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opencc-by-4.0May 2023View details →

Temporal Seismic Velocity Changes Associated with the Mw 6.1, May 2008 Ölfus Doublet, South Iceland: a Joint Interpretation from dv/v and GPS. Cubuk-Sabuncu-etal-Dataset

The dataset for the article "Temporal Seismic Velocity Changes Associated with the Mw 6.1, May 2008 Ölfus Doublet, South Iceland: a Joint Interpretation from dv/v and GPS" by Cubuk-Sabuncu et al. is provided. The weather dataset is now included in version 2.

opencc-by-4.0Jan 2024View details →

From Pixels to Phenotypes: Integrating Image-Based Profiling with Cell Health Data Improves Interpretability

Code: https://github.com/srijitseal/BioMorph_Space Cell Painting assays generate morphological profiles that are versatile descriptors of biological systems and have been used to predict in vitro and in vivo drug effects. However, Cell Painting features are based on image statistics, and are, therefore, often not readily biologically interpretable. In this study, we introduce an approach that maps specific Cell Painting features into the BioMorph space using readouts from comprehensive Cell Health assays. We validated that the resulting BioMorph space effectively connected compounds not only with the morphological features associated with their bioactivity but with deeper insights into phenotypic characteristics and cellular processes associated with the given bioactivity. The BioMorph space revealed the mechanism of action for individual compounds, including dual-acting compounds such as emetine, an inhibitor of both protein synthesis and DNA replication. In summary, BioMorph space offers a more biologically relevant way to interpret cell morphological features from the Cell Painting assays and to generate hypotheses for experimental validation.   The following datasets are released:   Cell_Health_median_357_profiles_70_labels.csv : The Cell Heath dataset for CRISPR perturbations. Contains median consensus signatures for the 357 consensus profiles (119 CRISPR perturbations × 3 cell lines) Ref: Way et al. Cell_Painitng_CRISPR_Perturbations_357_profiles_827_features_scaled.csv: The Cell Painting dataset for CRISPR perturbations. Contains 827 morphology features (and metadata annotation) for 357 consensus profiles (119 CRISPR perturbations × 3 cell lines). Ref: Way et al. Cell_Painting_data_658_compounds_827_Features_scaled.csv The Cell Painting dataset for compound perturbations. Contains 658 structurally unique compounds with 827 Cell Painting features. Ref: Bray et al Endpoints_9_Mitotox_biological_activities_658_compounds.csv The biological assay activity labels for compound perturbations. Contains 658 structurally unique compounds with 9 biological activity consensus hit calls. Ref: ToxCast/MoleculeNet BioMoprh_pvalue_658_compunds_398_BioMorph_terms.csv: The dataset of standardised BioMorph term p-values. Contains 398 BioMorph terms for the 658 compounds in the biological activity dataset.  References:  Way et al. Predicting cell health phenotypes using image-based morphology profiling. Mol Biol Cell. 2021;32(9):995-1005. Bray et al. A dataset of images and morphological profiles of 30 000 small-molecule treatments using the Cell Painting assay. Gigascience. 2017;6(12):1-5.  MoleculeNet: Wu et al. MoleculeNet: A benchmark for molecular machine learning. Chem Sci. 2018;9(2):513-530.  ToxCast: Exploring ToxCast Data | US EPA https://www.epa.gov/chemical-research/exploring-toxcast-data (accessed Jul 9, 2023).

opencc-by-4.0Jul 2021View details →

GIS as a heuristic tool to interpret ancient historiography: A case study to reconstruct what could plausibly have happened according to the accounts in New Testament texts

This presentation summarizes the research findings of the TiG article (doi 10.1111/tgis.12762) which examines how GIS can be used as a heuristic tool to reconstruct spatial–temporal events from narratives in order to examine whether a scenario is conceivable within the narrative world. The narrative about Paul's escape from Berea (Acts 17:14–15) is used as a case study. Several interpretive issues related to spatial and temporal questions surround these texts. In the case study, three methods are applied: (a) least-cost path analysis on elevation data to construct journeys and travel times for Roman roads; (b) network analysis to find seafaring routes valid for ancient times; and (c) the integration of spatial and temporal data in a space-time cube. Our main finding is that the method yields insights into the spatial–temporal dynamics of the narrative. This helps a modern reader to better understand the narrative conceivability of a story in the mind of a first-century reader.

