cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.20161519
title: Assessment methods for inter-laboratory comparisons of the dicentric assay

description: To test the performance of different algorithms that can be used in inter-laboratory comparisons based on dicentric chromosome analysis, and to evaluate the impact of considering <i>a priori</i> values different to calculate individual laboratory performance based on the ionizing radiation dose estimation. Mean and standard deviation estimations in inter-laboratory comparisons are tested on simulated data and data from previously published inter-laboratory comparisons using three robust algorithms, Algorithm A, Algorithm B and Q/Hampel, all programmed in R-project language and implemented in a Shiny application. The simulated data were generated assuming three different probabilities to contaminate inter-laboratory comparisons samples with atypical dose values. Comparison between different algorithms was also done using published exercises where blood samples were irradiated at 0 and 0.7 Gy that represent a challenge for the assessment of an inter-laboratory comparison. The best performance was obtained with the Q/Hampel algorithm for the estimation of the dose mean and with the Algorithm B for the estimation of the dose standard deviation under the conditions tested in the simulations. The Q/Hampel algorithm showed the best performance when non-irradiated samples were evaluated and there was a high proportion of identical values. The presence identical values cause the Algorithm B to fail. Real examples illustrating the need to consider standard deviation priors, and the need to use algorithms resistant to a high proportion of identical values are presented. Q/Hampel algorithm is a serious candidate to estimate the dose mean in the inter-laboratory comparisons, and to estimate both parameters when the proportion of identical values equals or higher than the half of the results. When the proportion of identical values is less than the half of the results, the Algorithm B should be considered as a candidate to estimate the standard deviation in the inter-laboratory comparisons with small number of laboratories. We remark that special attention is needed to establish prior definitions of standard deviation in the assessment of inter-laboratory dicentric assay comparisons.
DOI: 10.6084/m9.figshare.20161519.v2
title: Assessment methods for inter-laboratory comparisons of the dicentric assay

description: To test the performance of different algorithms that can be used in inter-laboratory comparisons based on dicentric chromosome analysis, and to evaluate the impact of considering <i>a priori</i> values different to calculate individual laboratory performance based on the ionizing radiation dose estimation. Mean and standard deviation estimations in inter-laboratory comparisons are tested on simulated data and data from previously published inter-laboratory comparisons using three robust algorithms, Algorithm A, Algorithm B and Q/Hampel, all programmed in R-project language and implemented in a Shiny application. The simulated data were generated assuming three different probabilities to contaminate inter-laboratory comparisons samples with atypical dose values. Comparison between different algorithms was also done using published exercises where blood samples were irradiated at 0 and 0.7 Gy that represent a challenge for the assessment of an inter-laboratory comparison. The best performance was obtained with the Q/Hampel algorithm for the estimation of the dose mean and with the Algorithm B for the estimation of the dose standard deviation under the conditions tested in the simulations. The Q/Hampel algorithm showed the best performance when non-irradiated samples were evaluated and there was a high proportion of identical values. The presence identical values cause the Algorithm B to fail. Real examples illustrating the need to consider standard deviation priors, and the need to use algorithms resistant to a high proportion of identical values are presented. Q/Hampel algorithm is a serious candidate to estimate the dose mean in the inter-laboratory comparisons, and to estimate both parameters when the proportion of identical values equals or higher than the half of the results. When the proportion of identical values is less than the half of the results, the Algorithm B should be considered as a candidate to estimate the standard deviation in the inter-laboratory comparisons with small number of laboratories. We remark that special attention is needed to establish prior definitions of standard deviation in the assessment of inter-laboratory dicentric assay comparisons.
DOI: 10.6084/m9.figshare.20032216
title: Transgenerational changes in <i>Daphnia magna</i> under radio frequency radiation in the juvenile and puberty period

