cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6876752
title: Synergistic effect of land-use and vegetation greenness on vulture nestling body condition in arid ecosystems DATASET

description: Here we provide the final dataset used for analyses in the study Santangeli et al. 2018 Scientific Reports entitled "Synergistic effect of land-use and vegetation greenness on vulture nestling body condition in arid ecosystems".<br>The dataset contains observations from individual vulture nestlings (in each row) of two species in Namibia. The scaled mass index (in grams) is provided along with the year when the measurements for derived the index were taken. Five different NDVI values are also provided. Each refers to a different time lag period prior to nestling measurement, whereby NDVI was averaged across a radius of 50km around the nest (see associated study for more details). The % cover of protected areas within a 50km radius around the nest where the nestling was found and measured is also reported, as well as the identity of the region where the nest located and the species that was measured. Note that the X and Y coordinates of the nest location have been excluded from this dataset due to their sensitivity, therefore the analyses presented in Santangeli et al. cannot unfortunately be fully replicated.<br>
DOI: 10.6084/m9.figshare.6876752.v1
title: Synergistic effect of land-use and vegetation greenness on vulture nestling body condition in arid ecosystems DATASET

description: Here we provide the final dataset used for analyses in the study Santangeli et al. 2018 Scientific Reports entitled "Synergistic effect of land-use and vegetation greenness on vulture nestling body condition in arid ecosystems".<br>The dataset contains observations from individual vulture nestlings (in each row) of two species in Namibia. The scaled mass index (in grams) is provided along with the year when the measurements for derived the index were taken. Five different NDVI values are also provided. Each refers to a different time lag period prior to nestling measurement, whereby NDVI was averaged across a radius of 50km around the nest (see associated study for more details). The % cover of protected areas within a 50km radius around the nest where the nestling was found and measured is also reported, as well as the identity of the region where the nest located and the species that was measured. Note that the X and Y coordinates of the nest location have been excluded from this dataset due to their sensitivity, therefore the analyses presented in Santangeli et al. cannot unfortunately be fully replicated.<br>
DOI: 10.6084/m9.figshare.6876746.v1
title: Data Bachelorproject Dagmar Verel 2018

description: Data collected during the bachelorproject (may-june 2018) at the Bacterial Cell Biology group of SILS. <br>Data consists of images of cells taken during growth experiments, optical density values measured during growth experiments, measurements of cell length and diameter and raw data of the FRET experiment.
DOI: 10.6084/m9.figshare.6876704
title: Evaluating the impact of peer support and connection on the quality of life of patients with familial chylomicronemia syndrome

description: <b>Background</b>: Familial chylomicronemia syndrome (FCS) is a disease caused by impaired lipoprotein lipase function and characterized by chylomicronemia, reduced quality of life (QoL) and risk of pancreatitis. The aim of the current study is to assess if QoL can be improved by patients being connected to other patients. <b>Methods</b>: Respondents (<i>N</i> = 50) categorized into 3 groups (actively connected, passively connected and non-connected) self-reported their current or comparative assessments of QoL before and after connection with FCS-focused support organizations using a customized retrospective web-based survey. <b>Results</b>: Connected respondents showed significantly improved perceptions of overall health, disease severity, motivation to take care of health and emotional well-being (<i>p</i> ≤ 0.05). Any level of connection produced noticeable benefits, but active connection in the form of regular interaction with other patients reported the greatest improvements. Additionally, respondents reported higher levels of satisfaction with their primary treating physician after being connected. The majority of patients (62%) reported joining support groups following referrals from their physicians. <b>Conclusions</b>: Similar to other disease states, connecting with other patients with FCS had a positive impact on aspects of quality of life. Physicians may play a central role in referring their patients with FCS to support groups.
DOI: 10.6084/m9.figshare.6876704.v1
title: Evaluating the impact of peer support and connection on the quality of life of patients with familial chylomicronemia syndrome

