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Replication Data for: Ditransitive constructions in Russian and Ukrainian
No full textPublication abstract: This paper presents new experimental data on the acquisition of structures involving ditransitive verbs in two East Slavic languages: Russian and Ukrainian. The results of an elicited production task with adults and 3-6-year-old children show that the ordering of the two object arguments (DPdat and DPacc) is conditioned by the givenness of one of them. Similarly to adults, children place given recipients before themes, preferring the DPdat-DPacc word order in recipient-given contexts. However, unlike adults, they prefer this order in theme-given contexts as well. We propose that these findings might be indicative of a preference for the underlying syntactic structure in child grammars and/or for the use of prosodic means to express the same meaning, rather than a lack of knowledge of the pragmatic principle Given-before-New at this developmental stage.The full dataset consists of (1) experimental stimuli (ppt), (2) coded data in an excel file, (3) the R file with the statistical analysis (txt), and (4) a method description
Fluorescence microscopy videos of mitochondria in H9c2 cardiomyoblasts
No full textSeries of three-dimensional fluorescence microscopy videos of the rat cardiomyoblast cell-line H9c2.
Where indicated in the file name, the cells were adapted to galactose (galac). Normal growth conditions are with glucose (gluc).
The outer mitochondrial membranes are labelled with the double tag mCherry-EGFP-OMP-25TM (dTag), i.e., both a red and green fluorescent protein variant.
dTag can be used as a sensor for acidity (or lysosomal degradation), as the green fluorescence is lost sooner in an acidic environment than the red fluorescence.
Where indicated, the samples are additionally labelled with LysoTracker Deep Red (LTDR).
This data is a collection of fluorescence microscopy videos acquired to study the dynamics of mitochondria and the degradation of mitochondria in lysosomes.
Correlative transmission microscopy images (trans) were provided for machine learning to later enable label-free detection of mitochondria and lysosomes.
Each folder contains data from different experimental conditions:
mCh_eGFP_CCCP: mitochondrial outer membrane protein 25 is dually labelled using mCherry-EGFP.
The time-lapses in this folder can be used to study the effect of carbonyl cyanide m-chlorophenyl hydrazone (CCCP) (see more details under methodological information.)
mCh_eGFP_LTDR: mitochondrial outer membrane protein 25 is dually labelled using mCherry-EGFP and acidic compartments using Lysotracker deep red.
mCh_eGFP_LTDR_trans: mitochondrial outer membrane protein 25 is dually labelled using mCherry-EGFP and acidic compartments using Lysotracker deep red. The fluorescence data has correlative label-free brightfield/transmission images (channel 4).
mCh_eGFP_trans: mitochondrial outer membrane protein 25 is dually labelled using mCherry-EGFP.
The fluorescence data has correlative label-free brightfield/transmission images (channel 4)
Replication Data for: From Motion to Causation: The Diachrony of the Spanish Causative Constructions with traer (‘Bring’) and llevar (‘Take’)
No full textThe two annotated data files in this dataset were used to create the tables and graphs in the paper "From Motion to Causation: The Diachrony of the Spanish Causative Constructions with traer (‘Bring’) and llevar (‘Take’)". All the tokens, which span from the 12th to the 20th centuries, were retrieved from the Corpus del Diccionario Hisotórico (CDH) and belong to the geographical area of Spain. A first data file contains tokens of the Spanish causative constructions with "llevar" and "traer", composed by the following elements: [NP1 + llevar/traer + NP2 + a + infinitive]. The second data file contains tokens of two constructional variants of llevar/traer causative constructions, with the preposition "en" or with no preposition: [NP1 + llevar/traer + NP2 + en + infinitive] and [NP1 + llevar/traer + NP2 + infinitive]. The data from the first data file is annotated for (i) century, (ii) causative verb, (iii) animacy of the NP1, (iv) animacy of the NP2, (v) position of the NP2, (vi) position of adjuncts, (vii) lemma of the infinitive, (viii) presence of multiple infinitives and (ix) semantic class of the infinitive. The data from the second data file is annotated for (i) century, (ii) preposition and (iii) causative verb
Supporting Data for: Thermodynamics of NaCl in Dense Water Vapor via Cross Virial Coefficients
No full textThe data and programming files associated with the article 'Thermodynamics of NaCl in Dense Water Vapor via Virial Coefficients' by Lodin Ellingsen and Tore Haug-Warberg. The uploaded datafiles include:
Python implementation of the equation of state for the H2O–NaCl system.
Replication data for all the figures presented in the article.
Comprehensive explanation of the coordinate system utilized in the ab initio interaction energy calculations. This explanation specifically focuses on the roles and significance of the angular coordinates: theta_1, psi_1, phi, and theta_2.
Table containing the calculated ab initio interaction energies.
Table with solubility predictions in the vapor--halite coexistence region.