description: To analyze the results of direct and transgenerational effects of radio frequency electromagnetic fields (RF-EMF) on the model organism of crustaceans <i>Daphnia magna</i>. <i>D. magna</i> were chronically exposed at 900 GHz EMF with an energy flux density (EFD) of about 1 mW/cm<sup>2</sup> in the juvenile and pubertal periods of their ontogenesis. The cytotoxicity of exposure as well as survival, fertility and teratogenic effect of directly exposed daphnids and their progeny across three generations were analyzed. The results of our study show that exposure of RF-EMF at juvenile period can significantly affect the fertility and size of irradiated daphnids and their offspring of the first generation. The decrease in fertility may be associated with a cytotoxic effect on the cells of irradiated animals. The reduction in the size of the terminal spine and the body of individuals is an indicator of the negative impact of radiation on the protective strategy of the crustacean population. The reproductive process is restored by the second generation. The results of our study provide further insights into the possible mechanisms underlying the in vivo effects of RF-EMF.
DOI: 10.6084/m9.figshare.20032216.v1
title: Transgenerational changes in <i>Daphnia magna</i> under radio frequency radiation in the juvenile and puberty period

description: To analyze the results of direct and transgenerational effects of radio frequency electromagnetic fields (RF-EMF) on the model organism of crustaceans <i>Daphnia magna</i>. <i>D. magna</i> were chronically exposed at 900 GHz EMF with an energy flux density (EFD) of about 1 mW/cm<sup>2</sup> in the juvenile and pubertal periods of their ontogenesis. The cytotoxicity of exposure as well as survival, fertility and teratogenic effect of directly exposed daphnids and their progeny across three generations were analyzed. The results of our study show that exposure of RF-EMF at juvenile period can significantly affect the fertility and size of irradiated daphnids and their offspring of the first generation. The decrease in fertility may be associated with a cytotoxic effect on the cells of irradiated animals. The reduction in the size of the terminal spine and the body of individuals is an indicator of the negative impact of radiation on the protective strategy of the crustacean population. The reproductive process is restored by the second generation. The results of our study provide further insights into the possible mechanisms underlying the in vivo effects of RF-EMF.
DOI: 10.6084/m9.figshare.20161519.v1
title: Assessment methods for interlaboratory comparisons of the dicentric assay

description: To test the performance of different algorithms that can be used in interlaboratory comparisons based on dicentric chromosome analysis, and to evaluate the impact of considering <i>a priori</i> values different to calculate individual laboratory performance based on the ionizing radiation dose estimation. Mean and standard deviation estimations in inter-laboratory comparisons are tested on simulated data and data from previously published inter-laboratory comparisons using three robust algorithms, algorithm A, Algorithm B and Q/Hampel, all programmed in R-project language and implemented in a Shiny application. The simulated data were generated assuming three different probabilities to contaminate inter-laboratory comparisons samples with atypical dose values. Comparison between different algorithms was also done using published exercises where blood samples were irradiated at 0 and 0.7 Gy that represent a challenge for the assessment of an inter-laboratory comparison. The best performance was obtained with the Q/Hampel algorithm for the estimation of the dose mean and with the algorithm B for the estimation of the dose standard deviation under the conditions tested in the simulations. The Q/Hampel algorithm showed the best performance when non-irradiated samples were evaluated and there was a high proportion of identical values. The presence identical values causes the Algorithm B to fail. Real examples illustrating the need to consider standard deviation priors, and the need to use algorithms resistant to a high proportion of identical values are presented. Q/Hampel algorithm is a serious candidate to estimate the dose mean in the inter-laboratory comparisons, and to estimate both parameters when the proportion of identical values equals or higher than the half of the results. When the proportion of identical values is less than the half of the results, the Algorithm B should be considered as a candidate to estimate the standard deviation in the inter-laboratory comparisons with small number of laboratories. We remark that special attention is needed to establish prior definitions of standard deviation in the assessment of inter-laboratory dicentric assay comparisons.
DOI: 10.5517/ccdc.csd.cc292k43
title: CCDC 2117614: Experimental Crystal Structure Determination