description: <b>Background</b>: Familial chylomicronemia syndrome (FCS) is a disease caused by impaired lipoprotein lipase function and characterized by chylomicronemia, reduced quality of life (QoL) and risk of pancreatitis. The aim of the current study is to assess if QoL can be improved by patients being connected to other patients. <b>Methods</b>: Respondents (<i>N</i> = 50) categorized into 3 groups (actively connected, passively connected and non-connected) self-reported their current or comparative assessments of QoL before and after connection with FCS-focused support organizations using a customized retrospective web-based survey. <b>Results</b>: Connected respondents showed significantly improved perceptions of overall health, disease severity, motivation to take care of health and emotional well-being (<i>p</i> ≤ 0.05). Any level of connection produced noticeable benefits, but active connection in the form of regular interaction with other patients reported the greatest improvements. Additionally, respondents reported higher levels of satisfaction with their primary treating physician after being connected. The majority of patients (62%) reported joining support groups following referrals from their physicians. <b>Conclusions</b>: Similar to other disease states, connecting with other patients with FCS had a positive impact on aspects of quality of life. Physicians may play a central role in referring their patients with FCS to support groups.
DOI: 10.6084/m9.figshare.6876602
title: Serum 25(OH)D levels are associated with normal fertilization rates in women but not in men among couples undergoing IVF.docx

description: Table S1 and S2 showed baseline characteristics and normal fertilization rate according to quartiles of 25(OH)D level in 1,234 couples undergoing IVF. The baseline characteristics were all matched. The normal fertilization rates in women were 59.69%, 61.50%, 63.97% and 65.00% respectively (<i>P</i>=0.005). There were significant differences between Q1 and Q3, Q1 and Q4, Q2 and Q4 (<i>P</i>=0.013, 0.000, 0.007, respectively). However, in men, there were no significant differences among the groups (<i>P</i>=0.300)
DOI: 10.6084/m9.figshare.6876602.v2
title: Serum 25(OH)D levels are associated with normal fertilization rates in women but not in men among couples undergoing IVF.docx

description: Table S1 and S2 showed baseline characteristics and normal fertilization rate according to quartiles of 25(OH)D level in 1,234 couples undergoing IVF. The baseline characteristics were all matched. The normal fertilization rates in women were 59.69%, 61.50%, 63.97% and 65.00% respectively (<i>P</i>=0.005). There were significant differences between Q1 and Q3, Q1 and Q4, Q2 and Q4 (<i>P</i>=0.013, 0.000, 0.007, respectively). However, in men, there were no significant differences among the groups (<i>P</i>=0.300)
DOI: 10.6084/m9.figshare.6876602.v1
title: vitamin D fertilization Supplementary.docx

description: Table S1 and S2 showed baseline characteristics and normal fertilization rate according to quartiles of 25(OH)D level in 1,234 couples undergoing IVF. The baseline characteristics were all matched. The normal fertilization rates in women were 59.69%, 61.50%, 63.97% and 65.00% respectively (<i>P</i>=0.005). There were significant differences between Q1 and Q3, Q1 and Q4, Q2 and Q4 (<i>P</i>=0.013, 0.000, 0.007, respectively). However, in men, there were no significant differences among the groups (<i>P</i>=0.300)
DOI: 10.6084/m9.figshare.6876455
title: Eyetracking 2018. Dataset 1 and 2.

description: Datasets described in the manuscript: 'Empathy Modulates the Temporal Structure of Social Attention'<br><b>Dataset1.txt.</b><br><i>Column names.</i><br>1. X coordinate2. Y coordinate3. Timestamp (ms)4. Participant5. Trial6. Codes whether the stimulus is intact or scrambled (1= intact, 2 = scrambled).7. Codes whether gaze is in the social AOI (boolean).8. Codes whether gaze is in the nonsocial AOI (boolean).<br>9. Codes the presence of trackloss (boolean)10. The observer's EQ score.<br><br><br><b>Dataset2.txt.</b><br><br><i>Column names.</i><br>1. X coordinate2. Y coordinate3. Codes the side of the social stimulus4. Timestamp (ms)5. Participant6. Trial7. Codes whether gaze is in the left AOI (boolean)8. Codes whether gaze is in the right AOI (boolean)<br>9. Codes whether the stimulus is intact or scrambled10. Codes the AOI that gaze is directed in (see next 2 columns)11. Whether the gaze is in the social AOI (boolean).12. Whether the gaze is in the nonsocial AOI (boolean).13. A column indicating the presence of trackloss (boolean)14. The observer's EQ score.<br><br><br>
DOI: 10.6084/m9.figshare.6876458
title: The Early Repolarization Pattern and Gated SPECT Abnormality Association At the Concordant Localization with Coronary Stenosis: Just a Co-incidence or Not?

