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89 results for “FRAGMENT ANALYSIS”
Analysis of RNA polymerase II clusters in fixed embryos injected with antigen-binding fragments
<p>Data and scripts for the analysis of RNA polymerase II clusters. The data set includes data obtained from fixed zebrafish embryos injected with antigen-binding fragments, CellProfiler pipelines for the initial analysis of images are provided, along with Python scripts to export data into CSV format and execute downstream analysis.</p>
Figure 6 in Species boundaries in Philaethria butterflies: an integrative taxonomic analysis based on genitalia ultrastructure, wing geometric morphometrics, DNA sequences, and amplified fragment length polymorphisms
Figure 6. Evolutionary relationships of Philaethria based on DNA sequences from specimens of Philaethria wernickei (southern population; Atlantic Rain Forest) and individuals previously described as Philaethria pygmalion (northern population; Amazon Forest), depicted by the green shading (grey in print version). Philaethria diatonica and Philaethria dido were used to root the tree. Purple (grey) circles represent individuals from the Atlantic Rain Forest and black triangles indicate samples from the Amazon Basin. A, consensus Bayesian tree based on mitochondrial (cytochrome oxidase subunit I, Co-I) and nuclear [triose-phosphate isomerase (Tpi), wingless (Wg), and tyrosine hydroxylase (TH)] DNA sequences. Posterior probabilities are shown above branches. Bootstrap node support based on maximum likelihood analysis is indicated below branches. Asterisks indicate node support lower than 70%. B, Median-joining network based on mtDNA and nuclear loci sequence data describing the relationship between haplotypes (purple indicates southern population, and black, northern population). Nucleotide substitutions are shown on the branches as small transverse bars. Circle size is proportional to haplotype frequency.
Figure 2 in Species boundaries in Philaethria butterflies: an integrative taxonomic analysis based on genitalia ultrastructure, wing geometric morphometrics, DNA sequences, and amplified fragment length polymorphisms
Figure 2. Location of linear measurements (A) and schematic representation (B, C) of Philaethria wings showing veins and landmarks adopted in this study. A, hind wing dorsal and ventral (detail) views, showing measured vectors. B, fore wing. C, hind wing. See Appendix S2 for details on morphological definitions of landmarks.
Figure 4 in Species boundaries in Philaethria butterflies: an integrative taxonomic analysis based on genitalia ultrastructure, wing geometric morphometrics, DNA sequences, and amplified fragment length polymorphisms
Figure 4. Linear variation in hind wing size and medial postdiscal bands for Philaethria wernickei and Philaethria pygmalion (left column), and in relation to latitude when samples from the two species are combined (right column). A, D, hind wing length. B, E, hind wing length/postdiscal band ratio (AB/DE). C, F, inner and medial postdiscal band ratio (EF/DF). See Fig. 2A for details on wing position of corresponding measurements. Numbers above boxes indicate the number of specimens measured in each class.
Figure 1 in Species boundaries in Philaethria butterflies: an integrative taxonomic analysis based on genitalia ultrastructure, wing geometric morphometrics, DNA sequences, and amplified fragment length polymorphisms
Figure 1. Geographical distributions of Philaethria wernickei and Philaethria pygmalion, and corresponding variation in male genitalia ultrastructure and ventral hind wing colour. A, shaded areas show distribution ranges proposed by Constantino & Salazar (2010) for P. wernickei (green) and P. pygmalion (red); green circles and red triangles represent collection localities of the material analysed in this study. B, variation in valva's cucullus, external view. C, variation in the colour pattern of hind wing surface, ventral view.
Figure 3 in Species boundaries in Philaethria butterflies: an integrative taxonomic analysis based on genitalia ultrastructure, wing geometric morphometrics, DNA sequences, and amplified fragment length polymorphisms
Figure 3. Male genitalia of Philaethria wernickei and Philaethria pygmalion. A, P. wernickei, lateral view. B, P. pygmalion, lateral view. C, schematic representation of generalized genitalia for both, in lateral view. D, F, H, J, scanning electron micrographs of P. wernickei; E, G, I, K, scanning electron micrographs of P. pygmalion. D, E, ampulla external view. F, G, ampulla internal view. H, I, ampulla ornamentation in detail. J, K, fultura inferior distal end. Scale bars = 150, 30, and 100 μm, for D–G, H–I, and J–K, respectively.