description: Related Article: Yu Mao, Xiao-Gang Chen, Zhu-xiao Gu, Zhi-Xu Zhang, Xian-Jiang Song, Ning Gu, Ren-Gen Xiong|2022|Angew.Chem.,Int.Ed.|61|e202204135|doi:10.1002/anie.202204135
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc292k54
title: CCDC 2117615: Experimental Crystal Structure Determination

description: Related Article: Yu Mao, Xiao-Gang Chen, Zhu-xiao Gu, Zhi-Xu Zhang, Xian-Jiang Song, Ning Gu, Ren-Gen Xiong|2022|Angew.Chem.,Int.Ed.|61|e202204135|doi:10.1002/anie.202204135
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5281/zenodo.7658784
title: Data for threshold plot in "Finite-rate sparse quantum codes aplenty"

description: This dataset contains the quantum error correcting codes that were sampled to render the threshold plot under the erasure noise channel in the article. They are sorted by batch corresponding to different jobs on the computing cluster. Each batch contains many codes sorted by length. There are also three extra metadata files. The inputs that were given to sample codes (inputs.json), the CSP solver output (output.csv) and the result of the decoding simulation (decoding.json). Each file named code.json contains the sparse list of X and Z stabilizers. That is, each stabilizer is given by a list of integers corresponding to the index of the qubits supporting the stabilizer.
description: {"references": ["Tremblay, Duclos-Cianci and Kourtis. arxiv:2207.03562"]}
DOI: 10.5281/zenodo.7658783
title: Data for threshold plot in "Finite-rate sparse quantum codes aplenty"

description: This dataset contains the quantum error correcting codes that were sampled to render the threshold plot under the erasure noise channel in the article. They are sorted by batch corresponding to different jobs on the computing cluster. Each batch contains many codes sorted by length. There are also three extra metadata files. The inputs that were given to sample codes (inputs.json), the CSP solver output (output.csv) and the result of the decoding simulation (decoding.json). Each file named code.json contains the sparse list of X and Z stabilizers. That is, each stabilizer is given by a list of integers corresponding to the index of the qubits supporting the stabilizer.
description: {"references": ["Tremblay, Duclos-Cianci and Kourtis. arxiv:2207.03562"]}
DOI: 10.25345/c51r6n96g
title: MassIVE MSV000091335 - Acute ACAT1/SOAT1 blockade increases MAM cholesterol and strengthens ER-mitochondria connectivity
title: Department of Biochemistry and Cell Biology, Geisel School of Medicine at Dartmouth College, Hanover NH;
DOI: 10.5281/zenodo.7651373
title: Downloads

description: Downloads
DOI: 10.5281/zenodo.7651392
title: Downloads

description: Downloads
DOI: 10.5281/zenodo.7651455
title: Downloads

description: Downloads
DOI: 10.5281/zenodo.7657699
title: Downloads

description: Downloads
DOI: 10.5281/zenodo.7659066
title: Downloads

description: Downloads
DOI: 10.5281/zenodo.7659135
title: Downloads

description: Downloads
DOI: 10.5281/zenodo.7651372
title: Downloads

description: Downloads
DOI: 10.5281/zenodo.7659142
title: Downloads

description: Downloads
DOI: 10.5281/zenodo.7662299
title: Downloads

description: Downloads
DOI: 10.5281/zenodo.7662309
title: Downloads

description: Downloads
DOI: 10.17909/9a2g-sj78
title: GLASS-JWST NIRSPEC dataset
DOI: 10.6084/m9.figshare.22137572
title: List of recent papers

description: List of recent papers puiblished.
DOI: 10.5281/zenodo.7607926
title: Data for "Cubic or not Cubic? Combined Experimental and Computational Investigation of the Short-Range Order of Tin Halide Perovskites"

description: The dataset contains various structural models of tin halide perovskites coming from fitting PDF measurements and from molecular dynamics.
DOI: 10.5281/zenodo.7607925
title: Data for "Cubic or not Cubic? Combined Experimental and Computational Investigation of the Short-Range Order of Tin Halide Perovskites"