description: With this image focus, we have reported a co-incidence between the early repolarization pattern, gated SPECT wall motion abnormality and silent ischemic heart disease at concordant localization, as an interesting subject to be explored.<br>
DOI: 10.6084/m9.figshare.6876440
title: Biologically active compounds from two members of the Asteraceae family: <i>Tragopogon dubius</i> Scop. and <i>Tussilago farfara</i> L.

description: <i>Tragopogon dubius</i> and <i>Tussilago farfara</i> are consumed as vegetables and used in folk medicine to manage common diseases. Herein, the chemical compositions and biological activities of different leaf extracts (ethyl acetate, methanol, and water) of <i>T. dubius</i> and <i>T. farfara</i> were evaluated. The antibacterial, antifungal, and antioxidant abilities of the extracts were tested using different assays including free radical scavenging, reducing power, phosphomolybdenum, and metal chelating assays. Enzyme inhibitory potentials were evaluated against cholinesterases, tyrosinase, α-amylase and α-glucosidase. Complexes of bioactive compounds (chlorogenic and rosmarinic acid) were docked into the enzymatic cavity of α-glucosidase and subjected to molecular dynamic calculation, enzyme conformational stability, and flexibility analysis. <i>T. dubius</i> and <i>T. farfara</i> extracts showed remarkable antioxidant potentials. Ethyl acetate extracts of <i>T. dubius</i> and <i>T. farfara</i> were the most potent inhibitors of acetylcholinesterase and butyrylcholinesterase. <i>T. dubius</i> ethyl acetate extract and <i>T. farfara</i> methanolic extract showed noteworthy activity against α-glucosidase. High performance liquid chromatography analysis revealed the abundance of some phenolic compounds including chlorogenic and rosmarinic acids. Ethyl acetate extract of <i>T. dubius</i> showed notable antifungal activity against all strains. Docking studies showed best pose for chlorogenic acid was stabilized by a network of hydrogen bonds with residues Asp1157, Asp1279, whereas rosmarinic acid showed several hydrogen bonds with Asp1157, Asp1420, Asp1526, Lys1460 and Trp1369. This study further validates the use of <i>T. dubius</i> and <i>T. farfara</i> in traditional medicine, as well as act as a stimulus for further studies for future biomedicine development. Communicated by Ramaswamy H. Sarma
DOI: 10.6084/m9.figshare.6876458.v3
title: The Early Repolarization Pattern and Gated SPECT Abnormality Association At the Concordant Localization with Coronary Stenosis: Just a Co-incidence or Not?

description: With this image focus, we have reported a co-incidence between the early repolarization pattern, gated SPECT wall motion abnormality and silent ischemic heart disease at concordant localization, as an interesting subject to be explored.<br>
DOI: 10.6084/m9.figshare.6876458.v2
title: The Concordant Localization of J Point Elevation and Gated SPECT Abnormality In the Right Coronary Stenosis. Just a Co-incidence or Not?

description: With this image focus, we have reported a co-incidence between J point elevation, gated SPECT wall motion abnormality and silent ischemic heart disease at concordant localization, as an interesting subject to be explored.<br>
DOI: 10.6084/m9.figshare.6876401
title: Circadian Genes in Major Depressive Disorder

description: <b>Background:</b> A core symptom of major depressive disorder (MDD), is sleep disturbance, specifically hypersomnia or insomnia. Sleep is highly regulated by circadian rhythms, controlled by circadian genes, that act through a series of feedback loops to regulate the sleep-wake cycle. <b>Objectives:</b> To the best of our knowledge, a systematic review regarding the core circadian genes and their role in MDD has not been published recently. More specifically, a review of these genes and their role in sleep disturbances in depressed individuals appears to have never been done. As such, we decided to integrate both concepts into one comprehensive review. <b>Method:</b> The review was done using the appropriate search terms in the following search engines: OVID Medline, Embase, PsycINFO and Pubmed. <b>Results:</b> Despite the numerous genetic studies done, few have yielded positive findings. Of those that have, frequently there are other studies that are unable to replicate the original findings. Based on the data summarized in this review, none of the circadian genes appear to be associated with MDD, but a few are more promising than others. These genes are: <i>CRY1</i>, <i>CRY2</i>, <i>PER2</i> and <i>NPAS2</i>. When investigating the role of circadian genes in sleep disturbances among individuals with MDD, the most promising candidate gene is <i>TIMELESS.</i> Although the results in this area are limited further research is warranted. <b>Conclusion:</b> Given the promising leads from this review, future studies should investigate circadian genes in sleep disturbances among the depressed population.
DOI: 10.6084/m9.figshare.6876440.v2
title: Biologically active compounds from two members of the Asteraceae family: <i>Tragopogon dubius</i> Scop. and <i>Tussilago farfara</i> L.

