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7,378 results for “case”
Data from: geo-genomic predictors of genetree heterogeneity explain phylogeographic and introgression history: a case study in an Amazonian bird (Thamnophilus aethiops)
<p>Can knowledge about genome architecture inform biogeographic and phylogenetic inference? Selection, drift, recombination, and gene flow interact to produce a genomic landscape of divergence wherein patterns of differentiation and genealogy vary nonrandomly across the genomes of diverging populations. For instance, genealogical patterns that arise due to gene flow should be more likely to occur on smaller chromosomes, which experience high recombination, whereas those tracking histories of geographic isolation (reduced gene flow caused by a barrier) and divergence should be more likely to occur on larger and sex chromosomes. In Amazonia, populations of many bird species diverge and introgress across rivers, resulting in reticulated genomic signals. Herein, we used reduced representation genomic data to disentangle the biogeographic history of four populations of an Amazonian antbird, Thamnophilus aethiops, whose biogeographic history was associated with the dynamic evolution of the Madeira River Basin. Specifically, we evaluate whether a large river capture event ca. 200 kya, gave rise to reticulated genealogies in the genome by making spatially explicit predictions about isolation and gene flow based on knowledge about genomic processes. We first estimated chromosome-level phylogenies and recovered two primary topologies across the genome. The first topology (T1) was most consistent with predictions about population divergence, and was recovered for the Z chromosome. The second (T2), was consistent with predictions about gene flow upon secondary contact. To evaluate support for these topologies, we trained a convolutional neural network to classify our data into alternative diversification models and estimate demographic parameters. The best-fit model was concordant with T1 and included gene flow between non-sister taxa. Finally, we modeled levels of divergence and introgression as functions of chromosome length, and found that smaller chromosomes experienced higher gene flow. Given that (1) gene-trees supporting T2 were more likely to occur on smaller chromosomes and (2) we found lower levels of introgression on larger chromosomes (and especially the Z-chromosome), we argue that T1 represents the history of population divergence across rivers and T2 the history of secondary contact due to barrier loss. Our results suggest that a significant portion of genomic heterogeneity arises due to extrinsic biogeographic processes such as river capture interacting with intrinsic processes associated with genome architecture. Future biogeographic studies would benefit from accounting for genomic processes, as different parts of the genome reveal contrasting, albeit complementary histories, all of which are relevant for disentangling the intricate biogeographic mechanisms of biotic diversification.</p>
Input data and scenarios outputs of the Water Resources Research paper "Optimal economic spatial and temporal allocation of green and grey investment to address water security threats : Case Study - Velhas River Basin, Brazil"
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Case Study Scenarios (CSS) 9 for Filament
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Can participation in a hackathon impact the motivation of software engineering students? A preliminary case study analysis
<p>This public dataset covers the answers to both pre-hackathon and post-hackathon surveys. Additionally, we offer basic descriptive and inferential statistics related to the provided data.</p>
Case Study Scenarios (CSS) 7 for Southern Hemisphere Winter
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Case Study Scenarios (CSS) 4 for Volcanic Eruption
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Case Study Scenarios (CSS) 10 for the Asian Summer Monsoon
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FIGURES 7–8 in Notes on some Tanzanian butterfly specimens in the Suffert Collection: a case of patria falsa
FIGURES 7–8: handwritten labels in Brabant's hand: 7. holotype male of Charaxes pembanus usambarae. 8. male specimens of Junonia westermanni splendens.
Case Study Scenarios (CSS) 5 for Stratospheric Sudden Warming
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Case Study Scenarios (CSS) 3 for Biomass Burning for Limb Nadir application
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Case Study Scenarios (CSS) 1 for OSSE of tropopause fold
<p>These are the simulated CAIRT ozone profiles for the period 15/Nov/2021-1/Feb/2022 using, in the following order:</p><ul><li>CAMS hlqd control run simulation as reference ozone field</li><li>sim_CAIRT_grid.py to generate CAIRT retrieval grid (i.e. the geolocation of the CAIRT profiles)</li><li>BASCOE_MAO to interpolate CAMS hlqd 3-hourly output at CAIRT geolocation</li><li>FL2S to perturb CAMS@CAIRT ozone according to CAIRT expected performences (using the AK, the systematic and the random error) and add error bar to the ozone profiles.</li></ul><p>These are the ozone profiles assimilated by BASCOE for the Observing System Simulation Experiment (OSSE) discussed in CAIRT Report for Assessment (RfA).</p>
Fig. 6 in Taxonomic Use of Genitalic Characters in Mexican Copris (Coleoptera: Scarabaeidae, Scarabaeinae): The Case of Copris klugi sierrensis Matthews and the C. armatus Species Complex
Fig. 6. Copris sierrensis. Raspula. Note the size of the spines that form the subunits of the raspula.
Fig. 1. Male genitalia, Copris klugi Harold. a in Taxonomic Use of Genitalic Characters in Mexican Copris (Coleoptera: Scarabaeidae, Scarabaeinae): The Case of Copris klugi sierrensis Matthews and the C. armatus Species Complex
Fig. 1. Male genitalia, Copris klugi Harold. a) aedeagus; b) parameres; c) raspula; d) parietal accessory lamella; e) conical accessory lamellae. Scale line: 1: 150 mm.
Fig. 8. Female genitalia, Copris sierrensis. a in Taxonomic Use of Genitalic Characters in Mexican Copris (Coleoptera: Scarabaeidae, Scarabaeinae): The Case of Copris klugi sierrensis Matthews and the C. armatus Species Complex
Fig. 8. Female genitalia, Copris sierrensis. a) vagina; b) spermatheca; c) spermathecal duct. 12.8X.