FIG. 6 in From folkloric belief to fishery bycatch: contrasting cryptozoological and euhemeristic interpretations of Australian sea serpents

FIG. 6. — String of A, fishing-net floats, which, if nonlethally entangled around an actively swimming animal and bobbing up and down on the water surface might be misinterpreted as the long tail of a presumed sea serpent, especially if the UMO was also pulling a "mane" of intertwined fishing-net and accumulations of seaweed or other natural or anthropogenic debris; B, cork pieces used to buoy a gillnet;C, wooden casks used to suspend a purse-seine. Photo credits: R. France (taken at Battle Harbour National Historic District, Battle Harbour, Newfoundland and Labrador [A]; Cape Ann Museum, Massachusetts [B]); nineteenth-century illustration reproduced from France 2019a [C].

FIG. 3 in From folkloric belief to fishery bycatch: contrasting cryptozoological and euhemeristic interpretations of Australian sea serpents

FIG. 3. — Illustrations of the many-humped, string-of-buoys Gloucester Sea Serpent observed by hundreds over a period of weeks in Massachusetts in the nineteenth century. Further details of these sightings as well as other illustrations are presented in France (2019a, b).

FIG. 2 in From folkloric belief to fishery bycatch: contrasting cryptozoological and euhemeristic interpretations of Australian sea serpents

FIG. 2. — Unidentified marine objects seen in waters around Australia in A, 1900 (anecdote 19, Wide World Magazine); B, 1913 (anecdote 28, Sunday Times); C, 1939 (anecdote 67, Cryptozoology); D, 1981 (Papua New Guinea waters; Smith 2020). Anecdote numbers correspond to those from Smith (2020). The illustration of the New Guinea UMO depicts the classic manyhumped, string-of-buoys "sea serpent" seen repeatedly around the world, which could, as has been suggested for other regions, be an actual string of entangled buoys from a fishing net. The 1913 Australian UMO was observed to sport a beard and dorsal crest, both traits which have been suggested to indicate presence of entangled fishing gear for other UMOs. Clearly the coils or loops elevated above the surface of the water that were observed for the 1900 and 1939 UMOs are biologically impossible and consequently represent a train of anthropogenic material.

FIG. 4 in From folkloric belief to fishery bycatch: contrasting cryptozoological and euhemeristic interpretations of Australian sea serpents

FIG. 4. — Pre-plastic maritime equipment forming the backbone of the long tails of putative sea serpents.A-F, early to mid twentieth-century fishing ropes and nets constructed of natural fibre (hemp); G, H, remarkably preserved hemp ropes retrieved from a 400 year-old sunken Basque whaling ship. Photo credits: R. France (taken at the Fisheries Museum of the Atlantic,Lunenburg, Nova Scotia [A, B]; the Maritime Museum of the Atlantic, Halifax, Nova Scotia [C, D]; Battle Harbour National Historic District, Battle Harbour, Newfoundland and Labrador [E, F] [see France 2019a for other, similar photos as well as nineteenth-century illustrations of the same]); Red Bay National Historic Site & UNESCO World Heritage Site, Red Bay, Newfoundland and Labrador (G, H).

FIG. 5 in From folkloric belief to fishery bycatch: contrasting cryptozoological and euhemeristic interpretations of Australian sea serpents

FIG. 5. — Pre-plastic maritime material forming the humps of the long tails of putative sea serpents. A, B, blown-glass balls used as floats from the nineteenth-century; C, D, nineteenth-century cork floats; E, F, wooden casks of the type often used as floats on fishing nets. Photos credits: R. France (taken at the Fisheries Museum of the Atlantic, Lunenburg, Nova Scotia [A, D]; the Battle Harbour National Historic District, Battle Harbour, Newfoundland and Labrador [E, F]); the Mystic Seaport Museum Archive and Collections, Mystic, Connecticut (B, C).

