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Figure 5 from: Mulcahy DG, Lee JL, Miller AH, Chand M, Thura MK, Zug GR (2018) Filling the BINs of life: Report of an amphibian and reptile survey of the Tanintharyi (Tenasserim) Region of Myanmar, with DNA barcode data. ZooKeys 757: 85-152. https://doi.org/10.3897/zookeys.757.24453
Figure 5 Selected snakes found during this study's expedition. A Malayopython reticulatus (USNM HerpImage 2892) B Ahaetulla mycterizans (USNM 587040) C Dendrelaphis pictus (USNM HerpImage 2893) D Boiga dendrophila (USNM 587041) E Xenochrophis trianguligerus (USNM 587045) F Rhabdophis chrysargos (USNM 587044) G Rhabdophis nigrocinctus (USNM HerpImage 2894) H Naja kaouthia (USNM HerpImage 2895). Photos A–B, D–F by Daniel G. Mulcahy, C, H–I by Myint Kyaw Thura.
Figure 3 from: Mulcahy DG, Lee JL, Miller AH, Chand M, Thura MK, Zug GR (2018) Filling the BINs of life: Report of an amphibian and reptile survey of the Tanintharyi (Tenasserim) Region of Myanmar, with DNA barcode data. ZooKeys 757: 85-152. https://doi.org/10.3897/zookeys.757.24453
Figure 3 Selected amphibians found during this study's expedition. A Phrynoidis aspera (USNM 586871) B Limnonectes doriae (USNM 586911) C Microhyla fissipes (USNM 586949) D Odorrana hosii (USNM 586980) E Chalcorana eschatia (USNM 586971) F Fejervarya sp. (USNM 586881) G Occidozyga martensii (USNM 586930) H Sylvirana malayana (USNM 586970). Photos by Myint Kyaw Thura and Daniel G. Mulcahy.
Figure 5 in Data to the Heterocera (Insecta, Lepidoptera) fauna of East Kazakhstan: report on a summer expedition in 2018
Figure 5. Landscapes of collecting points in Eastern Kazakhstan: Saur, 1.VII.2018, photo by V.V. Ivonin.
Figures 24-41 in Data to the Heterocera (Insecta, Lepidoptera) fauna of East Kazakhstan: report on a summer expedition in 2018
Figures 24-41. Adult specimens in Nature, Burkhat, 27-28.VI.2018, photos by S.A. Knyazev; 24 – Victrix umovii; 25 – Dasypolia bubnovae; 26 – Mniotype bathensis; 27 – Anarta imperspiqua; 28 – Polia altaica; 29 – Polia nebulosa; 30 – Papestra biren; 31 – Hada plebeja; 32 – Hyssia cavernosa; 33 – Hadena perplexa; 34 – Lasionhada proxima; 35 – Actebia squalida; 36 – Dichagyris musiva; 37 – Xestia borealis; 38 – Xestia gelida; 39 – Xestia sincera; 40 – Xestia alexis; 41 – Xestia speciosa.
Data from: Reporting tumor molecular heterogeneity in histopathological diagnosis
Background: Detection of molecular tumor heterogeneity has become of paramount importance with the advent of targeted therapies. Analysis for detection should be comprehensive, timely and based on routinely available tumor samples. Aim: To evaluate the diagnostic potential of targeted multigene next-generation sequencing (TM-NGS) in characterizing gastrointestinal cancer molecular heterogeneity. Methods: 35 gastrointestinal tract tumors, five of each intestinal type gastric carcinomas, pancreatic ductal adenocarcinomas, pancreatic intraductal papillary mucinous neoplasms, ampulla of Vater carcinomas, hepatocellular carcinomas, cholangiocarcinomas, pancreatic solid pseudopapillary tumors were assessed for mutations in 46 cancer-associated genes, using Ion Torrent semiconductor-based TM-NGS. One ampulla of Vater carcinoma cell line and one hepatic carcinosarcoma served to assess assay sensitivity. TP53, PIK3CA, KRAS, and BRAF mutations were validated by conventional Sanger sequencing. Results: TM-NGS yielded overlapping results on matched fresh-frozen and formalin-fixed paraffin-embedded (FFPE) tissues, with a mutation detection limit of 1% for fresh-frozen high molecular weight DNA and 2% for FFPE partially degraded DNA. At least one somatic mutation was observed in all tumors tested; multiple alterations were detected in 20/35 (57%) tumors. Seven cancers displayed significant differences in allelic frequencies for distinct mutations, indicating the presence of intratumor molecular heterogeneity; this was confirmed on selected samples by immunohistochemistry of p53 and Smad4, showing concordance with mutational analysis. Conclusions: TM-NGS is able to detect and quantitate multiple gene alterations from limited amounts of DNA, moving one step closer to a next-generation histopathologic diagnosis that integrates morphologic, immunophenotypic, and multigene mutational analysis on routinely processed tissues, essential for personalized cancer therapy.