Figure 8 in Species boundaries in Philaethria butterflies: an integrative taxonomic analysis based on genitalia ultrastructure, wing geometric morphometrics, DNA sequences, and amplified fragment length polymorphisms
Figure 8. STRUCTURE-based clustering of Philaethria wernickei individuals from low (0–10°S) to high (20–25°S) latitudes (north and south populations, respectively) based on amplified fragment length polymorphism loci. Each individual is represented by a vertical line divided into segments of different colour that represent genetic clusters (K) from 1–4.
Figure 7 in Species boundaries in Philaethria butterflies: an integrative taxonomic analysis based on genitalia ultrastructure, wing geometric morphometrics, DNA sequences, and amplified fragment length polymorphisms
Figure 7. Multilocus consensus Bayesian tree based on cytochrome oxidase subunit I (Co-I), triose-phosphate isomerase (Tpi), wingless (Wg), and tyrosine hydroxylase (TH) sequences from specimens of Philaethria wernickei (Atlantic Rain Forest, purple circles) and individuals previously described as Philaethria pygmalion (Amazon Forest, black triangles) depicted by the green shading (grey in print version). Philaethria pygmalion and Philaethria dido were used to root the tree. Posterior probabilities are shown above branches and bootstrap node support based on maximum likelihood analysis is indicated below branches. Asterisks indicate node support lower than 70%.
Figure 24. Eoungulatum kudukensis, URBAC 99–42, right maxillary fragment with alveoli for P5, M1-3, A in Phylogenetic analysis, taxonomic revision, and dental ontogeny of the Cretaceous Zhelestidae (Mammalia: Eutheria)
Figure 24. Eoungulatum kudukensis, URBAC 99–42, right maxillary fragment with alveoli for P5, M1-3, A, stereophotograph and line drawing in occlusal view, and photograph and line drawing in labial view; URBAC 03–60, right P5, B, stereophotographs of occlusal, labial, and distal views; URBAC 03–185, left M1, C, stereophotographs of occlusal, labial, and distal views.
Figure 12. Parazhelestes mynbulakensis, URBAC 04–162, right maxillary fragment with M2 and alveoli for P1-P5 in Phylogenetic analysis, taxonomic revision, and dental ontogeny of the Cretaceous Zhelestidae (Mammalia: Eutheria)
Figure 12. Parazhelestes mynbulakensis, URBAC 04–162, right maxillary fragment with M2 and alveoli for P1-P5, and M1. Stereophotographs of M2, A, occlusal; B, labial; C, distal views. D, photograph and line drawing of occlusal view of maxillary fragment.
Analysis of Four-fragment Fractures of the Proximal Humerus: the Interest of 2D and 3D Imagery and Inter- and Intra-observer Reproducibility
ClinicalTrials.gov study NCT03646253. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Multiscale analysis of canopy arthropod diversity in a volcanically fragmented landscape
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Data from: A multi-scale analysis of gene flow for the New England cottontail, an imperiled habitat specialist in a fragmented landscape
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Data from: Digital fragment analysis of short tandem repeats by high-throughput amplicon sequencing
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Data from: Comparative analysis of adaptive and neutral markers of Drosophila mediopunctata populations dispersed among forest fragments
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Data from: Genetic diversity, clonality and connectivity in the scleractinian coral Pocillopora damicornis: a multi-scale analysis in an insular, fragmented reef system
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Data from: Patterns and predictors of β-diversity in the fragmented Brazilian Atlantic forest: a multiscale analysis of forest specialist and generalist birds
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Text-fig. 1. Taphonomic and pathological phenomena of cave bear bones from Late Pleistocene deposits from Vařekova chodba in Za Hájovnou Cave (Moravia, the Czech Republic); a – fragment of vertebra with bite marks; b – fragment of right humerus, proximal part with bite marks; c – thoracic vertebra with pathological rib facet; d–e – fused left astragalus with left calcaneus (d: medial view, e: dorsal view). in Basic Population And Taphonomic Analysis Of Bear Assemblages From Za Hájovnou Cave (Moravia, The Czech Republic): A Fossil Record From 1987-2007
Text-fig. 1. Taphonomic and pathological phenomena of cave bear bones from Late Pleistocene deposits from Vařekova chodba in Za Hájovnou Cave (Moravia, the Czech Republic); a – fragment of vertebra with bite marks; b – fragment of right humerus, proximal part with bite marks; c – thoracic vertebra with pathological rib facet; d–e – fused left astragalus with left calcaneus (d: medial view, e: dorsal view).
