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427 results for “primers”
Supplementary Materials: A primer on gathering and analysing multi-level quantitative evidence for differential student outcomes in higher education
<p>Example data sets, syntax files and macros for the tutorials in: Balloo, K., & Winstone, N. E. (2021). A primer on gathering and analysing multi-level quantitative evidence for differential student outcomes in higher education.<em> Frontline Learning Research</em>. <a href="https://eur02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2F10.14786%2Fflr.v9i2.675&data=04%7C01%7Ck.balloo%40surrey.ac.uk%7C50bb47bb433744dc8da208d8c2116202%7C6b902693107440aa9e21d89446a2ebb5%7C0%7C0%7C637472728228002863%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C1000&sdata=fyA0y2hUkHESUJ7sVJ3s42Re4Yqa5XbgwW7AvEyGDdk%3D&reserved=0">https://doi.org/10.14786/flr.v9i2</a><a href="https://eur02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2F10.14786%2Fflr.v9i2.675&data=04%7C01%7Ck.balloo%40surrey.ac.uk%7C50bb47bb433744dc8da208d8c2116202%7C6b902693107440aa9e21d89446a2ebb5%7C0%7C0%7C637472728228002863%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C1000&sdata=fyA0y2hUkHESUJ7sVJ3s42Re4Yqa5XbgwW7AvEyGDdk%3D&reserved=0">.675</a> </p> <p><strong>The data for all examples are fictional, and have only been designed to simulate the possible behaviour of institutional data for the purposes of demonstrating the analytical approaches in the primer. No inferences or conclusions should be drawn from the findings of these examples, because the results are not real. </strong></p> <p>We anticipate that readers can use the example data sets as templates and substitute in their own data.</p>
The predator problem and PCR primers in molecular dietary analysis: swamped or silenced; depth or breadth? - Dataset
<p>Raw sequencing data and other metadata files are associated with Cuff et al. (2022), available at https://doi.org/10.5281/zenodo.4708418</p> <p>The associated code, files and description pertain to the non-metric multi-dimensional scaling plot presented in this review (Figure 4). The code and data required for the boxplot (Figure 3) are given at the Zenodo link above (for Cuff et al. 2022).</p> <p>Data were collected and processed according to Cuff et al., (2022) up to the point of aggregating the two primer pair datasets. Binary matrices for prey detections were combined for the two primer pairs, but each sample represented separately for each primer pair (i.e., not aggregated by sample). Instances where taxa were only identified to genus (or lower, e.g., family) level by only one of the primer pairs resulted in aggregation for the other primer pair at that taxonomic level, except for species within those groups that were reliably identified to species level by both primers. Samples for which only one primer pair generated prey data were removed. The non-metric multidimensional scaling spider plot was created using ‘metaMDS’ with a Jaccard distance matrix and 999 tries in the ‘vegan’ package (Oksanen et al., 2016). Outliers that obscured the overall patterns were removed, the final plot having a stress of 0.061. Point colours were assigned using the ‘set1’ palette of the ‘RColorBrewer’ package (Neuwirth, 2014) and the final plot created using ‘ggplot2’ (Wickham, 2016).</p>
Ultrasensitive detection of cancer-associated nucleic acids and mutations by primer exchange reaction-based signal amplification and flow cytometry
<p>This dataset contains the raw data that were used for the publication entitled, "Ultrasensitive detection of cancer-associated nucleic acids and mutations by primer exchange reaction-based signal amplificaiton and flow cytometry" published in Biosensors and Bioelectronics on 5 October 2024.</p>
List of validated primers of gilthead sea bream (Sparus aurata) and European seabass (DIcentrarchus labrax) developed in PerformFISH project (D2.3)
<p>The document contains all the primers identified for the screening of genes tested for their potential as biomarkers to predict quality performance in gilthead sea bream and European sea bass larvae and juveniles in the context of PERFORMFISH (WP2). The spreadsheet has the following information: Pathway, phisiologic process in which the gene is involved; name of protein that gene produces; gene code; acession nº, code given in the consulted databases and the sequence extracted for primer design; FW and RV primer, forward and reverse primer sequence specific for target gene; melt temperature, optimized temperature that primers work at ; amplicon size, size in base pairs of the product produced with the primers; eff%, efficency of primers; r2; source, the origin of the primers, "in house" or "literature" (including available DOI. Each pair of primers are classified using a "traffic light" system indicating their validation status.</p>
Developing a new genic SSR primer database for Vicia faba molecular breeding
