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Dataset results
132 results for “Multi-gene”
Utilizing a Multi-gene Testing Approach to Identify Hereditary Pancreatic Cancer
ClinicalTrials.gov study NCT02790944. IPD Sharing: UNDECIDED. Countries: 1. Publications: 1.
Validation of a Multi-gene Test for Lung Cancer Risk
ClinicalTrials.gov study NCT01130285. IPD Sharing: NO. Countries: 1. Publications: 1.
Data from: Bryozoan genera Fenestrulina and Microporella no longer confamilial; multi-gene phylogeny supports separation
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Data from: The importance of being genomic: non-coding and coding sequences suggest different models of toxin multi-gene family evolution
Open the record for dataset details and reuse information.
Sergestidae shrimp family single- and multi-gene alignments and tree files
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Supplementary material 3 from: Wiemers M, Chazot N, Wheat CW, Schweiger O, Wahlberg N (2020) A complete time-calibrated multi-gene phylogeny of the European butterflies. ZooKeys 938: 97-124. https://doi.org/10.3897/zookeys.938.50878
Figure S1. Time-calibrated tree of European butterflies
Supplementary material 8 from: Wiemers M, Chazot N, Wheat CW, Schweiger O, Wahlberg N (2020) A complete time-calibrated multi-gene phylogeny of the European butterflies. ZooKeys 938: 97-124. https://doi.org/10.3897/zookeys.938.50878
Figure S6. Time-calibrated tree of European butterflies
Supplementary material 2 from: Wiemers M, Chazot N, Wheat CW, Schweiger O, Wahlberg N (2020) A complete time-calibrated multi-gene phylogeny of the European butterflies. ZooKeys 938: 97-124. https://doi.org/10.3897/zookeys.938.50878
Table S1–S12
Supplementary material 5 from: Wiemers M, Chazot N, Wheat CW, Schweiger O, Wahlberg N (2020) A complete time-calibrated multi-gene phylogeny of the European butterflies. ZooKeys 938: 97-124. https://doi.org/10.3897/zookeys.938.50878
Figure S3. Time-calibrated tree of European butterflies Section II. Riodinidae & Lycaenidae.
Figure 2 from: Wiemers M, Chazot N, Wheat CW, Schweiger O, Wahlberg N (2020) A complete time-calibrated multi-gene phylogeny of the European butterflies. ZooKeys 938: 97-124. https://doi.org/10.3897/zookeys.938.50878
Figure 2 Majority rule consensus tree topology of a set of 1000 trees from the posterior distribution of time-calibrated trees of European butterflies. Circles at the nodes display clade support with a colour gradient from 50% (red) via 75% (yellow) to 100% (green).
Figure 1 from: Wiemers M, Chazot N, Wheat CW, Schweiger O, Wahlberg N (2020) A complete time-calibrated multi-gene phylogeny of the European butterflies. ZooKeys 938: 97-124. https://doi.org/10.3897/zookeys.938.50878
Figure 1 Time-calibrated tree of European butterflies (Lepidoptera: Papilionoidea) with time scale and taxonomic assignment to subfamilies and families.
Figure 3 from: Samarakoon BC, Wanasinghe DN, Samarakoon MC, Phookamsak R, McKenzie EH.C, Chomnunti P, Hyde KD, Lumyong S, Karunarathna SC (2020) Multi-gene phylogenetic evidence suggests Dictyoarthrinium belongs in Didymosphaeriaceae (Pleosporales, Dothideomycetes) and Dictyoarthrinium musae sp. nov. on Musa from Thailand. MycoKeys 71: 101-118. https://doi.org/10.3897/mycokeys.71.55493
Figure 3 Dictyoarthrinium sacchari (MFLU 20-0439) a conidia on the host b developmental stage of terminal conidium attached to the conidiophore c–f Conidiophores and conidia (e, with distinct mother cell) g, h mature conidiophores with four-celled terminal conidium i conidiophore with two celled terminal conidium j developmental stages of conidia on conidiophore k colony on PDA after 21 days l–q conidia. Scale bars: a = 1000 μm (a); 20 μm (b, j); 50 μm (c–i); 5 μm (l–q).
