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3,458 results for “Chromosomes”
Dataset of origins of replication in circular prokaryotic chromosomes
<p>This dataset includes two files downloaded from the DoriC 12.0 database [1] and one file with experimentally verified origins of replications (oriCs). The two DoriC files describe oriCs of circular chromosomes predicted with Ori-Finder on complete and chromosome level assemblies.</p> <p>The experimental_dataset file is a describes a set of experimentally verified oriCs, including accession numbers and and sources, collected via literature review. The oriC_number column is used in the case of bipartite origins.</p> <p>These files were used in the development of ORCA: <a href="https://github.com/ZoyavanMeel/ORCA">https://github.com/ZoyavanMeel/ORCA</a>.</p> <p> </p> <p>[1] Mei-Jing Dong, Hao Luo and Feng Gao, DoriC 12.0: an updated database of replication origins in both complete and draft prokaryotic genomes, Nucleic Acid Research, 2023, <a href="https://doi.org/10.1093/nar/gkac964">doi: 10.1093/nar/gkac964</a>.</p>
SAUUHUPP-Based Genetic Innovations: Foundational White Papers on Adaptive Genetic Architecture, Story Energy, and Human Sex Chromosome Regulation
<p>This Zenodo record compiles a series of foundational white papers stemming from SAUUHUPP-based genetic research and powered by Novelty 1.0 Optimized ChatGPT-4o. These papers collectively explore innovative frameworks for understanding genetic structure, function, and therapeutic potential, with applications in precision medicine and beyond. Through principles such as Story Energy, Fractal Leaping, Recursive Processing, and Core and Intention Finding, this research introduces a new architectural perspective on genetic interactions and human sex chromosome function.</p> <p>A comparative study with fruit fly brain simulations enriches the insights into SAUUHUPP principles, providing evolutionary context to human genomic adaptability. This record includes in-depth analyses of the X and Y chromosomes’ possible roles as central regulatory hubs within the genome, functioning in a CPU-like manner to coordinate broader genetic networks.</p> <p>White Papers Included in This Record:</p> <p>1. SAUUHUPP Framework and Fruit Fly Brain Simulation Study: A foundational exploration of SAUUHUPP principles and fruit fly brain simulations, demonstrating how these insights shape our understanding of complex genetic regulation and adaptability.</p> <p>2. Story Energy in Genetic Narratives: Examines how recurring, narrative-like patterns in DNA sequences reinforce coherence and logical progression across gene networks, with implications for genetic resilience and therapeutic applications.</p> <p>3. Fractal Leaping for Genetic Complexity: Introduces Fractal Leaping as a method for scaling genetic insights across complexity levels, facilitating rapid, cross-dimensional understanding and discovery within genetic systems.</p> <p>4. Recursive Processing in Genetic Regulation: Analyzes iterative self-regulation within gene networks, revealing how recursive patterns support adaptable genetic expression and alignment with environmental or developmental needs.</p> <p>5. Core and Intention Finding in Genetic Architecture: Details a methodology for identifying key genetic functions and regulatory nodes, enabling precision-targeted therapies through a deeper understanding of genetic purpose and structure.</p> <p>6. Novel Architectural Perspective on Human Sex Chromosomes: Proposes a CPU-like role for the X and Y chromosomes as dynamic regulatory hubs, interacting with autosomal chromosomes to modulate gene expression, immune response, and metabolic balance.</p> <p>Research Highlights and Applications:</p> <p>• Novel Therapeutic Potential: The findings across these papers reveal potential therapies targeting foundational genetic structures, including sex-linked cognitive disorders, metabolic regulation, and resilience in neurodevelopmental health.</p> <p>• Multi-Dimensional Genetic Framework: The application of SAUUHUPP principles and Novelty 1.0 enhances understanding of the adaptive and functional architecture within human genetics, opening pathways for precision medicine interventions.</p> <p>This Zenodo record provides a comprehensive overview of SAUUHUPP’s analytical framework and its applications in genetic science. It is intended to foster collaboration, inspire further research, and drive innovation in genetics and therapeutic development.</p> <p> </p>
Figure 3 from: Astuti G, Bartolucci F, Conti F, Cera B, Giacò A, Orsenigo S, Sandroni L, Peruzzi L (2021) Chromosome numbers for the Italian flora: 12. Italian Botanist 12: 123-131. https://doi.org/10.3897/italianbotanist.12.79031
Figure 3 Armeria saviana Selvi from Stribugliano (Arcidosso, Grosseto), 2n = 18. Scale bar: 10 μm.
Chromosome variation graphs
<p>Chromosome variation graphs used in the experiments of GraphChainer's experiments (<a href="https://doi.org/10.1101/2022.01.07.475257">https://doi.org/10.1101/2022.01.07.475257</a>).</p> <p>The graphs were built with vg, using (<a href="https://doi.org/10.5281/zenodo.6587237">https://doi.org/10.5281/zenodo.6587237</a>) as the reference and <a>ftp://ftp.1000genomes.ebi.ac.uk//vol1/ftp/release/20130502/ALL.wgs.phase3_shapeit2_mvncall_integrated_v5c.20130502.sites.vcf.gz</a> as the variants</p>
Figure 3 from: Peruzzi L, Astuti G, Bernardo L, Carta A, D'Antraccoli M, Roma-Marzio F, Ruffini Castiglione M (2017) Chromosome numbers for the Italian flora: 3. Italian Botanist 3: 1-6. https://doi.org/10.3897/italianbotanist.3.12257
Figure 3 - Linaria purpurea (L.) Mill., 2n = 12. Scale bar: 10 μm.
