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Search String
<p>The search string used for systematic mapping</p>
Search String MSL
<p>The search string used for systematic mapping</p>
Artifact of Enhancing Search-Based Unit Test Generation with Method-Level Java Class Splitter
<p># Artifact of Enhancing Search-Based Unit Test Generation with Method-Level Java Class Splitter</p> <p> </p> <p>This artifact contains:</p> <p>1. The binary folder. Its instruction can be found in [./binary/README.md](./binary/README.md).</p> <p>2. All classes used in the experiments [./classes.csv](./classes.csv).</p> <p>3. The experimental data zip file ([experimental_data.zip](./experimental_data.zip)).</p>
KuaiSAR: A Unified Search And Recommendation Dataset
<p>The confluence of Search and Recommendation (S&R) services is a vital aspect of online content platforms like Kuaishou and TikTok. The integration of S&R modeling is a highly intuitive approach adopted by industry practitioners. However, there is a noticeable lack of research conducted in this area within the academia, primarily due to the absence of publicly available datasets. Consequently, a substantial gap has emerged between academia and industry regarding research endeavors in this field. To bridge this gap, we introduce the first large-scale, real-world dataset KuaiSAR of integrated Search And Recommendation behaviors collected from Kuaishou, a leading short-video app in China with over 300 million daily active users. Previous research in this field has predominantly employed publicly available datasets that are semi-synthetic and simulated, with artificially fabricated search behaviors. Distinct from previous datasets, KuaiSAR records genuine user behaviors, the occurrence of each interaction within either search or recommendation service, and the users’ transitions between the two services. This work aids in joint modeling of S&R, and the utilization of search data for recommenders (and recommendation data for search engines). Additionally, due to the diverse feedback labels of user-video interactions, KuaiSAR also supports a wide range of other tasks, including intent recommendation, multi-task learning, and long sequential multi-behavior modeling etc. We believe this dataset will facilitate innovative research and enrich our understanding of S&R services integration in real-world applications.</p>
Zr–O Ab Initio Training Data Created by Molecular Dynamics, Contour Exploration, and Dimer Searches
<p> These density functional theory calculations span a diverse set of structures in the Zr–O system which was used as machine-learned interatomic potential (MLIP) training data. This data set was used to benchmark different structural evolution methods (molecular dynamics, contour exploration, and dimer searches) for the quality and accuracy of MLIPs trained on them. The data is provided in the .traj format from ASE. Along with data set used in our publication, we provide a large set of extra unused data and a small Python script example for parsing the data set. The set contains 120,068 structures which contain a total of 3,154,158 atoms.</p> <p>For more details, please see our paper:<br> Michael J Waters and James M Rondinelli, <em>J. Phys.: Condens. Matter</em> <strong>34</strong> 385901(2022) (<a href="https://dx.doi.org/10.1088/1361-648X/ac7f73">https://dx.doi.org/10.1088/1361-648X/ac7f73</a>)</p>
Raw data of visual search parameters of individuals with normal trichromacy and colour vision deficiency
<p><strong><span>Background</span></strong><span>: Colour-related search tasks are common in many professional fields. The study investigated whether increasing chromatic saturation can enhance the visual performance of individuals with colour vision deficiency (CVD) in colour-related search tasks.</span></p> <p><strong><span>Methods</span></strong><span>: 10 normal trichromats (5M, 5F; Mean (SD) age: 23.1 (3.3) years) and 15 individuals with CVD [8 deutans and 7 protans identified by HRR plates] (14M, 1F; aged 28.6 (8.7) years) participated in this study. Four naturalistic sceneries of everyday tasks/ birds, animals, and flowers of 15 different colour combinations (1 pair of colours in each combination. e.g., 'brown/black' or 'red/green') were presented in 'low' saturation, 'original' (unaltered images) and 'high' saturation condition using the Psychopy program on a colour-calibrated monitor. On each trial, the subject was asked to identify a specific-coloured target. </span></p> <p><span><strong>Results</strong>: </span><span>Overall, the visual search performance index (expressed as product of accuracy and a reciprocal of reaction time (%correct*s<sup>-1</sup>) of the normal trichromats [Mean (SD):77.76% correct*s<sup>-1</sup> (16.32)] was significantly higher than CVD [45.71 % correct*s<sup>-1</sup> (18.95)] in the "original" test images (p = 0.001), but in individuals with CVD, there was no significant difference between 'original' [45.71 % correct*s<sup>-1</sup> (18.95)] and 'high' saturation condition ([47.43 % correct*s<sup>-1</sup> (20.07)]; p > 0.05). However, colour-wise, increased saturation showed improvements (≥ 10 %) in protans mainly for 'red' combinations with other colours such as white (i.e., 'red/white'), purple, orange, grey, green, brown, and black.</span></p> <p><strong><span>Conclusion</span></strong><span>:</span><span> The study suggests that increasing the saturation of certain colour combinations can potentially aid in the visual search performance of individuals with CVD. This knowledge will help in better counselling and management of the patients.</span></p>
Figure 11 in The search finds an end: the morphologically chimeric hysterocinetids belong to the subclass Hymenostomatia (Ciliophora: Oligohymenophorea)
Figure 11. Secondary structure of the 18S rRNA molecule of Hysterocineta bellerophon. Arrows mark molecular synapomorphies of the 'paravorax' clade. Primary nucleotide homologies are scaưered throughout the whole 18S rRNA molecule, suggesting a long common evolution of the 'paravorax' clade. Thus, 'paravorax' clade-specific nucleotide characters are situated in terminal loops of helices (six nucleotide positions), bulges (six positions), single-stranded regions (four positions), and double-stranded regions (32 positions). There are as many as 48 molecular synapomorphies and four indels in the 18S rRNA molecule, corroborating the common origin of hysterocinetids and other members of the 'paravorax' clade. Mutations in the double-stranded regions are typically involved in compensatory base changes or retain helical structure when involved in non-canonical pairings in helices 27 and 43. The 18S secondary structure map of Saccharomyces cerevisiae (inset) is from hưp://apollo.chemistry.gatech.edu/RibosomeGallery.