Figure 2 from: Samarakoon BC, Wanasinghe DN, Samarakoon MC, Phookamsak R, McKenzie EH.C, Chomnunti P, Hyde KD, Lumyong S, Karunarathna SC (2020) Multi-gene phylogenetic evidence suggests Dictyoarthrinium belongs in Didymosphaeriaceae (Pleosporales, Dothideomycetes) and Dictyoarthrinium musae sp. nov. on Musa from Thailand. MycoKeys 71: 101-118. https://doi.org/10.3897/mycokeys.71.55493
Figure 2 Dictyoarthrinium musae (MFLU 20-0437, holotype) a conidia on the host b conidiophore and conidia with conidiophore mother cell c–f conidia with conidiophores on stalk g developmental stage of an immature lateral conidium h four-celled terminal conidium i conidiophore j conidiophores and conidia with terminal conidium k, l conidiophores without terminal conidium m attachment of a mature lateral conidium n–q warted four-celled mature conidia r, s mature conidia that split at septa t colony on PDA after 21 days. Scale bars: 500 μm (a); 50 μm (b, c); 20 μm (d–g, i); 10 μm (h); 5 μm (j–s).
Figure 1 from: Samarakoon BC, Wanasinghe DN, Samarakoon MC, Phookamsak R, McKenzie EH.C, Chomnunti P, Hyde KD, Lumyong S, Karunarathna SC (2020) Multi-gene phylogenetic evidence suggests Dictyoarthrinium belongs in Didymosphaeriaceae (Pleosporales, Dothideomycetes) and Dictyoarthrinium musae sp. nov. on Musa from Thailand. MycoKeys 71: 101-118. https://doi.org/10.3897/mycokeys.71.55493
Figure 1 Maximum Likelihood tree revealed by RAxML from an analysis of SSU, LSU and ITS and tef1-α sequence data of the genera of Didymosphaeriaceae, showing the phylogenetic position of Dictyoarthrinium musae (MFLUCC 20-0105, MFLUCC 20-0106) and D. sacchari (MFLUCC 20-0107). ML bootstrap supports (≥ 60%) and Bayesian posterior probabilities (≥ 0.95 BYPP) are given above the branches, respectively. The tree is rooted with Bambusistroma didymosporum (MFLU 15-0057 and MFLU 15-0058). Strains generated in this study are indicated in brown bold type. Ex-type strains are indicated in black bold. The scale bar represents the expected number of nucleotide substitutions per site.
Figure 4 from: Samarakoon BC, Wanasinghe DN, Samarakoon MC, Phookamsak R, McKenzie EH.C, Chomnunti P, Hyde KD, Lumyong S, Karunarathna SC (2020) Multi-gene phylogenetic evidence suggests Dictyoarthrinium belongs in Didymosphaeriaceae (Pleosporales, Dothideomycetes) and Dictyoarthrinium musae sp. nov. on Musa from Thailand. MycoKeys 71: 101-118. https://doi.org/10.3897/mycokeys.71.55493
Figure 4 Morphology of conidia and conidiophores of previously described Dictyoarthrinium species a, dD. microsporumb, iD. synnematicumc, eD. lilliputeumf, jD. africanumg, h, kD. rabaulense. Scale bars: 20 μm (a, c, d, e); 10 μm (b, i). Magnification × 650 (f, g, h, j, k). Redrawn from Rao and Rao (1964), Ellis (1971), Kobayasi et al. (1971) and Somrithipol (2007).
