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133 results for “backbone”
Figure 7 from: Yang J, Liu JK, Hyde KD, Jones EBG, Liu ZY (2018) New species in Dictyosporium, new combinations in Dictyocheirospora and an updated backbone tree for Dictyosporiaceae. MycoKeys 36: 83-105. https://doi.org/10.3897/mycokeys.36.27051
Figure 7 Dictyosporium sp. (MFLU 15-1164). a Colonies on submerged wood b Squash mount of a sporodochium; c Germinated conidium b–e, h, i Conidia f Germinated conidium g Conidia with conidiophores j, k Culture, j from above, k from reverse. Scale bars: a = 200 μm, b, f–i = 30 μm, c = 50 μm d, e = 20 μm.
Figure 5 from: Yang J, Liu JK, Hyde KD, Jones EBG, Liu ZY (2018) New species in Dictyosporium, new combinations in Dictyocheirospora and an updated backbone tree for Dictyosporiaceae. MycoKeys 36: 83-105. https://doi.org/10.3897/mycokeys.36.27051
Figure 5 Dictyosporium tubulatum (MFLU 15-1166, holotype). a, b Colonies on woody substrate c Squash mount of a sporodochium d–g Conidia h–i Conidia with conidiophores j–l Conidia with appendages m lateral view of a conidium n Germinated conidium o, p Culture, o from above p from reverse. Scale bars: a = 1000 μm, b = 200 μm, c, n = 30 μm, d, e = 10 μm, f–m = 15 μm.
Figure 1 from: Yang J, Liu JK, Hyde KD, Jones EBG, Liu ZY (2018) New species in Dictyosporium, new combinations in Dictyocheirospora and an updated backbone tree for Dictyosporiaceae. MycoKeys 36: 83-105. https://doi.org/10.3897/mycokeys.36.27051
Figure 1 Maximum likelihood majority rule consensus tree for the analysed Dothideomycetes isolates based on a dataset of combined ITS, LSU and TEF1α sequence data. Bootstrap support values for maximum likelihood (ML) and maximum parsimony (MP) greater than 75% and Bayesian posterior probabilities greater than 0.95 are indicated above the nodes as MLBS/MPBS/PP. The scale bar represents the expected number of changes per site. The tree is rooted with Periconia igniaria (CBS 379.86, CBS 845.96). The strain numbers are noted after the species names with ex-type strains indicated with T. The new collections are in bold with new taxa in red. Branches with 100% ML BS, 100% MP BS and 1.0 PP are shown as black nodes. Genera are indicated as coloured blocks.
Zigzagging Backbones
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Table 3 in Plastid phylogenomics of the Eriostemon group (Rutaceae; Zanthoxyloideae): support for major clades and investigation of a backbone polytomy
<p>Table 3. Alignment Information.</p><table><tbody><tr><th>Item</th><th>Number of variable sites</th><th>Number of parsimony-informative sites</th><th>Number of constant sites</th><th>Total length (bp)</th></tr></tbody><tbody><tr><th>Phylogenomic alignment</th><td>30 038</td><td>16 845</td><td>76 847</td><td>106 885</td></tr><tr><th>Supermatrix alignment</th><td>30 057</td><td>16 895</td><td>76 657</td><td>106 714</td></tr></tbody></table>
Table 2 in Plastid phylogenomics of the Eriostemon group (Rutaceae; Zanthoxyloideae): support for major clades and investigation of a backbone polytomy
<p>Table 2. Taxonomic coverage of sampling from the <i>Eriostemon</i> group.</p><table><tbody><tr><th>Genus</th><th>Section</th><th>Number of species sampled (full plastome data)</th><th>Number of species sampled (Sanger data)</th><th>Total number of species</th></tr></tbody><tbody><tr><th><i>Asterolasia</i></th><td></td><td>2</td><td></td><td>19</td></tr><tr><th><i>Chorilaena</i></th><td></td><td>3</td><td></td><td>4</td></tr><tr><th><i>Correa</i></th><td></td><td>3</td><td></td><td>11</td></tr><tr><th><i>Crowea</i></th><td></td><td>3</td><td></td><td>3</td></tr><tr><th><i>Diplolaena</i></th><td></td><td>2</td><td></td><td>15</td></tr><tr><th><i>Drummondita</i></th><td></td><td>3</td><td>(1)</td><td>11</td></tr><tr><th><i>Eriostemon</i></th><td></td><td>2</td><td></td><td>2</td></tr><tr><th><i>Geleznowia</i></th><td></td><td>1</td><td>(1)</td><td>2</td></tr><tr><th><i>Halfordia</i></th><td></td><td>1</td><td></td><td>1–3</td></tr><tr><th><i>Leionema</i></th><td></td><td>4</td><td></td><td>28</td></tr><tr><th><i>Muiriantha</i></th><td></td><td>1</td><td></td><td>1</td></tr><tr><th><i>Myrtopsis</i></th><td></td><td>1</td><td></td><td>~9</td></tr><tr><th><i>Nematolepis</i></th><td></td><td>3</td><td></td><td>7</td></tr><tr><th><i>Neoschmidia</i></th><td></td><td>1</td><td></td><td>2</td></tr><tr><th><i>Phebalium</i></th><td></td><td>7</td><td></td><td>38</td></tr><tr><th><i>Philotheca</i></th><td><i>Corynonema</i></td><td>3</td><td></td><td>3</td></tr><tr><th></th><td><i>Cyanochlamys</i></td><td>2</td><td></td><td>2</td></tr><tr><th></th><td><i>Erionema</i></td><td>2</td><td>2</td><td>15</td></tr><tr><th></th><td><i>Philotheca</i></td><td>4</td><td>20 (2)</td><td>34</td></tr><tr><th>Total</th><td></td><td>48</td><td>22 (4)</td><td>~206–209</td></tr></tbody></table><p>Numbers in parentheses indicate where the same species was sampled in both the full plastome and Sanger datasets. Total number of species includes described taxa only (i.e. phrase-named species are excluded).</p>
Fig. 4 in Plastid phylogenomics of the Eriostemon group (Rutaceae; Zanthoxyloideae): support for major clades and investigation of a backbone polytomy
Fig. 4. (Caption on next page)
Fig. 3 in Plastid phylogenomics of the Eriostemon group (Rutaceae; Zanthoxyloideae): support for major clades and investigation of a backbone polytomy
