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opencc-zeroDec 2016View details →

Data from: Three-dimensional morphological analysis of a Parahaentzschelinia-like trace fossil

Serial grinding and three-dimensional reconstruction of aff. Parahaentzschelinia trace fossils from the Ordovician Winterhouse Formation reveals complex tiered network systems associated with more typical Parahaentzschelinia-like conical bundles of sub-vertical tubes. The morphological complexity of the burrow system is interpreted as an indication of the diverse behaviour of the trace-making organism. This organism is inferred to have exploited organic matter within the sand-rich event beds as well as in muddier beds above and below the sandstone beds using a variety of behaviours. Potential burrow irrigation and microbial cultivation associated with gardening behaviour is also inferred. The trace-making organism is unknown, but comparisons are drawn between the structures observed herein and those produced by both modern polychaetes and bivalves.

opencc-zeroMar 2020View details →

Spatial point pattern analysis of traces (SPPAT): an approach for visualizing and quantifying site-selectivity patterns of drilling predators

Site-selectivity analysis in drilling predation may provide useful behavioral information of a predator interacting with its prey. However, traditional approaches exclude some spatial information (i.e., oversimplified trace position) and are dependent on the scale of analysis (e.g., arbitrary grid system used to divide the prey skeleton into sectors). Here we introduce the spatial point pattern analysis of traces (SPPAT), an approach for visualizing and quantifying the distribution of traces on shelled invertebrate prey, which includes improved collection of spatial information inherent to drillhole location (morphometric-based estimation), improved visualization of spatial trends (Kernel density and hotspot mapping), and distance-based statistics for hypothesis testing (K-, L-, and pair correlation functions). We illustrate the SPPAT approach through case studies of fossil samples, modern beach-collected samples, and laboratory feeding trials of naticid gastropod predation on bivalve prey. Overall results show that Kernel density and hotspot maps enable visualization of subtle variations in regions of the shell with higher density of predation traces, which can be combined with the maximum clustering distance metric to generate hypotheses on predatory behavior and anti-predatory responses of prey across time and geographic space. Distance-based statistics also capture the major features in the distribution of traces across the prey skeleton, including aggregated and segregated clusters, likely associated with different combinations of two modes of drilling predation, edge- and wall-drilling. The SPPAT approach is transferrable to other paleoecologic and taphonomic data such as encrustation and bioerosion, allowing for standardized investigation of a wide range of biotic interactions.

opencc-zeroDec 2014View details →

Data from: Experimental exposure to trace metals affects plumage bacterial community in the feral pigeon

Bacteria are fundamental associates of animals, and recent studies have highlighted their major role in host behaviour, immunity or reproductive investment. Thus, any environmental factor modifying bacterial community may affect host fitness. In birds, trace metals emitted by anthropogenic activities accumulate onto the plumage where they may alter bacterial community and ultimately affect bird fitness. Although trace metals are current major environmental issues in urban habitats, their effects on feather bacterial community have never been investigated. Here, we supplemented feral pigeons Columba livia, an emblematic urban species, with zinc and/or lead in drinking and bath water. As expected, lead and zinc supplementations modified plumage bacterial community composition. Zinc decreased bacterial load, while lead decreased bacterial richness and the frequency of preening behaviour in birds, known to regulate feather bacteria. Our results demonstrate for the first time the effects of common urban trace metals on plumage bacterial community and shed light on one of the mechanisms by which trace metals can affect bird fitness. Further studies are now needed to investigate how this effect modulates avian life history traits known to depend on plumage bacterial community.

opencc-zeroDec 2013View details →

Data from: Tracing the origins of Calanus sp. in the Saguenay‑St. Lawrence Marine Park (Québec, Canada) using δ13C as a marker