Figure 8 in The search finds an end: the morphologically chimeric hysterocinetids belong to the subclass Hymenostomatia (Ciliophora: Oligohymenophorea)
Figure 8. Phylogenetic tree based on the nuclear 18S rRNA gene and mitochondrial COI sequences, showing the phylogenetic position of hysterocinetids within the subclass Hymenostomatia. Ichthyophthirius multifiliis was used as an outgroup, following Zhang and Vďačný (2022). Posterior probabilities for Bayesian inference conducted in MrBayes and bootstrap values for maximum likelihood conducted in IQ-Tree were mapped onto the 50%-majority rule Bayesian consensus tree. Fully statistically supported nodes are marked with red solid circles. The scale bar denotes two substitutions per 10 nucleotide positions. The oral apparatus of tetrahymenids is morphologically plastic (right inset). Most species have maintained the plesiomorphic condition, while some have completely lost the oral apparatus (Clausilocola) or have evolved a highly complex, peritrich-like oral ciliature that was displaced posteriorly (hysterocinetids). Diagrams of Tetrahymena and Clausilocola in the right inset are from Zhang and Vďačný (2022, 2023).
Figure 10 in The search finds an end: the morphologically chimeric hysterocinetids belong to the subclass Hymenostomatia (Ciliophora: Oligohymenophorea)
Figure 10. Phylogenetic tree based on the nuclear 18S and mitochondrial 16S rRNA gene sequences, showing the phylogenetic position of hysterocinetids within the class Oligohymenophorea. Note that hysterocinetids are nested within the 'paravorax' clade of the genus Tetrahymena. The 'paravorax' clade, at the present state of knowledge, comprises both free-living (e.g. T. paravorax), as well as endosymbiotic ciliates associated with freshwater planarians (T. nigricans), bivalves (T. glochidiophila and T. unionis), and lumbricid earthworms (Hysterocineta bellerophon and Protoptychostomum simplex). Posterior probabilities for Bayesian inference conducted in MrBayes and bootstrap values for maximum likelihood conducted in IQ-Tree were mapped onto the 50%-majority rule Bayesian consensus tree. Fully statistically supported nodes are marked with red solid circles. The scale bar denotes one substitution per ten nucleotide positions.
Figure 7 in The search finds an end: the morphologically chimeric hysterocinetids belong to the subclass Hymenostomatia (Ciliophora: Oligohymenophorea)
Figure 7. Phylogenetic tree based on the 18S rRNA gene, showing the phylogenetic position of hysterocinetids within the class Oligohymenophorea. The class Colpodea was used as an outgroup, following Zhang and Vďačný (2022). Although hysterocinetids are morphologically highly dissimilar from Tetrahymena, they are nested within its 'paravorax' clade with strong statistical support (100% ML bootstrap, 1.00 posterior probability). The 'paravorax' clade thus became paraphyletic and its name-bearing species T. paravorax is depicted as a sister-taxon of both hysterocinetids with full support. Posterior probabilities for Bayesian inference conducted in MrBayes and bootstrap values for maximum likelihood conducted in IQ-Tree were mapped onto the 50%-majority rule Bayesian consensus tree. Fully statistically supported nodes are marked with red solid circles. The scale bar denotes eight substitutions per 100 nucleotide positions.