<p>Accelerating breeding programs require the use of efficient molecular tools and enhance the diversity of local faba bean cultivars. The aim of this study is to develop a new genetic database of available SSR primers, to classify these PCR primers according to the target genes and their respective cell processes, to assess the diversity and efficacy of the microsatellite markers applied to faba bean and to study the genetic structure of some selected faba bean cultivars. Approximately 75,605 and 148,196 previously published genomic and transcriptomic sequences were used to detect possible simple sequence repetitions in faba genomic content. The number of identified SSRs was 25502 and 12319, where the distribution to different repeat type classes shows that, the trinucleotide was the highest number of repeat counts followed by dinucleotide repeats. These genic SSR sequences were used to design 1091 PCR primers, out of which only 238 (21.8%) primers target genomic sequences and the other 853 PCR primers target transcriptomic sequences. The annotation of gene-targeted SSRs has shown that approximately 897 genes are targeted through our designed SSR primers. About 1890 gene ontology (GO) identification code has been obtained. The GOs keywords distributed between distinct cell molecular features, where the highest amount of redundant sentences is the technical word, domain and molecular feature phrases with 554, 196 and 160 GOs, respectively. These GOs belong to the general level of gene ontology, such as molecular function, cellular component and biological process with 544, 670 and 676 GOs, respectively. Twenty-seven SSR PCR primers were synthesized to genotype 12 Egyptian faba bean genotypes. About 11 SSR gave from 1 to 2 PCR bands, other gave only one sharp band with polymorphic band size. The number of polymorphic primers was 13 primers. The polymorphic mean polymorphism information content was 0.3 which implies moderate informativeness.</p>
Figura 2 in Primer registro de Asiothrixus antidesmae (Takahashi) (Hemiptera: Aleyrodidae) en la República Dominicana
Figura 2. Sifones de los segmentos dorsales abdominales (la mitad basal y apical casi tienen la misma longitud).
Sequence data for the article "Targeted reduction of highly abundant transcripts with pseudo-random primers"
<p>Sequence data (Illumina MiSeq runs) for the article "Targeted reduction of highly abundant transcripts with pseudo-random primers". File names indicate unique run identifiers. In the manuscript, shorter names are used:</p> <ul> <li>NC12: 140602_M00528_0019_000000000-A88YD</li> <li>NC17: 140918_M00528_0047_000000000-A8GHU</li> <li>NC22b: 141105_M00528_0062_000000000-AAPC2</li> <li>NCki: 140207_M00528_0069_000000000-A5TY9</li> </ul> <p> </p>
Genome alignments for the article "Targeted reduction of highly abundant transcripts with pseudo-random primers"
<p>Sequence alignment (Moirai workflow management) for the article "Targeted reduction of highly abundant transcripts with pseudo-random primers". File names indicate unique run identifiers. In the manuscript, shorter names are used:</p> <ul> <li>NC12: NC12_1.CAGEscan_short-reads.20150629125015</li> <li>NC17: NC16-17_1.CAGEscan_short-reads.20150625154740</li> <li>NC22b: NC22b.CAGEscan_short-reads.20150625152335</li> <li>NCki: NCms10058_1.CAGEscan_short-reads.20150625154711</li> </ul>
Figura 1 in Primer registro de Polychisme ferruginosus (Stål, 1864) (Heteroptera: Lygaeidae) en Ecuador
Figura 1. Polychisme ferruginosus, hembra de Pablo Arenas, Ecuador. / Polychisme ferruginosus, female from Pablo Arenas, Ecuador.
Figuras 1-3 in Primer registro de Rutela vetula Ohaus (Coleoptera: Scarabaeidae: Rutelinae: Rutelini) en Venezuela
Figuras 1-3: Rutela vetula Ohaus, 1913. 1. Hábito del macho, vista dorsal. 2. Hábito de la hembra, vista dorsal. Escala: 10 mm. 3. Órgano genital del macho, vista ventro-lateral. Escala: 1 mm.
In-silico PCR results for PSSC primer sets exhibiting >50% amplification rate
<p>using in-silico PCR, 2,161 genomes from<em> </em>the <em>Pseudomonas syringae</em> species complex were amplified using 16 established PCR primer sets, allowing one mismatch per primer. Each file here contains amplicons generated from a single primer set, with each amplicon sequence named with the GenBank accession number for the associated genome.</p>
Figura 2 in Primer Leopardus Pitumarca registro fotográfico del gato andino jacobita (Carnivora: Felidae) en , Perú
Figura 2. Registro fotográfico del gato andino (Leopardus jacobita) en Pitumarca, Perú. Figure 2. Photographic record of the Andean cat (Leopardus jacobita) in Pitumarca, Perú.
Figura 3 in Primer Ctenomys provincia registro de coloración melánica en famosus (Rodentia: Ctenomyidae) en la de La Rioja, Argentina
Figura 3. Fotografías del ejemplar de Ctenomys famosus con patrón de coloración melánico. A) Vista dorsal. B) Vista ventral. C) Individuo en el ambiente natural, donde se ve el contraste de los colores del pelaje y del suelo. Figure 3. Photographs of the specimen of Ctenomys famosus with melanic color pattern. A) Dorsal view. B) Ventral view. C) Individual in the natural environment, where the contrast of the colors of the pelage and the soil is seen.
