Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
118
datasets available to search
ShareScore release 0.9.0
Dataset results
118 results for “molecular diagnostics”
Molecular Signatures of Tumour and its Microenvironment for Precise Quantitative Diagnosis of Oral Squamous Cell Carcinoma: An Interna-tional Multi-cohort Diagnostic Validation Study
<p><strong>Supplementary Materials: </strong>The following supporting information can be downloaded at: www.mdpi.com/xxx/s1, <strong>Table ST1</strong> – qMIDS<sup>V2 </sup>Gene panel primer sequences; <strong>Figure S1</strong> – qMIDS<sup>V1</sup> vs qMIDS<sup>V2</sup> 384-well assay format and protocols; <strong>Figure S2.</strong> Individual target gene expression pattern in 1761 samples; <strong>Figure S3.</strong> Various statistical methods used for gene selection analysis on 1761 clinical samples; <strong>Figure S4. </strong>Diagnostic performance comparison between qMIDS<sup>V2</sup> vs qMIDS<sup>V2* </sup>(with 4 less effective genes removed from the panel of 14 target genes of qMIDS<sup>V2</sup>); <strong>Figure S5</strong>. Effect of removing individual genes from the 14-target gene panel qMIDS<sup>V2</sup> (qV2) on diagnostic test performance based on the UK patient cohort data.</p>
Fig. 1 in Molecular diagnostic technique for the differentiation of the Formosan subterranean termite, Coptotermes formosanus (Isoptera: Rhinotermitidae) from other subterranean termites by multiplex-PCR
Fig. 1. Ethidium bromide-stained agarose gel (2%) illustrating a common amplicon of 262 bp from the mtDNA 16S gene for various termite species and unique amplicon of 221 bp specific for the Formosan subterranean termite.
Fig. 2. Multiplex PCR gel showing the 716 in Molecular diagnostics of the honey bee parasites Lotmaria passim and Crithidia spp. (Trypanosomatidae) using multiplex PCR
Fig. 2. Multiplex PCR gel showing the 716 to 724 bp amplicon for Lotmaria passim and Crithidia species, the L. passim specific 499 bp amplicon, and the Crithidia specific 245 bp amplicon.
Fig. 1 in Molecular diagnostics of the honey bee parasites Lotmaria passim and Crithidia spp. (Trypanosomatidae) using multiplex PCR
Fig. 1. Bayesian molecular phylogenetic tree showing relationship of 2 Hawaiian Lotmaria passim positive samples relative to other trypanosomes from Gen- Bank for a 608 bp region of the rDNA SSU gene.
Fig. 5 in Helminth parasites of howler and spider monkeys in Mexico: Insights into molecular diagnostic methods and their importance for zoonotic diseases and host conservation
Fig. 5. Phylogenetic trees based on 28S (left) and cox1 (right) sequences of Strongyloides eggs. Sequences obtained from the eggs are bold type and indicated with an *. Numbers at the nodes represent posterior probabilities from Bayesian inference.
Fig. 2 in Helminth parasites of howler and spider monkeys in Mexico: Insights into molecular diagnostic methods and their importance for zoonotic diseases and host conservation
Fig. 2. Egg morphotypes found in the faeces of Mexican primates. A) Trypanoxyuris sp., B) Controrchis biliophilus, arrow pointing to the two eyespot remnants; C) trematode, diagnosed as C. biliophilus by molecular data; D) unidentified ancylostomatid; E) Strongyloides sp.; F) unidentified ascarid. Scale bar is equal to 15 Mm.
Fig. 4 in Helminth parasites of howler and spider monkeys in Mexico: Insights into molecular diagnostic methods and their importance for zoonotic diseases and host conservation
Fig. 4. Phylogenetic tree based on 28S sequences of Controrchis biliophilus. Sequences obtained from the eggs are bold type and indicated with an *. Numbers at the nodes represent posterior probabilities from Bayesian inference. Host species are indicated within parenthesis.