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Replication Data for: Spawning time in adult polar cod (Boreogadus saida) altered by crude oil exposure, independent of food availability
No full textThis data set represents the raw data findings from the AeN Fram Centre (MIKON) experiment exposing wild-caught polar cod (Boreogadus saida) adults to the water-soluble fraction (WSF) of crude oil or control conditions and either at a low or high feed ration over their spawning and post-spawning period. Samples were taken during late gonadal development, during active spawning, and in the post-spawning period. The experimental set-up consisted of oiled-rock columns to simulate an oil spill by delivering decreasing aqueous levels of oil compounds over time. The adult polar cod were captured in Southeastern Hinlopen (78° 55'N, 23° 40'E) in November 2017 and transferred to the aquaculture research station of UiT in Kårvika, Norway (69°23'N, 18°10'E) where they were acclimatized to laboratory conditions for one year before the experiment began. The experiment lasted 131 days and during this time, samples were taken on day 0, day 47, and day 131. Morphometric, histological, gene expression, PAH metabolite, and steroid hormone endpoints were measured. In addition to the data from the fish samples, this data set includes PAH levels in the water throughout the experiment, PAH levels in eggs retrieved from females at day 47, and tank conditions during the experiment. In addition, a subset of polar cod was sampled to determine the dry somatic weight to wet somatic weight ratio for polar cod, this data is also included. This work was supported by the Research Council of Norway under Grant 276730 (Nansen Legacy), Grant 248840 (dCod 1.0: decoding systems toxicology of Atlantic cod), and Grant 228107 (Research Centre for Arctic Petroleum Exploration), the Fram Centre (MIKON) under Project PARENTOX (2020) and Sensitivity of sexually matured polar cod (Boreogadus saida) to the water-soluble fraction of crude oil under low and high food regimes (2019)
Supporting Files for: Genome-wide hydroxymethylation profiles in liver of female Nile tilapia with distinct growth performance
No full textThis dataset is related to the scientific publication: "Genome-wide hydroxymethylation profiles in liver of female Nile tilapia with distinct growth performance".
Abstract of related publication: The mechanisms underlying the fast genome evolution that occurs during animal domestication are poorly understood. Here, we present a genome-wide epigenetic dataset that quantifies DNA hydroxymethylation at single nucleotide resolution among full-sib Nile tilapia (Oreochromis niloticus) with distinct growth performance. In total, we obtained 355 million, 75 bp reads from 5 large- and 5 small-sized fish on an Illumina NextSeq500 platform. We identified several growth-related genes to be differentially hydroxymethylated, especially within gene bodies and promoters. Previously, we proposed that DNA hydroxymethylation greatly affects the earliest responses to adaptation and potentially drives genome evolution through its targeted enrichment and elevated nucleotide transversion rates. This dataset can be analysed in various contexts (e.g., epigenetics, evolution and growth) and compared to other epigenomic datasets in the future, namely DNA methylation and histone modifications. With forthcoming advancements in genome research, this hydroxymethylation dataset will also contribute to better understand the epigenetic regulation of key genomic features, such as cis-regulatory and transposable elements.
Supplementary files 1a, 1b and 1c: show the DhmCs in gene bodies (1a), intergenic regions (1b) and uncharacterized genes (1c). Statistical analysis revealed 2,677 differentially hydroxymethylated cytosines (DhmCs; q
Supplementary File 2: list of genes involved in growth and metabolic functions which had higher DNA hydroxymethylation levels in large- than in small-sized individuals.
Supplementary Files 3 and 4: description and source code of software trim_galore v0.4.4 and bowtie v0.12.8 in CPP format (combined in one pdf file)
Supplementary Files 5 and 6: have been submitted to https://github.com/IoannisKonstantinidis/RRHP_Code.
Supplementary File 7: this compressed file contains all the necessary files for the visualization of the DNA hydroxymethylation dataset in IGV. The README file contains instructions to visualize the data. </p
Replication data for: Evidence of Arctic methane emissions across the mid-Pleistocene
No full textThis dataset contains replication data for "Evidence of Arctic methane emissions across the mid-Pleistocene". In particular, the data used and produced in the paper are listed below:
Table S1: Sediment samples from ODP Hole 912A utilized in this study for all the analyses performed (age model, benthic foraminifera analyses, microscopic and spectroscopic analyses of benthic foraminifera tests, stable isotopic data of planktonic and benthic foraminiferal species, biomarkers), sulphur, and ice rafted debris counting. Details can be found in Myhre et al., 1995 Proceedings of the Ocean Drilling program."