Fig. 3. (Caption on next page)
Transcriptomics illuminate the phylogenetic backbone of tiger beetles
<p>Phylogenomics is progressing rapidly, allowing large strides forward into our understanding of the tree of life. In</p> <p>this study, we generated transcriptomes from ethanol-preserved specimens of 13 tiger beetle species (Coleoptera:</p> <p>Cicindelinae) and one Scaritinae outgroup. From these 14 transcriptomes and seven publicly available transcriptomes,</p> <p>we recovered an average of 2538 loci for phylogenetic analysis. We constructed an evolutionary tree of tiger beetles</p> <p>to examine deep-level relationships and examined the extent to which the composition of the dataset, missing data,</p> <p>gene tree inconsistency and codon position saturation impacted phylogenetic accuracy. Ethanol-preserved specimens</p> <p>yielded similar numbers of loci to specimens originally preserved in costly reagents, showcasing more flexibility in</p> <p>transcriptomics than anticipated. The number of loci and gene tree inconsistency had less impact on downstream</p> <p>results than third codon position saturation and missing data. Our results recovered tiger beetles as sister to</p> <p>Carabidae with strong support, confirming their taxonomic status as an independent family within Adephaga. Within</p> <p>tiger beetles, phylogenetic relationships were robust across all nodes. This new phylogenomic backbone represents a</p> <p>useful framework for future endeavours in tiger beetle systematics and serves as a starting point for the development</p> <p>of less costly target capture toolkits to expand the taxonomic breadth of the future tiger beetle tree of life.</p>
A Pilot,Raltegravir Versus NRTIs as a Backbone Switched From a Stable Boosted PI Regimen
ClinicalTrials.gov study NCT00749580. IPD Sharing: Not stated. Countries: 1. Publications: 0.
A Phase II Study With a Safety Run-In of the Addition of N-803 to a Chemoimmunotherapy Backbone for the Treatment of Patients With Relapsed or Refractory Neuroblastoma
ClinicalTrials.gov study NCT07085338. IPD Sharing: YES. Countries: 1. Publications: 0.
Data from: Knowledge-based prediction of protein backbone conformation using a structural alphabet
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Data from: Selecting question-specific genes to reduce incongruence in phylogenomics: a case study of jawed vertebrate backbone phylogeny
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Conflicting signal in transcriptomic markers leads to a poorly resolved backbone phylogeny of Chalcidoid wasps
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Data from: Phylogenomics resolves a spider backbone phylogeny and rejects a prevailing paradigm for orb web evolution
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Transcriptomics illuminate the phylogenetic backbone of tiger beetles
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Stereopure phosphoryl guanidine backbone chemistry increases the potency and durability of gene silencing by RNA interference
GEO Series GSE220502. Mus musculus. 21 samples. Type: Expression profiling by high throughput sequencing.
Sub-genomewide shRNAs constructed using an optimized selection algorithm and microRNA backbone provide stronger evidence for follow-up studies
GEO Series GSE62185. synthetic construct. 24 samples. Type: Other.
Data from: A phylogenetic backbone for Bivalvia: an RNA-seq approach
Bivalves are an ancient and ubiquitous group of aquatic invertebrates with an estimated 10 000–20 000 living species. They are economically significant as a human food source, and ecologically important given their biomass and effects on communities. Their phylogenetic relationships have been studied for decades, and their unparalleled fossil record extends from the Cambrian to the Recent. Nevertheless, a robustly supported phylogeny of the deepest nodes, needed to fully exploit the bivalves as a model for testing macroevolutionary theories, is lacking. Here, we present the first phylogenomic approach for this important group of molluscs, including novel transcriptomic data for 31 bivalves obtained through an RNA-seq approach, and analyse these data with published genomes and transcriptomes of other bivalves plus outgroups. Our results provide a well-resolved, robust phylogenetic backbone for Bivalvia with all major lineages delineated, addressing long-standing questions about the monophyly of Protobranchia and Heterodonta, and resolving the position of particular groups such as Palaeoheterodonta, Archiheterodonta and Anomalodesmata. This now fully resolved backbone demonstrates that genomic approaches using hundreds of genes are feasible for resolving phylogenetic questions in bivalves and other animals.
Modelling to Generate Alterantives at Ruhr-University Bochum Backbone dataset
<p>Datasets for the Backbone energy model of the Ruhr-University Bochum:</p> <ul> <li>2019 data for validation, demand time series are not published</li> <li>2030 and 2045 data used for Modelling to generate alternatives, demand time series are aggregated</li> </ul> <p>Backbone version 1.4. was used.</p>
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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)
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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.