT, BAD, ERBB2, IGF1R, RAF1 and ERK1 over-expressed samples with twelve green fluorescent protein control samples using human mammary epithelial cells
GEO Series GSE73628. Homo sapiens. 47 samples. Type: Expression profiling by high throughput sequencing.
RNA-Seq data for AKT, BAD, ERBB2, IGF1R, RAF1 and KRAS(G12V) overexpressed samples with twelve green fluorescent protein control samples using human mammary epithelial cells
GEO Series GSE83083. Homo sapiens. 59 samples. Type: Expression profiling by high throughput sequencing.
RNA-Seq data for five HER2 over-expressed samples with twelve green fluorescent protein control samples using human mammary epithelial cells
GEO Series GSE62820. Homo sapiens. 17 samples. Type: Expression profiling by high throughput sequencing.
Expression data from mouse bone marrow cells expressing renin driven expression of green fluorescent protein.
GEO Series GSE53916. Mus musculus. 6 samples. Type: Expression profiling by array.
Expression data from rat NSCs co-cultured with green fluorescence protein (GFP)-ectodermal mesenchymal stem cells (EMSCs) versus mono-cultured rat NSCs
GEO Series GSE108752. Rattus norvegicus. 2 samples. Type: Expression profiling by array.
Transcriptome analysis of Arabidopsis plants that overexpress green fluorescent protein (GFP) and GFP-LOV kelch protein 2 (GFP-LKP2)
GEO Series GSE37197. Arabidopsis thaliana. 2 samples. Type: Expression profiling by array.
RNA-Seq data for KRAS wild-type(WT) and two mutant forms G12V and Q61H over-expressed samples with green fluorescent protein control samples using human mammary epithelial cells
GEO Series GSE76877. Homo sapiens. 36 samples. Type: Expression profiling by high throughput sequencing.
Blue‐shifting green fluorescent proteins using REPLACE
GEO Series GSE271876. Mesocricetus auratus. 14 samples. Type: Other.
Fast, streamlined fluorescence nanoscopy resolves rearrangements of SNARE and cargo proteins in platelets co-incubated with cancer cells.
<p><strong>This folder contains all raw data underlying the results presented in a manuscript, submitted to </strong><strong><em>Journal of Nanobiotechnology</em></strong><strong>, and entitled:</strong></p> <p> </p> <p><strong>Fast, streamlined fluorescence nanoscopy resolves rearrangements of SNARE and cargo proteins in platelets co-incubated with cancer cells.</strong></p> <p> </p> <p><strong>Authored by:</strong></p> <p>Jan Bergstrand<sup>a,+</sup>, Xinyan Miao<sup>a,+</sup>, Chinmaya Venugopal Srambickal<sup>a,+</sup>, Gert Auer<sup>b</sup>, Jerker Widengren<sup>a,*</sup></p> <p><sup>a</sup> Royal Institute of Technology (KTH), Department of Applied Physics, Experimental Biomolecular Physics, Albanova Univ Center, SE-106 91 Stockholm, Sweden</p> <p><sup>b</sup> Karolinska Institutet, Department of Oncology-Pathology, K7, Z1:00, Karolinska University Hospital, 171 76 Stockholm, Sweden</p> <p><sup>* </sup>To whom correspondence should be addressed. E-mail: <a href="mailto:jwideng@kth.se">jwideng@kth.se</a>, Phone: +46-8-7907813</p> <p><sup>+ </sup>These authors contributed equally</p> <p> </p> <p><strong>The data files are grouped into the different </strong><strong>figures where they are presented</strong><strong>.</strong></p> <p> </p> <p><strong>ABSTRACT</strong></p> <p>Background:</p> <p>Increasing evidence suggests that platelets play a central role in cancer progression, with altered storage and selective release from platelets of specific tumor-promoting proteins as a major mechanism. Fluorescence-based super-resolution microscopy (SRM) can resolve nanoscale spatial distribution patterns of such proteins, and how they are altered in platelets upon different activations. Analysing such alterations by SRM thus represents a promising, minimally invasive strategy for platelet-based diagnosis and monitoring of cancer progression. However, broader applicability beyond specialized research labs will require objective, more automated imaging procedures. Moreover, for statistically significant analyses many SRM platelet images are needed, of several different platelet proteins. Such proteins, showing alterations in their distributions upon cancer progression additionally need to be identified.</p> <p>Results:</p> <p>A fast, streamlined and objective procedure for SRM platelet image acquisition, analysis and classification was developed to overcome these limitations. By stimulated emission depletion SRM we imaged nanoscale patterns of six different platelet proteins; four different SNAREs (soluble N-ethylmaleimide factor attachment protein receptors) mediating protein secretion by membrane fusion of storage granules, and two angiogenesis regulating proteins, representing cargo proteins within these granules coupled to tumor progression. By an streamlined procedure, we recorded about 100 SRM images of platelets, for each of these six proteins, and for five different categories of platelets; incubated with cancer cells (MCF-7, MDA-MB-231, EFO-21), non-cancer cells (MCF-10A), or no cells at all. From these images, structural similarity and protein cluster parameters were determined, and probability functions of these parameters were generated for the different platelet categories. By comparing these probability functions between the categories, we could identify nanoscale alterations in the protein distributions, allowing us to classify the platelets into their correct categories, if they were co-incubated with cancer cells, non-cancer cells, or no cells at all.</p> <p>Conclusions:</p> <p>The fast, streamlined and objective acquisition and analysis procedure established in this work confirms the role of SNAREs and angiogenesis-regulating proteins in platelet-mediated cancer progression, provides additional fundamental knowledge on the interplay between tumor cells and platelets, and represent an important step towards using tumor-platelet interactions and redistribution of nanoscale protein patterns in platelets as a basis for cancer diagnostics.</p> <p> </p> <p><strong>Key Words:</strong></p> <p>STED, super-resolution microscopy, platelet, cancer, tumorigenesis, SNARE protein, dictionary learning</p>
ScienceDex guides
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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.