cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5091907
title: Voluntary exercise improves cognitive deficits in female dominant-negative DISC1 transgenic mouse model of neuropsychiatric disorders

description: <b>Objectives:</b> Physical exercise has gained increasing interest as a treatment modality that improves prognosis in psychiatric patients. The disrupted in schizophrenia 1 (DISC1) gene is a candidate gene for major mental illness. In this study, we aimed to determine whether voluntary wheel running can improve cognitive deficits of dominant-negative DISC1 transgenic mice (DN-DISC1). <b>Methods:</b> DN-DISC1 and control mice (10-week-old male and female) were placed for 14 days in a cage with or without access to a running wheel. Two weeks later, mice underwent behavioural tests evaluating cognition and social approach and recognition. <b>Results:</b> Voluntary exercise improved performance in the novel object recognition test, restored the impairment in spatial memory in the Y maze, and reversed the deficit in social recognition memory in DN-DISC1 females. DN-DISC1 males did not exhibit behavioural deficits at baseline. Tissue analysis revealed that exercise induced a significant increase in hippocampal expression of doublecortin (DCX), brain-derived neurotrophic factor (BDNF) and cannabinoid receptor type 1 (CB1R) only in DN-DISC1 females. <b>Conclusions:</b> Voluntary exercise is beneficial in attenuating cognitive deficits observed in a rodent model relevant for neuropsychiatric disorders. The data add a preclinical aspect to the accumulating clinical data supporting the incorporation of physical exercise to patients’ care.
DOI: 10.6084/m9.figshare.5091928.v2
title: Leptin induction following irradiation is a conserved feature in mammalian epithelial cells and tissues

description: <b>Purpose:</b> Leptin (LEP) is a peptide hormone with multiple physiological functions. Besides its systemic actions, it has important peripheral roles such as a mitogen action on keratinocytes following skin lesions. We previously showed that LEP mRNA is significantly induced in response to neutron irradiation in mouse skin and that the protein increases in the irradiated epidermis and in the related subcutaneous adipose tissue. In this work, we investigated the post-transcriptional regulation of LEP by miRNAs and the conservation of LEP’s role in radiation response in human cells. <b>Methods:</b> We used microarray analysis and real-time polymerase chain reaction (RT-PCR) to analyze modulation of miRNAs potentially targeting LEP in mouse skin following irradiation and bioinformatic analysis of transcriptome of irradiated human cell lines and cancer tissues from radiotherapy-treated patients to evaluate LEP expression. <b>Results and conclusions:</b> We show that a network of miRNAs potentially targeting LEP mRNA is modulated in irradiated mouse skin and that LEP itself is significantly modulated by irradiation in human epithelial cell lines and in breast cancer tissues from radiotherapy-treated patients. These results confirm and extend the previous evidence that LEP has a general and important role in the response of mammalian cells to irradiation.
DOI: 10.6084/m9.figshare.5091904.v1
title: cgm_min

description: Prospective cohort of patients with clinical time-based TIA with baseline and 8-week follow-up MRI for lesion evolution. 3T-MRI imaging was acquired in standard clinical TIA workflow. The set holds information per patient and per lesion.
DOI: 10.6084/m9.figshare.5091907.v1
title: Voluntary exercise improves cognitive deficits in female dominant-negative DISC1 transgenic mouse model of neuropsychiatric disorders

description: <b>Objectives:</b> Physical exercise has gained increasing interest as a treatment modality that improves prognosis in psychiatric patients. The disrupted in schizophrenia 1 (DISC1) gene is a candidate gene for major mental illness. In this study, we aimed to determine whether voluntary wheel running can improve cognitive deficits of dominant-negative DISC1 transgenic mice (DN-DISC1). <b>Methods:</b> DN-DISC1 and control mice (10-week-old male and female) were placed for 14 days in a cage with or without access to a running wheel. Two weeks later, mice underwent behavioural tests evaluating cognition and social approach and recognition. <b>Results:</b> Voluntary exercise improved performance in the novel object recognition test, restored the impairment in spatial memory in the Y maze, and reversed the deficit in social recognition memory in DN-DISC1 females. DN-DISC1 males did not exhibit behavioural deficits at baseline. Tissue analysis revealed that exercise induced a significant increase in hippocampal expression of doublecortin (DCX), brain-derived neurotrophic factor (BDNF) and cannabinoid receptor type 1 (CB1R) only in DN-DISC1 females. <b>Conclusions:</b> Voluntary exercise is beneficial in attenuating cognitive deficits observed in a rodent model relevant for neuropsychiatric disorders. The data add a preclinical aspect to the accumulating clinical data supporting the incorporation of physical exercise to patients’ care.
DOI: 10.6084/m9.figshare.5091892
title: Glacial vicariance drives phylogeographic diversification in the amphi-boreal kelp Saccharina latissima

description: Genotypic data (12 loci) of 24 populations of <i>Saccharina latissima</i> sensu lato<br>
DOI: 10.6084/m9.figshare.5091892.v1
title: Glacial vicariance drives phylogeographic diversification in the amphi-boreal kelp Saccharina latissima