Data from: Phylogeny of haemosporidian blood parasites revealed by a multi-gene approach
The apicomplexan order Haemosporida is a clade of unicellular blood parasites that infect a variety of reptilian, avian and mammalian hosts. Among them are the agents of human malaria, parasites of the genus Plasmodium, which pose a major threat to human health. Illuminating the evolutionary history of Haemosporida may help us in understanding their enormous biological diversity, as well as tracing the multiple host switches and associated acquisitions of novel life-history traits. However, the deep-level phylogenetic relationships among major haemosporidian clades have remained enigmatic because the datasets employed in phylogenetic analyses were severely limited in either gene coverage or taxon sampling. Using a PCR-based approach that employs a novel set of primers, we sequenced fragments of 21 nuclear genes from seven haemosporidian parasites of the genera Leucocytozoon, Haemoproteus, Parahaemoproteus, Polychromophilus and Plasmodium. After addition of genomic data from 25 apicomplexan species, the unreduced alignment comprised 20,580 bp from 32 species. Phylogenetic analyses were performed based on nucleotide, codon and amino acid data employing Bayesian inference, maximum likelihood and maximum parsimony. All analyses resulted in highly congruent topologies. We found consistent support for a basal position of Leucocytozoon within Haemosporida. In contrast to all previous studies, we recovered a sister group relationship between the genera Polychromophilus and Plasmodium. Within Plasmodium, the sauropsid and mammal-infecting lineages were recovered as sister clades. Support for these relationships was high in nearly all trees, revealing a novel phylogeny of Haemosporida, which is robust to the choice of the outgroup and the method of tree inference.
Figure 6 from: Ge Z-W, Jacobs A, Vellinga EC, Sysouphanthong P, van der Walt R, Lavorato C, An Y-F, Yang ZL (2018) A multi-gene phylogeny of Chlorophyllum (Agaricaceae, Basidiomycota): new species, new combination and infrageneric classification. MycoKeys 32: 65-90. https://doi.org/10.3897/mycokeys.32.23831
Figure 6 Micro-morphological features of C. globosum (HKAS 52741). A Basidiospores B Basidia C Cheilocystidia D Elements of squamules on pileus. Scale bars: 10 μm (A, D); 20 μm (B, C).
Figure 5 from: Ge Z-W, Jacobs A, Vellinga EC, Sysouphanthong P, van der Walt R, Lavorato C, An Y-F, Yang ZL (2018) A multi-gene phylogeny of Chlorophyllum (Agaricaceae, Basidiomycota): new species, new combination and infrageneric classification. MycoKeys 32: 65-90. https://doi.org/10.3897/mycokeys.32.23831
Figure 5 Micro-morphological features of C. palaeotropicum (PREM 62142, type). A Basidiospores B Basidia C Cheilocystidia D Elements of squamules on pileus. Scale bars: 10 μm (A, D); 20 μm (B, C).
Figure 3 from: Ge Z-W, Jacobs A, Vellinga EC, Sysouphanthong P, van der Walt R, Lavorato C, An Y-F, Yang ZL (2018) A multi-gene phylogeny of Chlorophyllum (Agaricaceae, Basidiomycota): new species, new combination and infrageneric classification. MycoKeys 32: 65-90. https://doi.org/10.3897/mycokeys.32.23831
Figure 3 Basidiocarps of representative species of Chlorophyllum. A Chlorophyllum africanum (PREM 62141) B Chlorophyllum demangei (HKAS 89157) C Chlorophyllum globosum (PREM 62152) D Chlorophyllum palaeotropicum (HKAS 60195).
Figure 1 from: Ge Z-W, Jacobs A, Vellinga EC, Sysouphanthong P, van der Walt R, Lavorato C, An Y-F, Yang ZL (2018) A multi-gene phylogeny of Chlorophyllum (Agaricaceae, Basidiomycota): new species, new combination and infrageneric classification. MycoKeys 32: 65-90. https://doi.org/10.3897/mycokeys.32.23831
Figure 1 ML tree inferred from ITS data. Bootstrap values >50 % are indicated at internodes. Names of new taxa are in bold.
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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.