description: The dataset contains various structural models of tin halide perovskites coming from fitting PDF measurements and from molecular dynamics.
DOI: 10.6084/m9.figshare.19017447
title: Effects of environmental low-dose irradiation on functional-metabolic organ responses in a natural mouse population (<i>Apodemus agrarius</i> Pallas, 1771) within the East Urals Radioactive Trace (EURT) area, Russia

description: The level of radiation-induced functional metabolic reactivity can differ among organs (spleen, liver and myocardium) and reproductive-sexual groups (breeding and non-breeding under-yearlings: females and males). We analyzed <i>Apodemus agrarius</i> individuals captured in the zone of the East Urals Radioactive Trace (EURT, Russia). In this area, concentrations are <sup>90</sup>Sr and <sup>137</sup>Cs at 10,000 and 1000 Bq/kg, respectively, in a layer of soil not deeper than 10 cm. Comparative analysis was based on six biochemical parameters including the glycolysis level, peroxidation of lipids, H<sub>2</sub>O<sub>2</sub>-oxidoreductase status and concentrations of protein, DNA and RNA in tissues. External and internal doses of <sup>137</sup>Cs and <sup>90</sup>Sr for <i>A. agrarius</i> varied by an order of magnitude, from 0.013 to 0.177 mGy/d. The level of radiation exposure was found to not differ among females but it differed between the two male reproductive groups (breeding &lt; non-breeding under-yearlings). Sexually mature males received a significantly lower dose than females. An increase in the dose rate correlated with an increase in all biochemical indicators, thus indicating high level of tissue metabolic functions. The reproductive status of females did not affect their radiation-induced organ response rate, whereas the response to radiation of breeding males was more than 1.5-fold higher than that of non-breeding males and 2-fold higher than that of females. We believe that the variation of the dose load is due to migration processes: breeding males are more likely to migrate than females and therefore have less contact with radionuclides. The higher the response to radiation of breeding males can be explained by a hormonal factor: testosterone causes radiosensitivity. The reactivity of the tissues examined (myocardium &lt; liver &lt; spleen) develops apparently in accordance with the degree of their ‘staticity’ in accordance with the law of radiosensitivity of Bergonié and Tribondeau.
DOI: 10.6084/m9.figshare.19017447.v1
title: Effects of environmental low-dose irradiation on functional-metabolic organ responses in a natural mouse population (<i>Apodemus agrarius</i> Pallas, 1771) within the East Urals Radioactive Trace (EURT) area, Russia

description: The level of radiation-induced functional metabolic reactivity can differ among organs (spleen, liver and myocardium) and reproductive-sexual groups (breeding and non-breeding under-yearlings: females and males). We analyzed <i>Apodemus agrarius</i> individuals captured in the zone of the East Urals Radioactive Trace (EURT, Russia). In this area, concentrations are <sup>90</sup>Sr and <sup>137</sup>Cs at 10,000 and 1000 Bq/kg, respectively, in a layer of soil not deeper than 10 cm. Comparative analysis was based on six biochemical parameters including the glycolysis level, peroxidation of lipids, H<sub>2</sub>O<sub>2</sub>-oxidoreductase status and concentrations of protein, DNA and RNA in tissues. External and internal doses of <sup>137</sup>Cs and <sup>90</sup>Sr for <i>A. agrarius</i> varied by an order of magnitude, from 0.013 to 0.177 mGy/d. The level of radiation exposure was found to not differ among females but it differed between the two male reproductive groups (breeding &lt; non-breeding under-yearlings). Sexually mature males received a significantly lower dose than females. An increase in the dose rate correlated with an increase in all biochemical indicators, thus indicating high level of tissue metabolic functions. The reproductive status of females did not affect their radiation-induced organ response rate, whereas the response to radiation of breeding males was more than 1.5-fold higher than that of non-breeding males and 2-fold higher than that of females. We believe that the variation of the dose load is due to migration processes: breeding males are more likely to migrate than females and therefore have less contact with radionuclides. The higher the response to radiation of breeding males can be explained by a hormonal factor: testosterone causes radiosensitivity. The reactivity of the tissues examined (myocardium &lt; liver &lt; spleen) develops apparently in accordance with the degree of their ‘staticity’ in accordance with the law of radiosensitivity of Bergonié and Tribondeau.
DOI: 10.6084/m9.figshare.19411901
title: Radiation responses of cancer and normal cells to split dose fractions with uniform and grid fields: increasing the therapeutic ratio