description: Genotypic data (12 loci) of 24 populations of <i>Saccharina latissima</i> sensu lato<br>
DOI: 10.6084/m9.figshare.5091880
title: Supplementary Material for: Fibrotic Changes Mediating Acute Kidney Injury to Chronic Kidney Disease Transition

description: End-stage renal disease (ESRD) is common, costly, and it results from progressive chronic kidney disease (CKD). ESRD claims many lives every year. It is increasingly recognized that episodes of acute kidney injury (AKI) predispose to the future development of CKD and ESRD. While our understanding of the pathophysiology of the AKI to CKD transition is improving, there are no validated therapeutic strategies to prevent this transition. In this review, we summarize the recent progress made in defining the cellular and molecular events underlying the AKI to CKD transition and highlight potential therapeutic targets and strategies to reduce the incidence of CKD following AKI.
DOI: 10.6084/m9.figshare.5091880.v1
title: Supplementary Material for: Fibrotic Changes Mediating Acute Kidney Injury to Chronic Kidney Disease Transition

description: End-stage renal disease (ESRD) is common, costly, and it results from progressive chronic kidney disease (CKD). ESRD claims many lives every year. It is increasingly recognized that episodes of acute kidney injury (AKI) predispose to the future development of CKD and ESRD. While our understanding of the pathophysiology of the AKI to CKD transition is improving, there are no validated therapeutic strategies to prevent this transition. In this review, we summarize the recent progress made in defining the cellular and molecular events underlying the AKI to CKD transition and highlight potential therapeutic targets and strategies to reduce the incidence of CKD following AKI.
DOI: 10.6084/m9.figshare.5091859
title: <i>In silico</i> identification of potential drug compound against Peroxisome proliferator-activated receptor-gamma by virtual screening and toxicity studies for the treatment of Diabetic Nephropathy

description: Diabetic Nephropathy is a serious complication of diabetes mellitus. Current therapeutic strategies of Diabetic Nephropathy are based on control of modifiable risks like hypertension, glucose levels, and dyslipidemia. Peroxisome proliferator activated receptor-gamma (PPAR-γ) is implicated in several metabolic syndromes including Diabetic Nephropathy, besides obesity, insulin insensitivity, dislipidemia, inflammation, and hypertension. In the present study, virtual screening of 617 compounds from two different public databases was done against PPAR-γ with an objective to find a possible lead compound. Two softwares, PyRx and iGEMDOCK, were used to achieve the docking accuracy in order to avoid loss of candidate compounds. Rosiglitazone (used to treat Diabetic Nephropathy) was taken as the standard compound. A total of 30 compounds with good binding affinity with PPAR-γ were selected for further filtering, on the basis of absorption, distribution, metabolism, excretion, and toxicity (ADMET). The interaction profiling of these 30 compounds, showed a minimum of one and maximum of three interactions with reference to rosiglitazone (SER-289, HIS-449, HIS-323, TYR-473). The fulfilling of ADMET analysis criteria of 30 compounds led to the selection of four compounds (ZINC ID 00181552, 00276456, 00298314, 00448009). Molecular dynamics simulation of these lead compounds in complex with PPAR-γ revealed that three of the four compounds formed a stable complex in the ligand-binding pocket of PPAR-γ during 20-ns simulation. Hence, these three (ZINC ID 00181552, 00276456, 00298314) of the four compounds are potential candidates for experimental validation of biological activity against PPAR-γ in future drug discovery studies.
DOI: 10.6084/m9.figshare.5091850
title: data file

description: data for “Effect of the p53-tristetraprolin-stathmin-1 pathway on trophoblasts at maternal-fetal interface”
DOI: 10.6084/m9.figshare.5091859.v1
title: <i>In silico</i> identification of potential drug compound against Peroxisome proliferator-activated receptor-gamma by virtual screening and toxicity studies for the treatment of Diabetic Nephropathy

description: Diabetic Nephropathy is a serious complication of diabetes mellitus. Current therapeutic strategies of Diabetic Nephropathy are based on control of modifiable risks like hypertension, glucose levels, and dyslipidemia. Peroxisome proliferator activated receptor-gamma (PPAR-γ) is implicated in several metabolic syndromes including Diabetic Nephropathy, besides obesity, insulin insensitivity, dislipidemia, inflammation, and hypertension. In the present study, virtual screening of 617 compounds from two different public databases was done against PPAR-γ with an objective to find a possible lead compound. Two softwares, PyRx and iGEMDOCK, were used to achieve the docking accuracy in order to avoid loss of candidate compounds. Rosiglitazone (used to treat Diabetic Nephropathy) was taken as the standard compound. A total of 30 compounds with good binding affinity with PPAR-γ were selected for further filtering, on the basis of absorption, distribution, metabolism, excretion, and toxicity (ADMET). The interaction profiling of these 30 compounds, showed a minimum of one and maximum of three interactions with reference to rosiglitazone (SER-289, HIS-449, HIS-323, TYR-473). The fulfilling of ADMET analysis criteria of 30 compounds led to the selection of four compounds (ZINC ID 00181552, 00276456, 00298314, 00448009). Molecular dynamics simulation of these lead compounds in complex with PPAR-γ revealed that three of the four compounds formed a stable complex in the ligand-binding pocket of PPAR-γ during 20-ns simulation. Hence, these three (ZINC ID 00181552, 00276456, 00298314) of the four compounds are potential candidates for experimental validation of biological activity against PPAR-γ in future drug discovery studies.
DOI: 10.6084/m9.figshare.5091850.v1
title: data file