Figura 2 in Primer ( registro documentado de la Parina Chica Phoenicoparrus jamesi, Phoenicopteriformes: Phoenicopteridae) en Santiago del Estero, Argentina
Figura 2. Variación en la tonalidad de la coloración del plumaje de individuos de Parina Chica (Phoenicoparrus jamesi). Foto: Oscar B. Quiroga. Figure 2. Variation in the tonality of the coloration of the plumage of individuals of Puna Flamingo (Phoenicoparrus jamesi). Photo: Oscar B. Quiroga.
Figura 2 in Primer Ctenomys provincia registro de coloración melánica en famosus (Rodentia: Ctenomyidae) en la de La Rioja, Argentina
Figura 2. Ubicación geográfica del sitio de muestreo (ícono naranja) donde se capturó ejemplar melánico de Ctenomys famosus. Figure 2. Geographic location of the sampling site (orange icon) where the melanic specimen of Ctenomys famosus was captured.
Fig. 5 in Morfología larval y datos biológicos de Leucochrysa (Nodita) cruentata (Neuroptera: Chrysopidae), primer registro en Argentina
Fig. 5. Leucochrysa (Nodita) cruentata: fotografías de: (a) prepupa, vista lateral y b) pupa. Fig. 5. Leucochrysa (N.) cruentata: photography: (a) prepupa, lateral view and (b) pupa.
Fig. 3 in Morfología larval y datos biológicos de Leucochrysa (Nodita) cruentata (Neuroptera: Chrysopidae), primer registro en Argentina
Fig. 3. Leucochrysa (N.) cruentata (tercer estadio larval): vista dorsal del tórax. Mitad derecha, detalle de la setación torácica: R1, fila de tres pequeñas setas anteriores; S1-S5, setas torácicas primarias; Sp, espiráculo. Mitad izquierda, detalle de la setación de los TS, tubérculos setígeros: SL, setas laterales del tubérculo; SA, setas apicales del tubérculo. Fig. 3. Leucochrysa (N.) cruentata third larval instar: Thorax, dorsal. Right side, detail of thoracic setae: R1, row of three small anterior setae; S1-S5, primary thoracic setae; Sp, spiracle. Left side, detail of tubercle setigerous TS: SL, setae on lateral tubercle; SA, setae on apical tubercle.
Fig. 4 in Morfología larval y datos biológicos de Leucochrysa (Nodita) cruentata (Neuroptera: Chrysopidae), primer registro en Argentina
Fig. 4. Leucochrysa (N.) cruentata (tercer estadio larval): vista dorsal del abdomen. a) Dibujo: mitad derecha, detalle de la setación abdominal y mitad izquierda de los TS, tubérculos setígeros. Setas: L, largas; C, cortas; SL8, seta larga dorsolateral media del segmento ocho. b) fotografía: detalle de la Marca dorsal (Md), coloración castaño rojiza. Fig. 4. Leucochrysa (N.) cruentata third larval instar: abdominal segments dorsal. a) illustration: Right side, detail of abdominal setae and left side, detail of tubercle setigerous, TS. Setae: L, long; C, short; SL8, long setae mesal dorsolateral on eight abdominal segment. b) photography: detail of dorsal marking (Md), reddish brown color.
Figura 1 in Primer Leopardus Pitumarca registro fotográfico del gato andino jacobita (Carnivora: Felidae) en , Perú
Figura 1. Distribución del gato andino (Leopardus jacobita) y nuevo registro en Pitumarca, Perú. a – Distribución global de L. jacobita, registros previos (rojo) y nuevo registro (amarillo); b – Localización del nuevo registro obtenido en Pitumarca, Perú (amarillo) y registro histórico más cercano (rojo). Las líneas amarillas representan redes viales. Al norte, la red vial nacional "30C" (Interoceánica Sur) y al sur la red vial departamental "Av. Progreso". Figure 1. Andean cat (Leopardus jacobita) distribution and new record in Peru. a – Distribution range of L. jacobita, previous records (red) and new record (yellow); b – Location of the new record obtained in Pitumarca, Peru (yellow) and nearest previous record (red). Yellow lines represent highways. To the North, the "30C" (Interoceánica Sur) highway and to the South, the "Av. Progreso" highway.
Fig. 1 in Morfología larval y datos biológicos de Leucochrysa (Nodita) cruentata (Neuroptera: Chrysopidae), primer registro en Argentina
Fig. 1. Leucochrysa (Nodita) cruentata: (a) dibujo y (b) fotografía vista dorsal de la larva de tercer estadio. Fig. 1. Leucochrysa (Nodita) cruentata: (a) illustration and (b) photography dorsal view of the third larval instar.
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DANDI Archive for NWB datasets
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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.