description: Radiation treatment of cancer is usually delivered in a prescribed sequence of dose fractions within which the dependence of dose on time is determined by the treatment plan. New techniques, such as stereotactic body radiation therapy (SBRT) and image guided radiation therapy (IGRT) have been introduced with the motivation of improving therapeutic outcomes, with the consequence that the time dependence of the dose within a fraction is modified. Here, we test whether an increased toxicity to cancer cells arises when a radiation treatment fraction is delivered in two equal parts, allowing time for the expression of factors, for example, RONS and cytokines, in response to the first dose which may sensitize cells to the second dose. A medium time delay between 15 and 60 minutes is proposed to allow factors to be expressed before repair takes place. A grid field is used to enhance diffusion of the factors. The cell lines used in the study were two prostate cancers (LNCaP and DU 145), a normal prostate (PNT1A), a non-small cell lung cancer (NCI-H460), and a glioma (Hs 683). Uniform or spatially modulated grid fields, delivering the same mean dose, were used. The results for the clonogenic survival fractions were grouped into a ‘short’ delay (under 10 minutes) and a ‘medium’ delay (between 15 and 60 minutes). The medium delay with a grid field yielded a significant increase in toxicity for the four cancer cell lines. The medium delay with a uniform field gave a significant increase in toxicity for the two prostate cancer cell lines. A highly significant increase was found in the therapeutic ratio, defined as the ratio of the survival of prostate normal to prostate cancer cells. The findings show that the intra-fractional dose schedule with medium time delay offers an opportunity to increase the toxicity of radiation to cancer cells, relative to a single radiation delivery. For all cancer cell lines, a grid field gives a greater toxic effect than a uniform field. The split dose treatment offers an increase in cancer toxicity while preserving normal cells, improving the outcomes of a treatment.
DOI: 10.6084/m9.figshare.19411901.v1
title: Radiation responses of cancer and normal cells to split dose fractions with uniform and grid fields: increasing the therapeutic ratio

description: Radiation treatment of cancer is usually delivered in a prescribed sequence of dose fractions within which the dependence of dose on time is determined by the treatment plan. New techniques, such as stereotactic body radiation therapy (SBRT) and image guided radiation therapy (IGRT) have been introduced with the motivation of improving therapeutic outcomes, with the consequence that the time dependence of the dose within a fraction is modified. Here, we test whether an increased toxicity to cancer cells arises when a radiation treatment fraction is delivered in two equal parts, allowing time for the expression of factors, for example, RONS and cytokines, in response to the first dose which may sensitize cells to the second dose. A medium time delay between 15 and 60 minutes is proposed to allow factors to be expressed before repair takes place. A grid field is used to enhance diffusion of the factors. The cell lines used in the study were two prostate cancers (LNCaP and DU 145), a normal prostate (PNT1A), a non-small cell lung cancer (NCI-H460), and a glioma (Hs 683). Uniform or spatially modulated grid fields, delivering the same mean dose, were used. The results for the clonogenic survival fractions were grouped into a ‘short’ delay (under 10 minutes) and a ‘medium’ delay (between 15 and 60 minutes). The medium delay with a grid field yielded a significant increase in toxicity for the four cancer cell lines. The medium delay with a uniform field gave a significant increase in toxicity for the two prostate cancer cell lines. A highly significant increase was found in the therapeutic ratio, defined as the ratio of the survival of prostate normal to prostate cancer cells. The findings show that the intra-fractional dose schedule with medium time delay offers an opportunity to increase the toxicity of radiation to cancer cells, relative to a single radiation delivery. For all cancer cell lines, a grid field gives a greater toxic effect than a uniform field. The split dose treatment offers an increase in cancer toxicity while preserving normal cells, improving the outcomes of a treatment.