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21 results for “Shortcomings”
MiRoR2 - P1 - Shortcomings in the evaluation of biomarkers in ovarian cancer: a systematic review
<p>Data set for the study “Shortcomings in the evaluation of biomarkers in ovarian cancer: a systematic review”, including search strategy, extraction form, extracted data with summary of results, and protocol</p>
Fig. 5 in Disentangling Leucocytozoon parasite diversity in the neotropics: Descriptions of two new species and shortcomings of molecular diagnostics for leucocytozoids
Fig. 5. (A) A Bayesian phylogenetic hypothesis of Leucocytozoon species constructed only with partial mitochondrial genomes (5485 bp excluding gaps) and (B) partial cytb gene sequences of leucocytozoids. Branch colors indicate the parasite morphology, with green branches representing parasites in fusiform host cells, and blue branches correspond to a species that develops in roundish host cells. Notice that, since parasite mitochondrial genomes (mtDNA) corresponding to the partial cytb fragments of the MH909275 and MH909276 sequences could not be amplified, they were not included in the phylogenetic hypothesis constructed with mtDNA (Fig. 5A). (For interpretation of the references to color in this figure legend, the reader is referred to the Web version of this article.)
Fig. 2 in Disentangling Leucocytozoon parasite diversity in the neotropics: Descriptions of two new species and shortcomings of molecular diagnostics for leucocytozoids
Fig. 2. Leucocytozoon neotropicalis sp. nov. from the peripheral blood of its type vertebrate host Greenand-black Fruiteater (Pipreola riefferii) captured at Los Nevados NNP, Colombia. Macrogametocytes (A–E) and microgametocytes (F–I). Black arrows () indicate the deformed host cell nuclei. Parasite nuclei are indicated by white arrow () and nucleoli are shown by double white arrowtips (). Volutin granules are indicated by double black arrowtips () and vacuoles – by white arrowtips (). Uneven cytoplasmic processes may acquire a ribbon-like appearance (asterisk *). Giemsa-stained thin blood films. Scale bar = 10 μm. (For interpretation of the references to color in this figure legend, the reader is referred to the Web version of this article.)
The potential and shortcomings of mitochondrial DNA analysis for cheetah conservation management
<p>There are only about 7,100 adolescent and adult cheetahs (<em>Acinonyx</em> <em>jubatus</em>) remaining in the wild. With the majority occurring outside protected areas, their numbers are rapidly declining. Evidence-based conservation measures are essential for the survival of this species. Genetic data is routinely used to inform conservation strategies, e.g., by establishing conservation units (CU). A commonly used marker in conservation genetics is mitochondrial DNA (mtDNA). Here, we investigated the cheetah's phylogeography using a large-scale mtDNA data set to refine subspecies distributions and better assign individuals to CUs. Our dataset mostly consisted of historic samples to cover the cheetah's whole range as the species has been extinct in most of its former distribution. While our genetic data largely agree with geography-based subspecies assignments, several geographic regions show conflicting mtDNA signals. Our analyses support previous findings that evolutionary forces such as incomplete lineage sorting or mitochondrial capture likely confound the mitochondrial phylogeography of this species, especially in East and, to some extent, in Northeast Africa. We caution that subspecies assignments solely based on mtDNA should be treated carefully and argue for an additional standardized nuclear single nucleotide polymorphism (SNP) marker set for subspecies identification and monitoring. However, the detection of the <em>A</em>. <em>j</em>. <em>soemmeringii</em> specific haplogroup by a newly designed Amplification-Refractory Mutation System (ARMS) can already provide support for conservation measures.</p>
Crowdsourced data reveal shortcomings in precipitation phase products for rain and snow partitioning
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The potential and shortcomings of mitochondrial DNA analysis for cheetah conservation management
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Fig. 7 in Phylogenomics of Ichneumoninae (Hymenoptera, Ichneumonidae) reveals pervasive morphological convergence and the shortcomings of previous classifications
Fig. 7. Simplified phylogeny of the seven tribes of Ichneumoninae according to the new classification proposed in this study. The genera Pseudalomya and Groenlabus Jussila are treated as incertae sedis within Ichneumoninae.