Table ¹: Comparison of analysis of variance results for skull (occlusal view) and mandible (side view) shape in Rhipidomys mastacalis from three vegetation classes in Brazil. Object asymmetry and correspondence methods were employed to assess asymmetry for skulls and mandibles, respectively. in Morphological symmetry of Rhipidomys mastacalis (Mammalia, Rodentia, Cricetidae) in fragmented habitats of the Atlantic Forest in Northeastern Brazil: a study on the influence of the environment on an endemic species
<p><b>Table ¹:</b> Comparison of analysis of variance results for skull (occlusal view) and mandible (side view) shape in <i>Rhipidomys mastacalis</i> from three vegetation classes in Brazil.Object asymmetry and correspondence methods were employed to assess asymmetry for skulls and mandibles,respectively.</p><table><tbody><tr><th><b>Shape procrustes ANOVA</b></th></tr></tbody><tbody><tr><th><b>Effect Sum of squares</b></th><td><b>Mean squares</b></td><td><b>Degrees of freedom</b></td><td><i>F statistic</i></td><td><i>p -Value</i></td><td><b>Pillai tr.</b></td><td><i>p -Value</i></td></tr><tr><th><b>Skulls</b></th></tr><tr><th><b>Forested vegetation</b></th></tr><tr><th>Individual</th><td>0.19908517</td><td>0.0004253957</td><td>468</td><td>22.36</td><td><0.0001</td><td>–</td><td>–</td></tr><tr><th>Side</th><td>0.00366522</td><td>0.0002036232</td><td>18</td><td>10.70</td><td><0.0001</td><td>–</td><td>–</td></tr><tr><th>Individual × side</th><td>0.00890443</td><td>0.0000190266</td><td>468</td><td>2.24</td><td><0.0001</td><td>–</td><td>–</td></tr><tr><th>Error 1</th><td>0.00825565</td><td>0.0000084935</td><td>972</td><td>–</td><td>–</td><td>–</td><td>–</td></tr><tr><th><b>Occupancy mosaics in forested areas</b></th></tr><tr><th>Individual</th><td>0.37829478</td><td>0.0003965354</td><td>954</td><td>18.57</td><td><0.0001</td><td>–</td><td>–</td></tr><tr><th>Side</th><td>0.00547536</td><td>0.0003041869</td><td>18</td><td>14.25</td><td><0.0001</td><td>–</td><td>–</td></tr><tr><th>Individual × side</th><td>0.02037065</td><td>0.0000213529</td><td>954</td><td>1.89</td><td><0.0001</td><td>–</td><td>–</td></tr><tr><th>Error 1</th><td>0.02201359</td><td>0.0000113239</td><td>1944</td><td>–</td><td>–</td><td>–</td><td>–</td></tr><tr><th><b>Cocoa plantations</b></th></tr><tr><th>Individual</th><td>0.0645902300</td><td>0.0001302222</td><td>496</td><td>5.18</td><td><0.0001</td><td>–</td><td>–</td></tr><tr><th>Side</th><td>0.0113531900</td><td>0.0007095741</td><td>16</td><td>28.23</td><td><0.0001</td><td>–</td><td>–</td></tr><tr><th>Individual × side</th><td>0.0124666800</td><td>0.0000251344</td><td>496</td><td>1.88</td><td><0.0001</td><td>–</td><td>–</td></tr><tr><th>Error 1</th><td>0.0136608800</td><td>0.0000133407</td><td>1024</td><td>–</td><td>–</td><td>–</td><td>–</td></tr><tr><th><b>Mandibles</b></th></tr><tr><th><b>Forested vegetation</b></th></tr><tr><th>Individual</th><td>0.70443879</td><td>0.0012579264</td><td>560</td><td>8.10</td><td><0.0001</td><td>14.16</td><td><0.0001</td></tr><tr><th>Side</th><td>0.00549957</td><td>0.0002749783</td><td>20</td><td>1.77</td><td>0.0207</td><td>0.0207</td><td>0.0069</td></tr><tr><th>Individual × side</th><td>0.08696012</td><td>0.0001552859</td><td>560</td><td>2.46</td><td><0.0001</td><td>10.75</td><td><0.0001</td></tr><tr><th>Error 1</th><td>0.07312665</td><td>0.0000387718</td><td>1160</td><td>–</td><td>–</td><td>–</td><td>–</td></tr><tr><th><b>Occupancy mosaics in forested areas</b></th></tr><tr><th>Individual</th><td>1.19843989</td><td>0.0011984399</td><td>1000</td><td>8.16</td><td><0.0001</td><td>14.70</td><td><0.0001</td></tr><tr><th>Side</th><td>0.01169771</td><td>0.0005848855</td><td>20</td><td>3.98</td><td><0.0001</td><td>0.74</td><td>0.0001</td></tr><tr><th>Individual × side</th><td>0.14685738</td><td>0.0001468574</td><td>1000</td><td>3.03</td><td><0.0001</td><td>11.21</td><td><0.0001</td></tr><tr><th>Error 1</th><td>0.09880745</td><td>0.0000484350</td><td>2040</td><td>–</td><td>–</td><td>–</td><td>–</td></tr><tr><th><b>Cocoa plantations</b></th></tr><tr><th>Individual</th><td>0.3269927600</td><td>0.0004808717</td><td>680</td><td>4.52</td><td><0.0001</td><td>14.14</td><td><0.0001</td></tr><tr><th>Side</th><td>0.0143644400</td><td>0.0007182221</td><td>20</td><td>6.75</td><td><0.0001</td><td>0.86</td><td>0.0017</td></tr><tr><th>Individual × side</th><td>0.0723474900</td><td>0.0001063934</td><td>680</td><td>2.39</td><td><0.0001</td><td>10.41</td><td>0.0017</td></tr><tr><th>Error 1</th><td>0.0622041800</td><td>0.0000444316</td><td>1400</td><td>–</td><td>–</td><td>–</td><td>–</td></tr></tbody></table>
Table ²: Comparison of the results of analysis of variance on the shape of scapulae (occlusal view) and pelvis (side view) in Rhipidomys mastacalis from three vegetation classes in Brazil. Correspondence asymmetry was the only method used for asymmetry analysis. in Morphological symmetry of Rhipidomys mastacalis (Mammalia, Rodentia, Cricetidae) in fragmented habitats of the Atlantic Forest in Northeastern Brazil: a study on the influence of the environment on an endemic species
<p><b>Table ²:</b> Comparison of the results of analysis of variance on the shape of scapulae (occlusal view) and pelvis (side view) in <i>Rhipidomys mastacalis</i> from three vegetation classes in Brazil. Correspondence asymmetry was the only method used for asymmetry analysis.</p><table><tbody><tr><th><b>Shape procrustes ANOVA</b></th></tr></tbody><tbody><tr><th><b>Effect Sum of squares</b></th><td><b>Mean squares</b></td><td><b>Degrees of freedom</b></td><td><i>F statistic</i></td><td><i>p -Value</i></td><td><b>Pillai tr.</b></td><td><i>p -Value</i></td></tr><tr><th><b>Scapulae</b></th></tr><tr><th><b>Forested vegetation</b></th></tr><tr><th>Individual</th><td>0.0941373400</td><td>0.0010459705</td><td>90</td><td>3</td><td><0.0001</td><td>–</td><td>–</td></tr><tr><th>Side</th><td>0.0100439600</td><td>0.0010043960</td><td>2.88</td><td>0.0037</td><td>0.0003</td><td>–</td><td>–</td></tr><tr><th>Individual × side</th><td>0.0314069500</td><td>0.0003489662</td><td>90</td><td>5.89</td><td><0.0001</td><td>4.91</td><td><0.0001</td></tr><tr><th>Error 