Fig. 2. Male genitalia, Copris sierrensis Matthews. a in Taxonomic Use of Genitalic Characters in Mexican Copris (Coleoptera: Scarabaeidae, Scarabaeinae): The Case of Copris klugi sierrensis Matthews and the C. armatus Species Complex
Fig. 2. Male genitalia, Copris sierrensis Matthews. a) aedeagus; b) parameres; c) raspula; d) parietal accessory lamella; e) conical accessory lamellae. Scale line: 1: 150 mm.
FIGURE 2 in A lost species or the loss of stripes? The case of Contomastix lizards from Cabo Polonio, Uruguay, with observations on C. lacertoides (Duméril & Bibron) and Cnemidophorus grandensis Cope (Squamata, Teiidae)
FIGURE 2. Uruguayan specimens of Contomastix lacertoides. On top, unvouchered adult male photographed while basking at La Palma, Rivera (orange color corresponds to parasitic mites); inset: detail of sexual color dimorphism in a male from Quebrada de los Cuervos, Treinta y Tres (MNHN 9460). Bottom, adult female from Quebrada de los Cuervos, (MNHN 9461, total length 196 mm).
FIGURE 8 in A lost species or the loss of stripes? The case of Contomastix lizards from Cabo Polonio, Uruguay, with observations on C. lacertoides (Duméril & Bibron) and Cnemidophorus grandensis Cope (Squamata, Teiidae)
FIGURE 8. On top, hyoid apparatus of Contomastix charrua ZVC-R 1266, paratype. Bottom, hyoid apparatus of topotypic C. lacertoides ZVC-R 1856. A and C are schematic representations as depicted by Cabrera and Carreira (2009); B and D are the corresponding hyoid preparations of Cabrera and Carreira (2009), photographed under a stereoscopic microscope (photos by CB). Notice in B the apparently fairly degraded right spicula of the second pair of ceratobranchials (arrow). Scale bars equals 5 mm.
FIGURE 1 in A lost species or the loss of stripes? The case of Contomastix lizards from Cabo Polonio, Uruguay, with observations on C. lacertoides (Duméril & Bibron) and Cnemidophorus grandensis Cope (Squamata, Teiidae)
FIGURE 1. Geographic distribution of Contomastix species from Argentina, Brazil and Uruguay, according to present study and published reports (Koslowsky 1898; Gudynas 1985; Cei & Martori 1991; Cei & Scrocchi 1991; Cei 1993; Federico 2000; Feltrim & Lema 2000; Pérez & Grassini 2001; Vrcibradic et al. 2004; Arias & Lobo 2005; Stahnke et al. 2006; Rholing et al. 2009; Caruccio et al. 2010; Cabrera et al. 2012). Closed circles, C. lacertoides (white circle, type locality Montevideo); open circle, C. charrua (type locality, Cabo Polonio); squares, C. leachei (white square, type locality, San Lorenzo); triangles, C. serrana (white triangle, type locality, Icho Cruz); pentagons, C. vacariensis (white pentagon, type locality, Vacaria). Abbreviations: BA, Buenos Aires Province; CB, Córdoba Province; ER, Entre Ríos Province; JU, Jujuy Province; RS, Rio Grande do Sul state; SA, Salta Province; SC, Santa Catarina state; SE, Santiago del Estero Province.
FIGURE 7 in A lost species or the loss of stripes? The case of Contomastix lizards from Cabo Polonio, Uruguay, with observations on C. lacertoides (Duméril & Bibron) and Cnemidophorus grandensis Cope (Squamata, Teiidae)
FIGURE 7. Left, ventral view of the head of a cleared and stained specimen of Contomastix lacertoides, MNHN 9462 (scale bar equals 5 mm). Right, X-ray image of the head of the holotype of Cnemidophorus grandensis ANSP 9593 in ventral view. Abbreviations: BH, basihyoid; CBI, first pair of ceratobranchials; CBII, second pair of ceratobranchials; EB, entoglossal bone; EH, epihyal; MA, mandible; PL, processus lingualis; TO, tongue; TR, trachea.
FIGURE 4 in A lost species or the loss of stripes? The case of Contomastix lizards from Cabo Polonio, Uruguay, with observations on C. lacertoides (Duméril & Bibron) and Cnemidophorus grandensis Cope (Squamata, Teiidae)
FIGURE 4. Ventral view of the head of adult Contomastix lizards (fixed specimens otherwise indicated). On top, C. lacertoides: A MCP 14453, B MCP 17758 (São Jerônimo, Rio Grande do Sul, Brazil); C MNHN 3189, D MNHN 3187 (Tambores, Tacuarembó). Middle, C. lacertoides from southeastern Uruguay: E MNHN 3185, F MNHN 5770 (Sierra de las Ánimas, Maldonado); G MNHN 9463 (in life), H MNHN 9464 (in life), (Quebrada de los Cuervos, Treinta y Tres). Bottom, C. lacertoides from southeastern Uruguay: I MNHN 3192 (Km 128, National Route #8, Lavalleja); C. charrua, J MNHN 3422 (paratype), K MNHN 3423, holotype (Cabo Polonio, Rocha); Cnemidophorus grandensis, L ANSP 9593, holotype (Rio Grande do Sul, Brazil).
ScienceDex guides
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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.