Data from: Lack of activity of recombinant HIF prolyl hydroxylases (PHDs) on reported non-HIF substrates
Human and other animal cells deploy three closely related dioxygenases (PHD 1, 2 and 3) to signal oxygen levels by catalysing oxygen regulated prolyl hydroxylation of the transcription factor HIF. The discovery of the HIF prolyl-hydroxylase (PHD) enzymes as oxygen sensors raises a key question as to the existence and nature of non-HIF substrates, potentially transducing other biological responses to hypoxia. Over 20 such substrates are reported. We therefore sought to characterise their reactivity with recombinant PHD enzymes. Unexpectedly, we did not detect prolyl-hydroxylase activity on any reported non-HIF protein or peptide, using conditions supporting robust HIF-α hydroxylation. We cannot exclude PHD-catalysed prolyl hydroxylation occurring under conditions other than those we have examined. However, our findings using recombinant enzymes provide no support for the wide range of non-HIF PHD substrates that have been reported.
Figure 20 from: Barge EG, Cripps CL (2016) New reports, phylogenetic analysis, and a key to Lactarius Pers. in the Greater Yellowstone Ecosystem informed by molecular data. MycoKeys 15: 1-58. https://doi.org/10.3897/mycokeys.15.9587
Figure 20 - Lactarius barrowsii. Top collection EB008-15 (left and right) and bottom collection EB015-15 under Pinus flexilis, Story Hill, Bozeman, Montana, USA. Scale bars: 2 cm. Photos by E. Barge.
Figure 17 from: Barge EG, Cripps CL (2016) New reports, phylogenetic analysis, and a key to Lactarius Pers. in the Greater Yellowstone Ecosystem informed by molecular data. MycoKeys 15: 1-58. https://doi.org/10.3897/mycokeys.15.9587
Figure 17 - Lactarius alnicola. Top and bottom collection EB0064-14 under Picea engelmannii, Gallatin Range, Montana, USA. Scale bars: 2 cm. Photos by E. Barge.
Figure 13 from: Barge EG, Cripps CL (2016) New reports, phylogenetic analysis, and a key to Lactarius Pers. in the Greater Yellowstone Ecosystem informed by molecular data. MycoKeys 15: 1-58. https://doi.org/10.3897/mycokeys.15.9587
Figure 13 - Lactarius olympianus. Collection EB0070-14 under Picea engelmannii, Tobacco Root Mountains, Montana, USA. Scale bar: 2 cm. Photo by E. Barge.
Figure 10 from: Barge EG, Cripps CL (2016) New reports, phylogenetic analysis, and a key to Lactarius Pers. in the Greater Yellowstone Ecosystem informed by molecular data. MycoKeys 15: 1-58. https://doi.org/10.3897/mycokeys.15.9587
Figure 10 - Lactarius aff. brunneoviolaceus. Collection CLC3098 near Salix reticulata (pictured), Salix planifolia, and krummholz Picea engelmannii, Beartooth Plateau, Montana, USA. Scale bar: 2 cm. Photo by C. Cripps.
Figure 14 from: Barge EG, Cripps CL (2016) New reports, phylogenetic analysis, and a key to Lactarius Pers. in the Greater Yellowstone Ecosystem informed by molecular data. MycoKeys 15: 1-58. https://doi.org/10.3897/mycokeys.15.9587
Figure 14 - Lactarius pseudodelicatus. Collection CLC512 under Populus tremuloides, Teton Range, Idaho, USA. Scale bar: 2 cm. Photo by C. Cripps.
Figure 24 from: Barge EG, Cripps CL (2016) New reports, phylogenetic analysis, and a key to Lactarius Pers. in the Greater Yellowstone Ecosystem informed by molecular data. MycoKeys 15: 1-58. https://doi.org/10.3897/mycokeys.15.9587
Figure 24 - Lactarius rufus. Collection EB0076-14 under Pinus contorta and Picea engelmannii, Gallatin Range, Montana, USA. Scale bar: 2 cm. Photo by E. Barge.