The Saguenay-St. Lawrence Marine Park (SSLMP) is a region that sustains a high abundance of zooplankton. The connectivity between zooplankton populations within the SSLMP and the surrounding areas was investigated for Calanus finmarchicus and C. hyperboreus. Deep-dwelling stage V copepodites (CVs) were collected in the Marine Park as well as in putative source regions in the St. Lawrence system in July 2009 (a time when they were entering into diapause). In May 2010, at the end of the overwintering period, diapausing CVs were sampled again in the Marine Park. To discriminate the origins and to predict the probable regions of origin of these deep-dwelling diapausing CVs in the SSLMP, a quadratic discriminant function analysis (QDFA) was performed. The classification algorithm was based on the carbon isotopic composition (δ13C) and percent carbon (%C) of individual copepods, as these variables are conservative when lipids are extracted prior to analysis. Our results suggest that about 23% of the Calanus spp. population sampled in SSLMP in late spring 2010 originated from the Saguenay Fjord (inside the SSLMP). The remainder of this population originated from regions outside the SSLMP, including the Lower St. Lawrence Estuary, and likely further east in the Gulf of St. Lawrence. Our results revealed high connectivity across the Saguenay and the St. Lawrence systems, as well as the potential for significant local production and recruitment of Calanus spp. within the Saguenay Fjord. This study also revealed the effectiveness of using δ13C as a marker in delineating the origin of Calanus spp., which has a relatively long non-feeding overwintering and diapausing period making it amenable to the conservation of isotopic signatures.

opencc-zeroDec 2012View details →

Data from: Tracing horizontal Wolbachia movements among bees (Anthophila): a combined approach using multilocus sequence typing data and host phylogeny

The endosymbiotic bacterium Wolbachia enhances its spread via vertical transmission by generating reproductive effects in its hosts, most notably cytoplasmic incompatibility (CI). Additionally, frequent interspecific horizontal transfer is evident from a lack of phylogenetic congruence between Wolbachia and its hosts. The mechanisms of this lateral transfer are largely unclear. To identify potential pathways of Wolbachia movements, we performed multilocus sequence typing of Wolbachia strains from bees (Anthophila). Using a host phylogeny and ecological data, we tested various models of horizontal endosymbiont transmission. In general, Wolbachia strains seem to be randomly distributed among bee hosts. Kleptoparasite-host associations among bees as well as other ecological links could not be supported as sole basis for the spread of Wolbachia. However, cophylogenetic analyses and divergence time estimations suggest that Wolbachia may persist within a host lineage over considerable timescales and that strictly vertical transmission and subsequent random loss of infections across lineages may have had a greater impact on Wolbachia strain distribution than previously estimated. Although general conclusions about Wolbachia movements among arthropod hosts cannot be made, we present a framework by which precise assumptions about shared evolutionary histories of Wolbachia and a host taxon can be modelled and tested.

opencc-zeroDec 2015View details →

Data from: Whole organism lineage tracing by combinatorial and cumulative genome editing

Multicellular systems develop from single cells through distinct lineages. However, current lineage-tracing approaches scale poorly to whole, complex organisms. Here, we use genome editing to progressively introduce and accumulate diverse mutations in a DNA barcode over multiple rounds of cell division. The barcode, an array of clustered regularly interspaced short palindromic repeats (CRISPR)/Cas9 target sites, marks cells and enables the elucidation of lineage relationships via the patterns of mutations shared between cells. In cell culture and zebrafish, we show that rates and patterns of editing are tunable and that thousands of lineage-informative barcode alleles can be generated. By sampling hundreds of thousands of cells from individual zebrafish, we find that most cells in adult organs derive from relatively few embryonic progenitors. In future analyses, genome editing of synthetic target arrays for lineage tracing (GESTALT) can be used to generate large-scale maps of cell lineage in multicellular systems for normal development and disease.

opencc-by-4.0Dec 2023View details →

Raw traces of HC ripple

For the PDF: Randomly selected 10 learning ripple traces, 10 sleep ripple traces and 10 spindle traces for each subject. The red line indicates the occurrence of the ripple/spindle. For the .mat file: Two tables (contains information of ripple) and the raw LFP of hippocampus. The data was exported by Matlab 2019b.

opencc-by-4.0Jun 2013View details →

Gas phase acid, ammonia and aerosol ionic and trace element concentrations at Cape Verde during the Reactive Halogens in the Marine Boundary Layer (RHaMBLe) 2007 intensive sampling period

The data files are in NASA Ames Format. A full description of the data set has been published in the journal Earth System Science Data at http://www.earth-syst-sci-data.net/5/385.