Figure 14 in The search finds an end: the morphologically chimeric hysterocinetids belong to the subclass Hymenostomatia (Ciliophora: Oligohymenophorea)
Figure 14. Secondary structure of the C, 3ʹM and 3ʹm domains of the 16S rRNA molecule of Hysterocineta bellerophon. Arrows mark molecular synapomorphies of the 'paravorax' clade. Similarly to the homologous nuclear 18S, molecular synapomorphies are distributed across the whole 16S rRNA molecule: 13 nucleotides in the C domain, seven in the 3'M domain, and two in the 3'm domain. Thus, 'paravorax' cladespecific nucleotide characters are situated in terminal loops of helices (three nucleotide positions), bulges and single-stranded regions (seven positions), as well as in the double-stranded regions (12 positions). As in 18S and 28S, many more mutations are involved in Watson‒Crick and wobble pairings than in non-canonical interactions in the double-stranded regions of the 16S rRNA molecule. The 16S secondary structure map of Escherichia coli (inset) is from hưp://apollo.chemistry.gatech.edu/RibosomeGallery.
Figure 4 in The search finds an end: the morphologically chimeric hysterocinetids belong to the subclass Hymenostomatia (Ciliophora: Oligohymenophorea)
Figure 4. Hysterocineta bellerophon in vivo. A, D, less-side overviews, showing the variability of body shape and size, as well as of the nuclear apparatus. B, detail of the anterior body region, showing the dense somatic ciliature and the unciliated sucker. C, detail of the vacuolized oral area. E, detail of the posterior body region, showing the oral ciliature and the vacuolized cytoplasm. CV, contractile vacuole; FV, food vacuoles; IF, infundibulum; MA, macronucleus; OC, oral cilia; S, sucker; SC, somatic cilia. Scale bars = 20 µm (E), 30 µm (B), 50 µm (A), 100 µm (D).
Figure 2 in The search finds an end: the morphologically chimeric hysterocinetids belong to the subclass Hymenostomatia (Ciliophora: Oligohymenophorea)
Figure 2. Protoptychostomum simplex in vivo (A, B) and asser protargol impregnation (C–I). A, detail of the anterior body region, showing densely arranged basal bodies of somatic kineties and the unciliated V-shaped sucker lined by regularly spaced, oblique rows of highly refractive granules. B, detail of the posterior body region, showing the oral ciliature and the vacuolized cytoplasm. C, D, less-side overviews, showing the variability of body shape and size, as well as of the nuclear apparatus. E, F, I, details of the infundibular and peristomial ciliature, as well as of the nuclear apparatus, which is composed of an ellipsoidal macronucleus and two globular micronuclei. Arrowhead in (E, F) marks the curved anterior end of membranelles M1 and M2. G, somatic kineties are composed of narrowly spaced monokinetids. Asterisks mark irregularities in the somatic ciliary paưern. H, surface view, showing cortical granules. CP, cytopharynx; F, fibre; G, granules; M1–2, membranelle 1 and 2; MA, macronucleus; MI, micronuclei; OA, oral apparatus; OC, oral cilia; PM, paroral membrane; S, sucker; SK, somatic kineties. Scale bars = 5 µm (I), 10 µm (F, G), 15 µm (A, B), 40 µm (E), 50 µm (C, D).
Figure 1 in The search finds an end: the morphologically chimeric hysterocinetids belong to the subclass Hymenostomatia (Ciliophora: Oligohymenophorea)
Figure 1. Protoptychostomum simplex in vivo (A) and asser protargol impregnation (B–I). A, less-side view of a representative specimen. B, F–I, less-side overviews, showing the variability of body shape and size as well as of the nuclear apparatus (shaded grey) and sucker (shaded yellow). Dashed circles in (I) represent contractile vacuoles. C, oral ciliary paưern. The paroral membrane and both membranelles extend along the whole posterior body end to plunge into the infundibulum where they form a helix-like paưern. Membranelle M1 is made up of two rows of basal bodies and is not segmented. Membranelle M2 runs beside M1, is composed of only a single row of basal bodies and is not segmented. Arrowhead in (C) marks the curved anterior end of membranelles M1 and M2. D, E, ciliary paưern of the less (D) and the right (E) side. CP, cytopharynx; CV, contractile vacuoles; M1–2, membranelle 1 and 2; MA, macronucleus; MI, micronuclei; PM, paroral membrane; S, sucker; SK, somatic kineties. Scale bars = 30 µm (I), 40 µm (A, B, D, E), 80 µm (H), 100 µm (F, G).