description: <i>Tragopogon dubius</i> and <i>Tussilago farfara</i> are consumed as vegetables and used in folk medicine to manage common diseases. Herein, the chemical compositions and biological activities of different leaf extracts (ethyl acetate, methanol, and water) of <i>T. dubius</i> and <i>T. farfara</i> were evaluated. The antibacterial, antifungal, and antioxidant abilities of the extracts were tested using different assays including free radical scavenging, reducing power, phosphomolybdenum, and metal chelating assays. Enzyme inhibitory potentials were evaluated against cholinesterases, tyrosinase, α-amylase and α-glucosidase. Complexes of bioactive compounds (chlorogenic and rosmarinic acid) were docked into the enzymatic cavity of α-glucosidase and subjected to molecular dynamic calculation, enzyme conformational stability, and flexibility analysis. <i>T. dubius</i> and <i>T. farfara</i> extracts showed remarkable antioxidant potentials. Ethyl acetate extracts of <i>T. dubius</i> and <i>T. farfara</i> were the most potent inhibitors of acetylcholinesterase and butyrylcholinesterase. <i>T. dubius</i> ethyl acetate extract and <i>T. farfara</i> methanolic extract showed noteworthy activity against α-glucosidase. High performance liquid chromatography analysis revealed the abundance of some phenolic compounds including chlorogenic and rosmarinic acids. Ethyl acetate extract of <i>T. dubius</i> showed notable antifungal activity against all strains. Docking studies showed best pose for chlorogenic acid was stabilized by a network of hydrogen bonds with residues Asp1157, Asp1279, whereas rosmarinic acid showed several hydrogen bonds with Asp1157, Asp1420, Asp1526, Lys1460 and Trp1369. This study further validates the use of <i>T. dubius</i> and <i>T. farfara</i> in traditional medicine, as well as act as a stimulus for further studies for future biomedicine development. Communicated by Ramaswamy H. Sarma
DOI: 10.6084/m9.figshare.6876401.v1
title: Circadian Genes in Major Depressive Disorder

description: <b>Background:</b> A core symptom of major depressive disorder (MDD), is sleep disturbance, specifically hypersomnia or insomnia. Sleep is highly regulated by circadian rhythms, controlled by circadian genes, that act through a series of feedback loops to regulate the sleep-wake cycle. <b>Objectives:</b> To the best of our knowledge, a systematic review regarding the core circadian genes and their role in MDD has not been published recently. More specifically, a review of these genes and their role in sleep disturbances in depressed individuals appears to have never been done. As such, we decided to integrate both concepts into one comprehensive review. <b>Method:</b> The review was done using the appropriate search terms in the following search engines: OVID Medline, Embase, PsycINFO and Pubmed. <b>Results:</b> Despite the numerous genetic studies done, few have yielded positive findings. Of those that have, frequently there are other studies that are unable to replicate the original findings. Based on the data summarized in this review, none of the circadian genes appear to be associated with MDD, but a few are more promising than others. These genes are: <i>CRY1</i>, <i>CRY2</i>, <i>PER2</i> and <i>NPAS2</i>. When investigating the role of circadian genes in sleep disturbances among individuals with MDD, the most promising candidate gene is <i>TIMELESS.</i> Although the results in this area are limited further research is warranted. <b>Conclusion:</b> Given the promising leads from this review, future studies should investigate circadian genes in sleep disturbances among the depressed population.
DOI: 10.6084/m9.figshare.6876395
title: The in silico identification of potent anti-cancer agents by targeting the ATP binding site of the N-domain of HSP90