Fig. 6 in Phylogenomics of Ichneumoninae (Hymenoptera, Ichneumonidae) reveals pervasive morphological convergence and the shortcomings of previous classifications
Fig. 6. Ancestral state reconstruction for oxypygous (blue) vs. amblypygous (red; including also 'semi-amblypygous') metasoma based on stochastic character mapping. The diagram corresponds to a density tree with the consensus of 10 000 simulated histories, with each iteration based on the relative probabilities for each state at each node, as estimated from a likelihood-based algorithm. [Colour figure can be viewed at wileyonlinelibrary.com].
Fig. 5 in Phylogenomics of Ichneumoninae (Hymenoptera, Ichneumonidae) reveals pervasive morphological convergence and the shortcomings of previous classifications
Fig. 5. Phylogeny of Ichneumonini as recovered with the matrix with 50% completeness partitioned by PartitionFinder. Numbers correspond to bootstrap support; nodes with no numbers indicate 100% clade support. [Colour figure can be viewed at wileyonlinelibrary.com].
Fig. 8 in Phylogenomics of Ichneumoninae (Hymenoptera, Ichneumonidae) reveals pervasive morphological convergence and the shortcomings of previous classifications
Fig. 8. Morphological diversity in mandible width and orientation, clypeus outline and malar space length. These character systems were historically used to define supra-generic groups, but our results indicate that these trait were subject to multiple events of convertent evolution. (A) Alomya semiflava; (B) Platylabus berndi; (C) Ichneumon heterocampae; (D) Phaeogenes ophthalmicus; (E) Compsophorus seyrigi; (F) Charitojoppa crassipina; (G) Ischnojoppa seyrigi; (H) Neotypus nobilator; (I) Trogomorpha trogiformis; (J) Goedartia alboguttata; (K) Pseudomaraces birmanica; (L) Ceratojoppa cornuta; (M) Oedicephalus striatus; (N) Joppa linearis; (O) Tetragonochora sp. [Colour figure can be viewed at wileyonlinelibrary.com].
Fig. 4 in Phylogenomics of Ichneumoninae (Hymenoptera, Ichneumonidae) reveals pervasive morphological convergence and the shortcomings of previous classifications
Fig. 4. Phylogeny of Ichneumoninae as recovered with the matrix with 50% completeness partitioned by PartitionFinder. Numbers correspond to bootstrap support; nodes with no numbers indicate 100% clade support. [Colour figure can be viewed at wileyonlinelibrary.com].
Fig. 2 in Phylogenomics of Ichneumoninae (Hymenoptera, Ichneumonidae) reveals pervasive morphological convergence and the shortcomings of previous classifications
Fig. 2. Metasomal apex in Ichneumoninae, shown in lateral (A–C) and ventrolateral (D–F) views. A, D, Aoplus confirmatus, an oxypygous species. B, E, Eutanyacra suturalis, an amblypygous species. (C, F) Thyrateles lugubrator, a 'semi-amblypygous' species. [Colour figure can be viewed at wileyonlinelibrary.com].
Fig. 1 in Phylogenomics of Ichneumoninae (Hymenoptera, Ichneumonidae) reveals pervasive morphological convergence and the shortcomings of previous classifications
Fig. 1. Morphological diversity in Ichneumoninae. (A–C) Live habitus of representative species; photos by Steve Marshall (University of Guelph), used with permission. (A) Centeterus sp. in Canada; (B) Ichneumon promissorius in Australia; (C) Aucklandella sp. in New Zealand. (D–F) habitus images. (D) Alomya debellator; (E) Notosemus bohemani; (F) Abzaria latipetiolaris; (G) Probolus concinnus; (H) Eutanyacra sp.; (I) Joppa sp.; (J) Lophojoppa sp.; (K) Platylabops fraterculus; (L) Trogomorpha trogiformis. [Colour figure can be viewed at wileyonlinelibrary.com].