FIG. 1 in From folkloric belief to fishery bycatch: contrasting cryptozoological and euhemeristic interpretations of Australian sea serpents

FIG. 1. — Unidentified marine objects (UMOs) representing the "many-humped" or "string-of-buoys" typology of "sea serpents" observed in A, Géographe Bay, Australia, in 1879; B, the Great Barrier Reef, Australia, in 1934. Further details of these sightings and illustrations of other UMOs from the nearby Western Pacific are presented in France (2020a).

opencc-by-4.0Jan 2022View details →

Webis Query Interpretation Corpus 2022 (Webis-QInC-22)

Webis-QInC-22 The Webis Query Interpretation Corpus 2022 (Webis-QInC-22) contains manually selected explicit entities, implicit entities and entity based interpretations for 3,026 web queries. These web queries were either obtained from existing entity linking datasets or ambiguity queries from various sources.

FIG. 8 in Review of Paradiscocyrtus Mello-Leitão, 1927 (Gonyleptidae, Opiliones), with the transfer of Paradiscocyrtus cerayanus Roewer, 1929 to Discocyrtus Holmberg, 1878 and a new interpretation of its type locality

FIG. 8. — Discocyrtus cerayanus (Roewer, 1929) n. comb., MNRJ 7244†, male genitalia, distal part: A, dorsal view; B, lateral view; C, ventral view. Scale bars: A, 50 μm; B, C, 100 μm. Colored features are the genitalic macrosetae of VP: light blue, MS A; dark blue, MS B; magenta, MS C; yellow, MS D; green, MS E.

FIG. 6 in Review of Paradiscocyrtus Mello-Leitão, 1927 (Gonyleptidae, Opiliones), with the transfer of Paradiscocyrtus cerayanus Roewer, 1929 to Discocyrtus Holmberg, 1878 and a new interpretation of its type locality

FIG. 6. — Habitus of Discocyrtus cerayanus (Roewer, 1929) n. comb., MNRJ 7244†, in alcohol, male from Caeté, Minas Gerais, Brazil: A, dorsal view; B, ventral view; C, lateral view; D, anterior view. Scale bars: 1 cm. Photos: R. Carvalho.

FIG. 1 in Review of Paradiscocyrtus Mello-Leitão, 1927 (Gonyleptidae, Opiliones), with the transfer of Paradiscocyrtus cerayanus Roewer, 1929 to Discocyrtus Holmberg, 1878 and a new interpretation of its type locality

FIG. 1. — Previous state of knowledge of the Paradiscocyrtus Mello-Leitão, 1927 species composition between 1929-2020: A, B, Paradiscocyrtus neglectus Mello- Leitão, 1927 (male), in vivo, from Itatiaia, Rio de Janeiro, Brazil; C, Paradiscocyrtus neglectus Mello-Leitão, 1927 (female), in vivo, same locality; D, Discocyrtus cerayanus (Roewer, 1929) n. comb. [previously Paradiscocyrtus cerayanus] (male), MNRJ 7245†, in alcohol, from Caeté, Minas Gerais, Brazil; E, F, Bunopachylus orientalis (Roewer, 1913) [of which Paradiscocyrtus trochanteralis Roewer, 1929 is recognized as junior synomyn] (male), in vivo, from Águas Mornas, Santa Catarina, Brazil. Scale bar: 1 cm. Photos: A-C, A. Kury; D, R. Carvalho; E, F, M. Medrano.

FIG. 3 in Review of Paradiscocyrtus Mello-Leitão, 1927 (Gonyleptidae, Opiliones), with the transfer of Paradiscocyrtus cerayanus Roewer, 1929 to Discocyrtus Holmberg, 1878 and a new interpretation of its type locality

FIG. 3. — Cladogram depicting proposed external and internal phylogenetic relationships of Paradiscocyrtus Mello-Leitão, 1927, with synapomorphies for each clade mapped using ACCTRAN. This is the most frequent topology (k-values = 5, 6, 10, 15 and 20) obtained by TNT. Blue squares, nonhomoplastic synapomorphies; white circles, homoplastic synapomorphies. Number of characters above and number of states below symbols.