description: To identify new HSP90 inhibitors, the ATP binding site of the N-domain of HSP90 was targeted by molecular docking of a library of 23,129,083 compounds (from the ZINC database) to the ATP binding site of the N-domain of HSP90. Structure-based virtual screen (SBVS) was performed using idock software on the istar web platform. Based on idock binding energies, 40 molecules were considered as HSP90 inhibitors. In the next step, the 40 molecules and the compound AT13387 (Onalespib) were docked to the XJX binding site using AutoDock Vina software. By comparing the binding energies of the 40 molecules selected with compound AT13387, 26 molecules were selected. By applying the rule of five, eight molecules were selected as hit compounds. The interactions of these eight compounds with the XJX binding site were obtained and investigated, and two-dimensional interaction maps were provided for the others. Finally, computing the toxicity of these compounds with the ProTox-II webserver shows that three compounds, namely ZINC89453765, ZINC23918431 and ZINC12414793, can be considered as good HSP90 inhibitors. These compounds are inactive for nuclear receptor signalling and stress response pathways including heat shock response, so do not have the limitations of common HSP90 inhibitors. They are also inactive for hepatotoxicity, carcinogenicity, immunotoxicity, mutagenicity and cytotoxicity.
DOI: 10.6084/m9.figshare.6876395.v1
title: The in silico identification of potent anti-cancer agents by targeting the ATP binding site of the N-domain of HSP90

description: To identify new HSP90 inhibitors, the ATP binding site of the N-domain of HSP90 was targeted by molecular docking of a library of 23,129,083 compounds (from the ZINC database) to the ATP binding site of the N-domain of HSP90. Structure-based virtual screen (SBVS) was performed using idock software on the istar web platform. Based on idock binding energies, 40 molecules were considered as HSP90 inhibitors. In the next step, the 40 molecules and the compound AT13387 (Onalespib) were docked to the XJX binding site using AutoDock Vina software. By comparing the binding energies of the 40 molecules selected with compound AT13387, 26 molecules were selected. By applying the rule of five, eight molecules were selected as hit compounds. The interactions of these eight compounds with the XJX binding site were obtained and investigated, and two-dimensional interaction maps were provided for the others. Finally, computing the toxicity of these compounds with the ProTox-II webserver shows that three compounds, namely ZINC89453765, ZINC23918431 and ZINC12414793, can be considered as good HSP90 inhibitors. These compounds are inactive for nuclear receptor signalling and stress response pathways including heat shock response, so do not have the limitations of common HSP90 inhibitors. They are also inactive for hepatotoxicity, carcinogenicity, immunotoxicity, mutagenicity and cytotoxicity.
DOI: 10.6084/m9.figshare.6876389
title: Dataset for: Sex-specific responses in neuroanatomy of hatchling American kestrels in response to embryonic exposure to the flame retardants bis(2-ethylhexyl)-2,3,4,5-tetrabromophthalate or 2-ethylhexyl-2,3,4,5-tetrabromobenzoate

description: Bis (2-ethylhexyl)-2,3,4,5-tetrabromophthalate (BEH-TEBP) and 2-ethylhexyl-2,3,4,5-tetrabromobenzoate (EH-TBB), flame retardant (FR) components of FireMaster 550® and 600®, have been detected in tissues of wild birds. To address the paucity of information regarding potential impacts of FRs on the brain, brain volume regions of hatchling American kestrels (Falco sparverius) were evaluated following in ovo injection at embryonic day (ED) 5 with safflower oil or to one of three doses of either BEH-TEBP (13, 64 or 116 µg/g egg) or EH-TBB (12, 60, or 149 µg/g egg). The low dose of both chemicals reflected concentrations reported in wild birds. The volumes of the hippocampus and telencephalon, and volumetric differences between left and right hemispheres, were measured in hatchlings (ED28). A sex-specific effect of BEH-TEBP on relative hippocampus volume was evident: the hippocampus was significantly enlarged in high dose females compared to control females, but smaller in low dose females than the other females. There was no significant effect of EH-TBB on hippocampus volume in female kestrel hatchlings, or of either chemical in male hatchlings, and no effects of these concentrations of EH-TBB or BEH-TEBP on telencephalon volume or the level of symmetry between the hemispheres of the brain. In sum, embryonic exposure of female kestrels to these BEH-TEBP concentrations altered hippocampus volume, having potential to affect spatial memory relating to ecologically-relevant behavior such as prey capture, predator avoidance, and migration.