Table S2. Age model of ODP Hole 912A. The principal reference for the magnetostratigraphy is Myhre et al. (1995). Ages for magnetic chron boundaries are derived from Lourens et al. (2005). Abbreviations are: mbsf = meter below seafloor. Ma = million years ago. LSR = Linear sedimentation rate
Table S3. Carbon stable isotopes measured in planktonic (Neogloboquadrina pachyderma and N. atlantica) and benthic foraminifera (Cassidulina teretis-neoteretis, C. reniforme, Melonis barleeanus, Fursenkoina cf. acuta, and Stainforthis feylingi) in ODP Hole 912A. The analytical precision for these carbon measurements was estimated to be better than +0.03 ppm by measuring the certified standard NBS-19. We report all isotope results in standard delta notation relative to Vienna Pee Dee Belemnite (VPDB)
Table S4. Concentrations of selected AOM-related biomarkers of archaea (archaeol) and sulphate-reducing bacteria (iso (i-) and anteiso (ai-)-C15:0 fatty acids in ODP Hole 912A. delta13C stable isotopes of Archaeol (with the respective amount of sediment samples expressed in g) measured are also indicate
Table S5 - Total sulfur (TS) measured in samples from ODP Hole 912A
Table S6. Ice-rafted debris (IRD; size fraction 500-1000 µm) counted in samples from ODP Hole 912A
Table S7. Dropstones (Number per core) counted during the Ocean Drilling Program expedition (Myhre, A., et al. (1995). Proceedings of the Ocean Drilling Program. Initial Reports, College Station TX
Replication Data for: Spatial changes in gas transport and sediment stiffness influenced by regional stress: observations from piezometer data along Vestnesa Ridge, eastern Fram Strait
No full textThis database comprises piezometer pore-pressure and temperature data, analyses from Calypso sediment cores (grain sizes and logs) and results from geotechnical tests (index tests and oedometer tests), used for the study of seepage systems along the Vestnesa Ridge, in the eastern Fram Strait.
The data were collected over 2 research expeditions to the area. The reports for each of the expeditions can be accessed via Septentrio (https://septentrio.uit.no/index.php/cage):
- CAGE20-6 cruise report (https://doi.org/10.7557/cage.6918)
-CAGE19-3 cruise report (https://doi.org/10.7557/cage.6911)
In-situ pore fluid pressure (P) and temperature (T) were measured using the Ifremer piezometer which consists of a cable-deployed tool equipped with a sediment lance of 60 mm diameter carrying differential pore pressure (i.e., pore pressures in excess of hydrostatic pressures or excess pore pressure) and temperature sensors ( e.g., In situ equilibrium pore-water pressures derived from partial piezoprobe dissipation tests in marine sediments, Canadian Geotechnical Journal, 50(12), 1294-1305).
Calypso cores were taken for correlation with piezometer data using the Calypso Giant Piston Corer operated by the Norwegian Institute for Marine research and the University of Bergen.
Density, P-wave velocity and magnetic susceptibility (MS) logs on the unsplit sections were registered using the multi sensor core logger (MSCL) at UiT – The Arctic University of Norway in Tromsø. The upper 9 m of the calypso cores were subsampled in 1-cm thick slices at 10 cm intervals in cores C-4 and C-12. Core C-5 was subsampled every 20 cm, except between 4 to 5 m depth where the sampling was performed every 10 cm. The textural characteristics of the sediments were determined through wet sieving at 63 µm to separate the mud fraction (clay and silt) from the fractions coarser than 63 microns (sand, grains and pebbles).
Oedometer tests with constant rate of strain (CRS) were conducted at whole-around sub-samples from 2 depth intervals along each core at the labs by the Norwegian Geotechnical Institute (NGI). In addition, oedometer tests with incremental loading according to the ASTM D-2435 method were performed on 10 samples at Ifremer at approximately each 2-meter through the upper 9 m of core from sites 5 and 12
Replication Data for: Widespread natural methane and oil leakage from sub-marine Arctic reservoirs
No full textThe dataset contains replication data for scientific article "Widespread natural methane and oil leakage from sub-marine Arctic reservoirs" in Nature Communications journal. Specifically, it contains multibeam echosunder data and CTD data acquired during CAGE 19-2 and CAGE 20-2 research cruises
Replication data for: Revised Minoan eruption volume as benchmark for large volcanic eruptions
No full textThis dataset includes all CT, density, and grain size analyses presented in Fig. S3 of Supplement 2 in Karstens et al. 2023 – published in Nature Communications. The data derive from two marine sediment cores from the Eastern Mediterranean: 1m long sections of POS-513-20 (36 °N, 26 °E) and POS-513-41 (36 °N, 27 °E) that contain volcaniclastic deposits from the Minoan eruption. These data were generated using a muffle furnace (bulk density), Mastersizer 3000 (grain size), and ProCon CT ALPHA scanner (CT data) in the EARTHLAB facility of the University in Bergen (UiB). All of these data are shown in Fig. S3 of Supplement 2, but also in Fig. 1 of the main text. Additional details may be found in our readme file. (2023-03-06)