Time traces for axisymmetric Hann defects

Time trace data in Matlab format as described in PRSA paper by P Huthwaite, 2016, 'Improving accuracy through density correction in guided wave tomography', sect 7.

Moca: An efficient Memory trace collection system, preliminary experiments results analysis

Every files required to replay the statistic analysis of the preliminary experiments for the artice: "Moca: An efficient Memory trace collection system" submitted at HPDC

Moca: An efficient Memory trace collection system, experiments raw traces

Raw traces generated for preliminary experiment of  the article "Moca: An efficient Memory trace collection system" submitted at HPDC'16.   Download and extract the raw.tgz archive, then go to the hpdc directory, download and extract all the other archives inside it.   Warning: there are about 80 Gib of raw traces

Moca: An efficient Memory trace collection system, experiments raw traces

Raw traces generated for by the experiment of  the article "Moca: An efficient Memory trace collection system" submitted at PMBS'16. Download and extract the raw.tgz archive, then go to the created directory, download and extract all the other archives inside it. Warning: there are about 90 Gib of raw traces

opencc-zeroFeb 2016View details →

Moca: An efficient Memory trace collection system, experiments results analysis

Every files required to replay the statistic analysis of the experiments presented in the artice: "Moca: An efficient Memory trace collection system" submitted at PMBS'16

opennotspecifiedDec 2015View details →

FIGURE 18. Austroplebeia wings. Dotted lines indicate pigmented vein traces. Figs a–c in Australian and New Guinean Stingless Bees of the Genus Austroplebeia Moure (Hymenoptera: Apidae) — a revision

FIGURE 18. Austroplebeia wings. Dotted lines indicate pigmented vein traces. Figs a–c. Forewings, showing variation observed in the vestige of the first transverse cubital vein: a, A. magna sp. nov. forewing with a short vein vestige; b, Detail of an A. australis–Eastern Colour Morph forewing with a thickening of vein M at this position; c, Detail of an A. australis–Eastern Colour Morph forewing with a long vein vestige. Fig. d. Hindwing of A. magna sp. nov. Fig. e. Diagram of a forewing showing how the following measurements were made: (1) forewing length without tegula; (2) forewing width; (3) wing diagonal (Sakagami 1978); (4) 1st abscissa of M length; (5) 1st abscissa of Cu length. Figs a–d drawn to same scale: scale bar = 0.25 mm. Abbreviations: M—vein M; 1st R—first recurrent vein; 2nd Cu—second cubital cell; Ham—hamuli.

opencc-by-4.0Mar 2017View details →

LTTng Execution traces for ten Phoronix benchmarks (part1)

The nine zip files contain the LTTng execution traces for the nine Phoronix benchmarks compress-gzip, ffmpeg, iozone, phpbench, pybench, ramspeed, scimark2, stream and unpack-linux. The traces have been generated on a desktop machine with a x86-64 Xeon E3-1225@3.20GHz processor, 32GB of memory, Gigabit Ethernet connection and SSD storage Each zip file contains 32x3 traces : 3 tracing configurations, 32 runs per configuration. - the all-events configuration traces the kernel. - the libc configuration traces memory-related function calls (malloc, free, ...) - the perf-trace configuration traces the hardware counters for memory accesses (L1-dcache-loads, L1-dcache-stores) and for instructions (Instructions). The traces for the network-loopback benchmark can be downloaded from https://doi.org/10.5281/zenodo.437179 and https://doi.org/10.5281/zenodo.437207. Traces for the ten benchmarks captured on a Juno board may be accessed at https://doi.org/10.5281/zenodo.437207

opencc-by-4.0Mar 2017View details →

LTTng Execution traces for ten Phoronix benchmarks (part 3)