Figure 23 from: Barge EG, Cripps CL (2016) New reports, phylogenetic analysis, and a key to Lactarius Pers. in the Greater Yellowstone Ecosystem informed by molecular data. MycoKeys 15: 1-58. https://doi.org/10.3897/mycokeys.15.9587
Figure 23 - Lactarius badiosanguineus. Top collection EB0069-14 under Picea engelmannii, Tobacco Root Mountains, Montana, USA. Bottom collection EB200-13 under Picea engelmannii and Abies lasiocarpa, Gallatin Range, Montana, USA. Scale bars: 2 cm. Photos by E. Barge.
Figure 1 from: Barge EG, Cripps CL (2016) New reports, phylogenetic analysis, and a key to Lactarius Pers. in the Greater Yellowstone Ecosystem informed by molecular data. MycoKeys 15: 1-58. https://doi.org/10.3897/mycokeys.15.9587
Figure 1 - Map showing the location of the Greater Yellowstone Ecosystem (GYE). The GYE is located in the Central Rocky Mountains of North America and includes over 20 mountain ranges, with Yellowstone National Park at its center, Grand Teton National Park, and portions of surrounding national forests and other lands in Montana, Wyoming, and Idaho. The GYE is outlined by the black box, and the Rocky Mountains by the dotted line.
Figure 16 from: Barge EG, Cripps CL (2016) New reports, phylogenetic analysis, and a key to Lactarius Pers. in the Greater Yellowstone Ecosystem informed by molecular data. MycoKeys 15: 1-58. https://doi.org/10.3897/mycokeys.15.9587
Figure 16 - Lactarius zonarius v. riparius. Collection CLC2933 under Populus trichocarpa, Bozeman, Montana, USA. Scale bar: 2 cm. Photo by E. Barge.
Figure 5 from: Barge EG, Cripps CL (2016) New reports, phylogenetic analysis, and a key to Lactarius Pers. in the Greater Yellowstone Ecosystem informed by molecular data. MycoKeys 15: 1-58. https://doi.org/10.3897/mycokeys.15.9587
Figure 5 - Lactarius glyciosmus. Collection EB111-15 under Betula glandulosa, Hellroaring Plateau, Montana, USA. Scale bar: 2 cm. Photo by E. Barge.
Figure 19 from: Barge EG, Cripps CL (2016) New reports, phylogenetic analysis, and a key to Lactarius Pers. in the Greater Yellowstone Ecosystem informed by molecular data. MycoKeys 15: 1-58. https://doi.org/10.3897/mycokeys.15.9587
Figure 19 - Lactarius aff. olivinus. Top collection EB0051-14 and bottom collection EB0050-14 under Picea engelmannii, Silver Gate, Montana, USA. Scale bars: 2 cm. Photos by E. Barge.
Figure 12 from: Barge EG, Cripps CL (2016) New reports, phylogenetic analysis, and a key to Lactarius Pers. in the Greater Yellowstone Ecosystem informed by molecular data. MycoKeys 15: 1-58. https://doi.org/10.3897/mycokeys.15.9587
Figure 12 - Lactarius controversus. Collection EB110-15 under Populus tremuloides, Beartooth Mountains, Montana, USA. Scale bar: 2 cm. Photo by E. Barge.
Figure 11 from: Barge EG, Cripps CL (2016) New reports, phylogenetic analysis, and a key to Lactarius Pers. in the Greater Yellowstone Ecosystem informed by molecular data. MycoKeys 15: 1-58. https://doi.org/10.3897/mycokeys.15.9587
Figure 11 - Lactarius caespitosus. Top collection EB0074-14 under Abies lasiocarpa, Tobacco Root Mountains, Montana, USA. Bottom collection EB095-15 under Abies lasiocarpa and Picea engelmannii, Crazy Mountains, Montana, USA. Scale bars: 2 cm. Photos by E. Barge.
Figure 22 from: Barge EG, Cripps CL (2016) New reports, phylogenetic analysis, and a key to Lactarius Pers. in the Greater Yellowstone Ecosystem informed by molecular data. MycoKeys 15: 1-58. https://doi.org/10.3897/mycokeys.15.9587
Figure 22 - "Lactarius deliciosus" group. Top collection EB107-15 among Arctostaphylos uva-ursi, Hellroaring Plateau, Montana, USA. Bottom collection EB089-15 under Picea engelmannii, Pinus contorta, and Abies lasiocarpa, Madison Range, Montana, USA. Scale bars: 2 cm. Photos by E. Barge.
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.