Figure 3 in The search finds an end: the morphologically chimeric hysterocinetids belong to the subclass Hymenostomatia (Ciliophora: Oligohymenophorea)
Figure 3. Hysterocineta bellerophon in vivo (A) and asser protargol impregnation (B–L). A, less-side view of a representative specimen. B, oral ciliary paưern. Membranelle M1 is made up of two rows of basal bodies and runs only on the peristome. Membranelle M2 is cut in two segments: (i) the distal segment M2 is built from two rows of basal bodies and runs beside M1, (ii) the proximal segment M2' is composed of three rows of basal bodies and extends beside M3. Membranelle M3 consists of two rows of basal bodies and starts at the infundibular entrance. C–F, I–L, less-side overviews, showing the variability of body shape and size as well as of the nuclear apparatus (shaded grey) and sucker (shaded yellow). Dashed circles represent contractile vacuole. G, H, the ciliary paưern of the less (G) and the right (H) side. Arrows mark a posterior secant system each on the ventral and the dorsal margin of the right body side. Abbreviations: CV, contractile vacuole; IF, infundibulum; M1–3, membranelles 1–3; MA, macronucleus; PM, paroral membrane; S, sucker; SK, somatic kineties. Scale bars = 50 µm (A, G, H), 100 µm (C, D, E, F, I, J, K, L).
Figure 6. Hysterocineta bellerophon asser protargol impregnation. A in The search finds an end: the morphologically chimeric hysterocinetids belong to the subclass Hymenostomatia (Ciliophora: Oligohymenophorea)
Figure 6. Hysterocineta bellerophon asser protargol impregnation. A, detail of the anterior body region of the specimen shown in Figure 5A, to document the organization of somatic kineties around the sucker. Skeletal fibres emerge from the anterior end of the less ciliary rows and run almost in parallel with the main body axis. B, detail of the oral ciliary paưern near the entrance to the infundibulum of the specimen shown in Figure 5C. C, D, membranelle M1 and M2 are made up of two rows of basal bodies each, run along the peristome, and terminate near the entrance to the infundibulum. Note that the posterior row of M2 is not recognizable in (C), as it is out of focus. E, F, paroral membrane extends on the opposite side of the infundibulum as M2ʹ and M3, describing 1.5 turns of a spiral. Arrowhead in (F) denotes the anterior end of M2ʹ and M3. G, somatic kineties are composed of narrowly spaced monokinetids. Asterisk marks an irregularity in the somatic ciliary paưern. H, the macronucleus is irregularly curved cylindroidal and contains innumerable small nucleoli. The small anterior blob is a preparation artefact caused by leaked macronuclear material as evidenced by the presence of nucleoli. F, skeletal fibres; M1–3, membranelles 1–3; MA, macronucleus; PM, paroral membrane; S, sucker; SK, somatic kineties. Scale bars = 3 µm (C, D), 10 µm (F, G), 15 µm (B), 20 µm (E, H), 30 µm (A).
Figure 9 in The search finds an end: the morphologically chimeric hysterocinetids belong to the subclass Hymenostomatia (Ciliophora: Oligohymenophorea)
Figure 9. Phylogenetic tree based on the nuclear 18S and 28S rRNA gene sequences, showing the phylogenetic position of hysterocinetids within the class Oligohymenophorea. The subclass Peniculia was used as an outgroup, following Gao et al. (2016). Posterior probabilities for Bayesian inference conducted in MrBayes and bootstrap values for maximum likelihood conducted in IQ-Tree were mapped onto the 50%-majority rule Bayesian consensus tree. Fully statistically supported nodes are marked with red solid circles. The scale bar denotes one substitution per ten nucleotide positions.
Figure 13 in The search finds an end: the morphologically chimeric hysterocinetids belong to the subclass Hymenostomatia (Ciliophora: Oligohymenophorea)
Figure 13. Secondary structure of the ITS2 molecule of hysterocinetids (A, B), Tetrahymena nigricans (C), Clausilocola apostropha (D), Tetrahymena nanneyi (E), and Tetrahymena foissneri (F). Arrows in (A–C) mark molecular synapomorphies of the 'paravorax' clade. Helices of the ITS2 molecule are marked by Roman numbers I–IV, the pyrimidine-pyrimidine mismatch of helix II is denoted by an orange rectangle.
Figure 12 in The search finds an end: the morphologically chimeric hysterocinetids belong to the subclass Hymenostomatia (Ciliophora: Oligohymenophorea)
Figure 12. Secondary structure of the 5.8S rRNA molecule and the first two domains of the 28S rRNA molecule of Hysterocineta bellerophon. Arrows mark molecular synapomorphies of the 'paravorax' clade. The 5.8S-28S secondary structure map of Tetrahymena thermophila (inset) is from hưp://apollo.chemistry.gatech.edu/RibosomeGallery.
a Google Scholar search result and profiles dataset
<p>This dataset contains google scholar search result and profiles in jsonl format, and the original html pages of google scholar profiles. The search scope is mainly on computational chemistry and AI for science.</p>
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.