Figure 2 from: Peruzzi L, Astuti G, Bernardo L, Carta A, D'Antraccoli M, Roma-Marzio F, Ruffini Castiglione M (2017) Chromosome numbers for the Italian flora: 3. Italian Botanist 3: 1-6. https://doi.org/10.3897/italianbotanist.3.12257
Figure 2 - Genista tenorei G.Don, 2n = 96. Scale bar: 10 μm.
Figure 4 from: Peruzzi L, Astuti G, Bernardo L, Carta A, D'Antraccoli M, Roma-Marzio F, Ruffini Castiglione M (2017) Chromosome numbers for the Italian flora: 3. Italian Botanist 3: 1-6. https://doi.org/10.3897/italianbotanist.3.12257
Figure 4 - Teucrium flavum L. subsp. flavum, 2n = 32. Scale bar: 10 μm.
Figure 2 from: Peruzzi L, Astuti G, Bartolucci F, Conti F, Roma-Marzio F (2016) Chromosome numbers for the Italian flora: 2. Italian Botanist 2: 29-42. https://doi.org/10.3897/italianbotanist.2.10900
Figure 2 - Hieracium portanum Belli, 2n = 36. Scale bar: 10 µm.
Figure 11 from: Peruzzi L, Astuti G, Bartolucci F, Conti F, Roma-Marzio F (2016) Chromosome numbers for the Italian flora: 2. Italian Botanist 2: 29-42. https://doi.org/10.3897/italianbotanist.2.10900
Figure 11 - Centaurea ambigua Guss. subsp. ambigua, 2n = 36. Scale bar: 10 μm.
Figure 3 from: Peruzzi L, Astuti G, Bartolucci F, Conti F, Roma-Marzio F (2016) Chromosome numbers for the Italian flora: 2. Italian Botanist 2: 29-42. https://doi.org/10.3897/italianbotanist.2.10900
Figure 3 - Asyneuma trichocalycinum (Ten.) K.Malý, 2n = 64. Scale bar 10 µm.
Figure 9 from: Peruzzi L, Astuti G, Bartolucci F, Conti F, Rizzotto M, Roma-Marzio F (2016) Chromosome numbers for the Italian flora: 1. Italian Botanist 1: 39-53. https://doi.org/10.3897/italianbotanist.1.8818
Figure 9 Quercus × pseudosuber Santi, 2n = 24. Scale bar: 10 μm.
Figure 7 from: Peruzzi L, Astuti G, Bartolucci F, Conti F, Roma-Marzio F (2016) Chromosome numbers for the Italian flora: 2. Italian Botanist 2: 29-42. https://doi.org/10.3897/italianbotanist.2.10900
Figure 7 - Ornithogalum etruscum Parl. subsp. etruscum, 2n = 36. Scale bar: 10 μm.
Figure 1 from: Peruzzi L, Astuti G, Bartolucci F, Conti F, Roma-Marzio F (2016) Chromosome numbers for the Italian flora: 2. Italian Botanist 2: 29-42. https://doi.org/10.3897/italianbotanist.2.10900
Figure 1 - Linum katiae Peruzzi, 2n = 18. Scale bar: 10 µm.
Figure 8 from: Peruzzi L, Astuti G, Bartolucci F, Conti F, Rizzotto M, Roma-Marzio F (2016) Chromosome numbers for the Italian flora: 1. Italian Botanist 1: 39-53. https://doi.org/10.3897/italianbotanist.1.8818
Figure 8 Ceratonia siliqua L., 2n = 24. Scale bar: 10 μm.
Figure 6 from: Peruzzi L, Astuti G, Bartolucci F, Conti F, Rizzotto M, Roma-Marzio F (2016) Chromosome numbers for the Italian flora: 1. Italian Botanist 1: 39-53. https://doi.org/10.3897/italianbotanist.1.8818
Figure 6 Lathyrus pannonicus (Jacq.) Garcke, 2n = 14. Scale bar: 10 μm.
Figure 5 from: Peruzzi L, Astuti G, Bartolucci F, Conti F, Rizzotto M, Roma-Marzio F (2016) Chromosome numbers for the Italian flora: 1. Italian Botanist 1: 39-53. https://doi.org/10.3897/italianbotanist.1.8818
Figure 5 Fritillaria montana Hoppe ex W.D.J.Koch, 2n = 18. Scale bar: 10 μm.
Figure 3 from: Peruzzi L, Astuti G, Bartolucci F, Conti F, Rizzotto M, Roma-Marzio F (2016) Chromosome numbers for the Italian flora: 1. Italian Botanist 1: 39-53. https://doi.org/10.3897/italianbotanist.1.8818
Figure 3 Reseda luteola L., 2n = 26. Scale bar 5 μm.
Figure 2 from: Peruzzi L, Astuti G, Bartolucci F, Conti F, Rizzotto M, Roma-Marzio F (2016) Chromosome numbers for the Italian flora: 1. Italian Botanist 1: 39-53. https://doi.org/10.3897/italianbotanist.1.8818
Figure 2 Carduus nutans L. subsp. nutans, 2n = 16. Scale bar: 5 μm.
Figure 14 from: Peruzzi L, Astuti G, Bartolucci F, Conti F, Rizzotto M, Roma-Marzio F (2016) Chromosome numbers for the Italian flora: 1. Italian Botanist 1: 39-53. https://doi.org/10.3897/italianbotanist.1.8818
Figure 14 Potentilla pedata Willd. ex Hornem., 2n = 28. Scale bar: 10 μm.
Figure 13 from: Peruzzi L, Astuti G, Bartolucci F, Conti F, Rizzotto M, Roma-Marzio F (2016) Chromosome numbers for the Italian flora: 1. Italian Botanist 1: 39-53. https://doi.org/10.3897/italianbotanist.1.8818
Figure 13 Picris hieracioides L. subsp. hieracioides, 2n = 10. Scale bar: 10 μm.
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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.