Fig. 1 in Helminth parasites of howler and spider monkeys in Mexico: Insights into molecular diagnostic methods and their importance for zoonotic diseases and host conservation
Fig. 1. Surveyed sites for parasites in Mexican primates. Dots indicate sampling sites, black: Alouatta palliata; white: A. pigra; and grey: Atetes geoffroyi. Polygons indicate the primate distribution range in Mexico, diagonal lines: A. palliata; dashes: A. pigra; and grey: A. geoffroyi.
Fig. 3 in Helminth parasites of howler and spider monkeys in Mexico: Insights into molecular diagnostic methods and their importance for zoonotic diseases and host conservation
Fig. 3. Phylogenetic trees based on 28S (left) and cox1 (right) sequences of Trypanoxyuris sp. Sequences obtained from the eggs are bold type and indicated with an *. Numbers at the nodes represent posterior probabilities from Bayesian inference.
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.)
Fig. 2 in Applications of molecular diagnostics for quality control in rearing of Spodoptera frugiperda (Lepidoptera: Noctuidae) larvae for experimental use
Fig. 2. Relative abundance of diversity of viruses found in the metagenomic analysis of dead and healthy larvae of Spodoptera frugiperda.
Fig. 1 in Applications of molecular diagnostics for quality control in rearing of Spodoptera frugiperda (Lepidoptera: Noctuidae) larvae for experimental use
Fig. 1. Relative abundance of bacterial diversity found in samples of healthy (LH1 and LH2) and dead larvae (LD1 and LD2) of Spodoptera frugiperda.
Figure 3 in Molecular test shows the color pattern is not so reliable in diagnostic of genus Dysphaea Selys (Odonata: Euphaeidae)
Figure 3. Phylogenetic reconstruction of 37 samples based on combined gene dataset (COI+16S+28S, 2394 bp). Bayesian posterior probabilities (left) and ML bootstrap value (right) are indicated at nodes. Among the central Vietnamese specimens of Dysphaea sp. the ID numbers in red color indicate those specimens with dark colour which were originally identified by us as D. basitincta. Those with ID in green indicate specimens originally identified by us as D. gloriosa. The blue ID refers to D. haomiao.
Figure 2 in Molecular test shows the color pattern is not so reliable in diagnostic of genus Dysphaea Selys (Odonata: Euphaeidae)
Figure 2. Photos of the right pair of wings of some male specimens showing the variations of wing color patterns. The wings of the syntype of D. basitincta (at MNHN, Paris) was kindly provided by Matti Hämäläinen.
Supplemental files to: Probe-based quantitative PCR and RPA-Cas12a molecular diagnostics for detection of the tomato pest Phthorimaea absoluta (Lepidoptera: Gelechiidae)
Open the record for dataset details and reuse information.
Predicting antimicrobial resistance in Pseudomonas aeruginosa with machine learning-enabled molecular diagnostics
<p>Datasets for manuscript "Predicting antimicrobial resistance in Pseudomonas aeruginosa with machine learning-enabled molecular diagnostics"</p> <p><strong>Metadata.zip</strong></p> <ol> <li><strong>phenotypes.txt: </strong>tabular file containing binary resistance phenotypes based on CLSI guidelines, where the rows are the isolates and the columns correspond to different drugs. Resistance : 1, susceptibility: 0, missing: intermediate resistant</li> </ol> <p><strong>Features_gpa_exp_snps.zip </strong></p> <p>We provide the processed molecular data as Numpy compressed files (npz.). You can use the Numpy load method to read in these tables https://docs.scipy.org/doc/numpy/reference/generated/numpy.load.htm. The row (strains_list) and column labels (feature_lists) are stored separately.</p> <ol> <li><strong>genexp</strong>: gene expression table directory <ul> <li>genexp_feature_vect.npz: The feature matrix in the numpy format</li> <li>genexp_feature_list.txt: The columns of the feature matrix (features)</li> <li>genexp_strains_list.txt: The rows of the feature matrix (isolates)</li> </ul> </li> <li><strong>gpa: </strong>gene presence/absence table directory <ul> <li>gpa_feature_vect.npz: The feature matrix in the numpy format</li> <li>gpa_feature_list.txt: The columns of the feature matrix (features)</li> <li>gpa_strains_list.txt: The rows of the feature matrix (isolates)</li> </ul> </li> <li><strong>snps: </strong>SNPs table directory <ul> <li>snps_feature_vect.npz: The feature matrix in the numpy format</li> <li>snps_feature_list.txt: The columns of the feature matrix (features)</li> <li>snps_strains_list.txt: The rows of the feature matrix (isolates)</li> </ul> </li> </ol>