1</th><td>0.0118544100</td><td>0.0000592721</td><td>200</td><td>–</td><td>–</td><td>–</td><td>–</td></tr><tr><th><b>Occupancy mosaics in forested areas</b></th></tr><tr><th>Individual</th><td>0.2064168200</td><td>0.0010320841</td><td>200</td><td>4.82</td><td><0.0001</td><td>7.15</td><td><0.0001</td></tr><tr><th>Side</th><td>0.0262808000</td><td>0.0026280796</td><td>10</td><td>12.28</td><td><0.0001</td><td>0.86</td><td>0.0022</td></tr><tr><th>Individual × side</th><td>0.0428160400</td><td>0.0002140802</td><td>200</td><td>2.68</td><td><0.0001</td><td>4.98</td><td><0.0001</td></tr><tr><th>Error 1</th><td>0.0335675700</td><td>0.0000799228</td><td>420</td><td>–</td><td>–</td><td>–</td><td>–</td></tr><tr><th><b>Cocoa plantations</b></th></tr><tr><th>Individual</th><td>0.2508635400</td><td>0.0009291242</td><td>270</td><td>4.07</td><td><0.0001</td><td>7.11</td><td><0.0001</td></tr><tr><th>Side</th><td>0.0256608100</td><td>0.0025660812</td><td>10</td><td>11.24</td><td><0.0001</td><td>0.87</td><td><0.0001</td></tr><tr><th>Individual × side</th><td>0.0616394000</td><td>0.0002282941</td><td>270</td><td>3.10</td><td><0.0001</td><td>5.72</td><td><0.0001</td></tr><tr><th>Error 1</th><td>0.0412323300</td><td>0.0000736292</td><td>560</td><td>–</td><td>–</td><td>–</td><td>–</td></tr><tr><th><b>Pelvis</b></th></tr><tr><th><b>Forested vegetation</b></th></tr><tr><th>Individual</th><td>0.0543411200</td><td>0.0004312787</td><td>126</td><td>4.63</td><td><0.0001</td><td></td><td></td></tr><tr><th>Side</th><td>0.0043155600</td><td>0.0003082544</td><td>14</td><td>3.31</td><td>0.0002</td><td></td><td></td></tr><tr><th>Individual × side</th><td>0.0117297800</td><td>0.0000930935</td><td>126</td><td>2.31</td><td><0.0001</td><td>6.07</td><td><0.0001</td></tr><tr><th>Error 1</th><td>0.0112943700</td><td>0.000040337</td><td>280</td><td>–</td><td>–</td><td>–</td><td>–</td></tr><tr><th><b>Occupancy mosaics in forested areas</b></th></tr><tr><th>Individual</th><td>0.1059661700</td><td>0.0003440460</td><td>308</td><td>4.42</td><td><0.0001</td><td>9.69</td><td><0.0001</td></tr><tr><th>Side</th><td>0.0049395300</td><td>0.0003528236</td><td>14</td><td>4.53</td><td><0.0001</td><td>0.85</td><td>0.0311</td></tr><tr><th>Individual × side</th><td>0.0239852500</td><td>0.0000778742</td><td>308</td><td>2.00</td><td><0.0001</td><td>6.64</td><td><0.0001</td></tr><tr><th>Error 1</th><td>0.0251368400</td><td>0.0000390324</td><td>644</td><td>–</td><td>–</td><td>–</td><td>–</td></tr><tr><th><b>Cocoa plantations</b></th></tr><tr><th>Individual</th><td>0.1292837500</td><td>0.0003420205</td><td>378</td><td>5.68</td><td><0.0001</td><td>10.51</td><td><0.0001</td></tr><tr><th>Side</th><td>0.0043550500</td><td>0.0003110747</td><td>14</td><td>5.17</td><td><0.0001</td><td>0.84</td><td>0.0016</td></tr><tr><th>Individual × side</th><td>0.0227608400</td><td>0.0000602139</td><td>378</td><td>2.24</td><td><0.0001</td><td>6.17</td><td><0.0001</td></tr><tr><th>Error 1</th><td>0.0210413800</td><td>0.0000268385</td><td>714</td><td>–</td><td>–</td><td>–</td><td>–</td></tr></tbody></table>
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.