Scientific shortcomings in environmental impact statements internationally
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On the Importance and Shortcomings of Code Readability Metrics: A Case Study on Reactive Programming - replication package
<p>This is the replication package for the conference paper submission "On the Importance and Shortcomings of Code Readability Metrics: A Case Study on Reactive Programming"</p> <p><strong>Contents:</strong></p> <ul> <li>measurements.zip <ul> <li>DATASET_ORIGINAL.csv</li> <li>DATASET_REACTIVE.csv</li> </ul> </li> <li>source_code.zip <ul> <li> source_code_orig <ul> <li>Client.java</li> <li>Connection.java</li> <li>Server.java</li> <li>TcpConnection.java</li> <li>UdpConnection.java</li> </ul> </li> <li> source_code_rx <ul> <li>Client.java</li> <li>Connection.java</li> <li>Server.java</li> <li>TcpConnection.java</li> <li>UdpConnection.java</li> </ul> </li> </ul> </li> </ul> <p> </p>
Shortcomings of Event-Based Metrics [Supplement to PhD "Machine-Actionable Assessment of Research Data Products"]
<p>This deposition includes a tabular overview of all publications analyzed by my PhD to identify and classify shortcomings of event-based metrics for research data products. The tabular overview is linked via its field "Key" to the bibtex file which holds the bibliographic information to replicate the results shown in the table.</p> <p>The deposition is supplementary material to the dissertation "Machine-Actionable Assessment of Research Data Products" (Tobias Weber, yet unpublished), especially chapter 3.</p>
Fig. 4 in Disentangling Leucocytozoon parasite diversity in the neotropics: Descriptions of two new species and shortcomings of molecular diagnostics for leucocytozoids
Fig. 4. Primer affinity analyses of the primers suggested by Hellgren et al. (2004). Parasites with gametocytes developing roundish host cells are: (a) L. fringillinarum, and (b) L. dubreuili; and parasites with fusiform host cell are (c) L. pterotenuis (in part), (d) L. neotropicalis sp. nov, and (e) L. grallariae sp. nov. An asterisk over the base pair highlights mismatches between the sequences and the primers. Note that primers HaemNR3 and HaemR2L are presented in 3′-5′ sense to fit the parasite sequences.
Fig. 1 in Disentangling Leucocytozoon parasite diversity in the neotropics: Descriptions of two new species and shortcomings of molecular diagnostics for leucocytozoids
Fig. 1. Leucocytozoon grallariae sp. nov. from Undulated Antpitta (Grallaria squamigera) captured at Palacio forest in the Chingaza National Natural Park (NNP), Colombia. Immature gametocytes (A–C), macrogametocytes (D–F) and microgametocytes (G–I) in fusiform host cells. Nucleus of host cells (black arrows) possessing mature gametocytes assumes a slender waning moon shape (D–I). Parasite nuclei are indicated by white arrows () and parasite nucleolus – by double white arrow tips (). Host cell cytoplasm is distorted by developing parasites forming a thin rim that develops into the cytoplasmic processes (asterisk *). In mature gametocytes, vacuoles are indicated by white arrow tips (). Volutin granules are indicated by double black arrow tips () and azurophilic granule by black arrow tips (). Giemsa-stained thin blood films. Scale bar = 10 μm.
Fig. 3 in Disentangling Leucocytozoon parasite diversity in the neotropics: Descriptions of two new species and shortcomings of molecular diagnostics for leucocytozoids
Fig. 3. Gametocytes developing roundish host cells observed in type material of Leucocytozoon grallariae (A–C) and Leucocytozoon neotropicalis (D–F). Host cell nucleus (black arrows) deformed as a cap resembles the parasites of the Leucocytozoon fringillinarum group. The white arrow indicates the parasite nuclei (), double white arrow tips shows the nucleolus (). Vacuoles (white arrow tips) are present, while volutin granules (double black arrow tips ) are few or absent in some gametocytes. Giemsastained thin blood films. Although gametocytes in roundish host cells were observed in both samples, those co-existing with Leucocytozoon grallariae (A–C), are significative smaller than Leucocytozoon sp. gametocytes found in type host of L. neotropicalis (D–F) (see Table S3). Scale bar = 10 μm.
Fig. 9 in Phylogenomics of Ichneumoninae (Hymenoptera, Ichneumonidae) reveals pervasive morphological convergence and the shortcomings of previous classifications
Fig. 9. Abzaria latipetiolaris. (A) lateral habitus; (B) Head and pronotum in laterofrontal view; (C) propodeum and petiole in dorsolateral view. [Colour figure can be viewed at wileyonlinelibrary.com].
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Allen Brain Atlas
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International Brain Laboratory public data
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OpenNeuro
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