Association between susceptibility of Thrips palmi to spinetoram and frequency of G275E mutation provides basis for molecular diagnostics of field-evolved resistance
<p><b><span>Background</span></b><span>: Spinosyn resistance is an increasing problem in field control of targeted pests. While putative mechanisms underlying spinosyn resistance have been identified in controlled studies on many species, mechanisms underlying field-evolved resistance and the development of a molecular diagnostic method for monitoring field resistance have lagged behind. Here, we examined levels of resistance of melon thrips, <i>Thrips palmi,</i> to spinetoram as well as target site mutations in field populations across China to identify potential mechanisms and useful molecular markers for diagnostic purposes.</span></p> <p><b><span>Results</span></b><span>: LC<sub>50</sub> </span><span>of 16 field-collected populations to the spinetoram varied from 0.12 to 759.34 </span>mg L<sup>-1</sup><span>. In resistant populations, we identified the G275E mutation, which has previously been linked to spinosyns resistance, as well as another nonsynonymous mutation, F314V, both located in the <i>α</i>6 subunit of the nicotinic acetylcholine receptor. There was a strong correlation between levels of spinetoram resistance and allele frequency of G275E mutation in field-collected populations (<i>r<sup>2</sup></i> = 0.84) and those reared under laboratory conditions for two to five generations (<i>r<sup>2</sup></i> = 0.91). LC<sub>50</sub> ranged from 0.12 to 0.66 </span>mg L<sup>-1</sup><span> in populations without </span><span>G275E mutation, while it ranged from </span>33.12<span> to 39.91</span> mg L<sup>-1</sup><span> in most populations with a </span><span>G275E mutation frequency > 90%, with the exception of one field-collected population which had an G275E frequency of 92% and a very high LC<sub>50</sub> value of 759.34</span> mg L<sup>-1</sup><span>, suggesting additional mechanisms.</span></p> <p><b><span>Conclusions: </span></b><span>Our results indicate that field-evolved resistance of <i>T. palmi</i> to spinetoram in China is mainly conferred by the G275E mutation, with other mechanisms contributing to a higher level of resistance. The frequency of the G275E mutation provides a useful diagnostic for quantifying resistance levels in field populations of <i>T. palmi</i>.</span></p>
Thermally controlled intein splicing of engineered DNA polymerases provides a robust and generalizable solution for accurate and sensitive molecular diagnostics
<p>DNA polymerases are essential for nucleic acid synthesis, cloning, sequencing and molecular diagnostics technologies. Conditional intein splicing is a powerful tool for controlling enzyme reactions. We have engineered a thermal switch into thermostable DNA polymerases from two structurally distinct polymerase families by inserting a thermally activated intein domain into a surface loop that is integral to the polymerase active site, thereby blocking DNA or RNA template access. The fusion proteins are inactive but retain their structures such that the intein excises during a heat pulse delivered at 70–80°C to generate spliced, active polymerases. This straightforward thermal activation step provides a highly effective, one-component 'hot-start' control of PCR reactions that enables accurate target amplification by minimizing unwanted by-products generated by off-target reactions. In one engineered enzyme, derived from <em>Thermus aquaticus</em> DNA polymerase, both DNA polymerase and reverse transcriptase activities are controlled by the intein, enabling single-reagent amplification of DNA and RNA under hot-start conditions. This engineered polymerase provides high-sensitivity detection for molecular diagnostics applications, amplifying 5–6 copies of the tested DNA and RNA targets with >95% certainty. The design principles used to engineer the inteins can be readily applied to construct other conditionally activated nucleic acid processing enzymes.</p>
Molecular Diagnostic Methods for Detection of Plasmodium Knowlesi
ClinicalTrials.gov study NCT03988296. IPD Sharing: NO. Countries: 1. Publications: 8.
ScienceDex guides
Understand access before you commit
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.