The network-loopback.zip2 file contains the second part of the LTTng execution traces for the network-loopback Phoronix benchmark. The traces have been generated on a desktop machine with a x86-64 Xeon E3-1225@3.20GHz processor, 32GB of memory, Gigabit Ethernet connection and SSD storage Each zip file contains 32x3 traces : 3 tracing configurations, 32 runs per configuration. - the all-events configuration traces the kernel. - the libc configuration traces memory-related function calls (malloc, free, ...) - the perf-trace configuration traces the hardware counters for memory accesses (L1-dcache-loads, L1-dcache-stores) and for instructions (Instructions). To obtain the full set of execution traces for the benchmark, you should also download the file at LTTng Execution traces for ten Phoronix benchmarks (part 2) (https://doi.org/10.5281/zenodo.437179) and concatenate the two files (cat network-loopback.zip1 network-loopback.zip2 > network-loopback.zip) The traces for the nine other Phoronix benchmarks, captured on the x86 machine, can be downloaded from https://doi.org/10.5281/zenodo.437170. The file juno.zip contains the traces generated on a Juno board ({http://www.arm.com/products/tools/development-boards/). It has one dual core Cortex-A57 processor, one quad core Cortex-A53 processor, 8GB of memory, Gigabit Ethernet connection and SSD storage. The traces correspond to one run per configuration (all-events, libc, perf-trace) for the ten Phoronix benchmarks (compress-gzip, ffmpeg, iozone, network-loopback, phpbench, pybench, ramspeed, scimark2, stream, unpack-linux). In total there are therefore 3x10 = 30 traces.

opencc-by-4.0Mar 2017View details →

LTTng Execution traces for ten Phoronix benchmarks (part 2)

The zip file contains the first part of the LTTng execution traces for the network-loopback Phoronix benchmark. The traces have been generated on a desktop machine with a x86-64 Xeon E3-1225@3.20GHz processor, 32GB of memory, Gigabit Ethernet connection and SSD storage Each zip file contains 32x3 traces : 3 tracing configurations, 32 runs per configuration. - the all-events configuration traces the kernel. - the libc configuration traces memory-related function calls (malloc, free, ...) - the perf-trace configuration traces the hardware counters for memory accesses (L1-dcache-loads, L1-dcache-stores) and for instructions (Instructions). To obtain the full set of execution traces for the benchmark, you should also download the file at LTTng Execution traces for ten Phoronix benchmarks (part 3) (https://doi.org/10.5281/zenodo.437207) and concatenate the two files (cat network-loopback.zip1 network-loopback.zip2 > network-loopback.zip). The traces for the nine other Phoronix benchmarks, captured on the x86 machine, can be downloaded from https://doi.org/10.5281/zenodo.437170.

opencc-by-4.0May 2017View details →

Packet reception traces from the WSN-Testbed at the I4, Friedrich-Alexander University Erlangen-Nuremberg

This is a 24h packet reception trace from an office-based WSN-Testbed at the I4, Friedrich-Alexander University Erlangen-Nuremberg. 9 Tmote Sky node were set to continuous receive packets. The data was collected using statprinter.c, which is part of the code provided with https://doi.org/10.5281/zenodo.582277. The attached files represent the raw data (.log), as well as a processed version (.log.csv) The trace was was stated on 2014-04-09.

opengpl-3.0-or-laterNov 2024View details →

data and code for Machine Learning-based Denoising of Surface Solar Irradiance simulated with Monte Carlo Ray Tracing

Data and radiative transfer code used for the manuscript "Machine Learning-based Denoising of Surface Solar Irradiance simulated with Monte Carlo Ray Tracing". See Readme for details