FIG. 5 in Review of Paradiscocyrtus Mello-Leitão, 1927 (Gonyleptidae, Opiliones), with the transfer of Paradiscocyrtus cerayanus Roewer, 1929 to Discocyrtus Holmberg, 1878 and a new interpretation of its type locality

FIG. 5. — Brazil, showing distribution of Discocyrtus cerayanus (Roewer, 1929) n. comb. and Paradiscocyrtus neglectus Mello-Leitão, 1927. In the main map: 1) shaded areas in the background represent the regionalization ("Provinces") of the Neotropics (Morrone 2014); 2) the red-checkered area shows the Brazilian state of Ceará, misinterpreted by Mello-Leitão (in Roewer 1931) as the real meaning of "Ceraya" (type locality of D. cerayanus n. comb.) recorded by Roewer (1929). Here, "Ceraya" is interpreted as "Serra do Caraça", a mountain range from the Minas Gerais state. The inset shows the areas of endemism of the Brazilian Atlantic Rain Forest used here follow the concept exposed by DaSilva et al. (2017).

FIG. 4 in Review of Paradiscocyrtus Mello-Leitão, 1927 (Gonyleptidae, Opiliones), with the transfer of Paradiscocyrtus cerayanus Roewer, 1929 to Discocyrtus Holmberg, 1878 and a new interpretation of its type locality

FIG. 4. — Diagnostic character states of Paradiscocyrtus Mello-Leitão, 1927 (A, C, E) in contrast to Discocyrtus s. str. (B, D, F): A, B, stylus of glans (yellow); C, D, ocularium pair of spines (green); E, F, DS shape (gray), area III armature (blue), comparative shape between area IV posterior and DS posterior borders (red), Cx IV retrolateral apophysis (black); Tr IV prolateral medial apophysis (magenta, absent in Discocyrtus s. str.). Scale bars: A, B, 50 μm; C, D, E, F, 1 mm.

FIG. 7 in Review of Paradiscocyrtus Mello-Leitão, 1927 (Gonyleptidae, Opiliones), with the transfer of Paradiscocyrtus cerayanus Roewer, 1929 to Discocyrtus Holmberg, 1878 and a new interpretation of its type locality

FIG. 7. — Discocyrtus cerayanus (Roewer, 1929) n. comb., (SMF RII 996/53), male holotype, from "Ceraya" [Serra do Caraça, Minas Gerais], Brazil: A, habitus, dorsal view; B, same, lateral view; C, ocularium, anterior view; D, Cx IV, ventral view; E, right Tr-Fe IV, dorsal view; F, same, prolateral view; G, same, ventral view; H, same, retrolateral view; I, right Pa-Ti IV, prolateral view; J, same, ventral view. Scale bars: 1 cm.

opencc-by-4.0May 2022View details →

FIG. 3 in Gaming and divination pieces, markers of ownership, or all three? Zooarchaeology and the interpretation of knuckle bones found in tombs of the Iberian necropolis of El Poblado (Coimbra del Barranco Ancho, Murcia, Spain)

FIG. 3. — Minimum number of individuals (MNI) calculated from the astragali assemblage of Sheep (Ovis Aries Linnaeus, 1758), Goat (Capra hircus Linnaeus, 1758), Roe deer (Capreolus capreolus Linnaeus, 1758), Red deer (Cervus ela- phus Linnaeus, 1758) and Pig (Sus scrofa Linnaeus, 1758).

opencc-by-4.0May 2022View details →

FIG. 6 in Gaming and divination pieces, markers of ownership, or all three? Zooarchaeology and the interpretation of knuckle bones found in tombs of the Iberian necropolis of El Poblado (Coimbra del Barranco Ancho, Murcia, Spain)

FIG. 6. — Some examples of modified bone or ivory objects from Tomb 43. A, B, two imitation astragali in "plantar" and "lateral" view; C, different faces of the ivory dice recovered (according to Blasco Martín 2016: 249). Scale bar: 1 cm. Photo credit: J. Gómez Carrasco.