description: data for “Effect of the p53-tristetraprolin-stathmin-1 pathway on trophoblasts at maternal-fetal interface”
DOI: 10.6084/m9.figshare.12905930
title: vessel_effort.csv

description: Aggregated dataset taken from: <br>Rousseau, Y., Watson, R.A., Blanchard, J.L., Fulton, E.A. Evolution of global marine fishing fleets and the response of fished resources. <i>Proceedings of the National Academy of Sciences.</i> <b>201820344</b>, Available at DOI: 10.1073/pnas.1820344116 (2019).<br>where sector A = Artisanal, I = Industrial, cnumber = United Nations country number, kw = kilo-watt power, days= days at sea, vessno = number of vessels.<br>
DOI: 10.6084/m9.figshare.5091727
title: SHR

description: SHR fMRI data
DOI: 10.6084/m9.figshare.5091688
title: Wing 1 of protein HOP2 is as important as helix 3 in DNA binding by MD simulation

description: The repair of programmed DNA double-strand breaks through recombination is required for proper association and disjunction of the meiotic homologous chromosomes. Meiosis-specific protein HOP2 plays essential roles in recombination by promoting recombinase activities. The N-terminal domain of HOP2 interacts with DNA through helix 3 (H3) and wing 1 (W1). Mutations in wing 1 (Y65A/K67A/Q68A) slightly weakened the binding but mutations in helices 2 and 3 (Q30A/K44A/K49A) nearly abolished the binding. To better understand such differential effects at atomic level, molecular dynamics simulations were employed. Despite losing some hydrogen bonds, the W1-mutant DNA complex was rescued by stronger hydrophobic interactions. For the wild type and W1-mutant, the protein was found to slide along the DNA grooves as the DNA rolls along its double-helix axis. This motion could be functionally important to facilitate the precise positioning of the single-stranded DNA with the homologous double-stranded DNA. The sliding motion was reduced in the W1-mutant. The H-mutant nearly lost all intermolecular interactions. Moreover, an additional mutation in wing 1 (Y65A/K67A/Q68A/K69A) also caused complete complex dissociation. Therefore, both wing 1 and helix 3 make important contribution to the DNA binding, which could be important to the strand invasion function of HOP2 homodimer and HOP2-MND1 heterodimer. Similar to cocking a medieval crossbow with the archer’s foot placed in the stirrup, wing 1 may push the minor groove to cause distortion while helix 3 grabs the major groove.
DOI: 10.6084/m9.figshare.5091688.v1
title: Wing 1 of protein HOP2 is as important as helix 3 in DNA binding by MD simulation

description: The repair of programmed DNA double-strand breaks through recombination is required for proper association and disjunction of the meiotic homologous chromosomes. Meiosis-specific protein HOP2 plays essential roles in recombination by promoting recombinase activities. The N-terminal domain of HOP2 interacts with DNA through helix 3 (H3) and wing 1 (W1). Mutations in wing 1 (Y65A/K67A/Q68A) slightly weakened the binding but mutations in helices 2 and 3 (Q30A/K44A/K49A) nearly abolished the binding. To better understand such differential effects at atomic level, molecular dynamics simulations were employed. Despite losing some hydrogen bonds, the W1-mutant DNA complex was rescued by stronger hydrophobic interactions. For the wild type and W1-mutant, the protein was found to slide along the DNA grooves as the DNA rolls along its double-helix axis. This motion could be functionally important to facilitate the precise positioning of the single-stranded DNA with the homologous double-stranded DNA. The sliding motion was reduced in the W1-mutant. The H-mutant nearly lost all intermolecular interactions. Moreover, an additional mutation in wing 1 (Y65A/K67A/Q68A/K69A) also caused complete complex dissociation. Therefore, both wing 1 and helix 3 make important contribution to the DNA binding, which could be important to the strand invasion function of HOP2 homodimer and HOP2-MND1 heterodimer. Similar to cocking a medieval crossbow with the archer’s foot placed in the stirrup, wing 1 may push the minor groove to cause distortion while helix 3 grabs the major groove.
DOI: 10.6084/m9.figshare.12905930.v1
title: vessel_effort.csv

description: Aggregated dataset taken from: <br>Rousseau, Y., Watson, R.A., Blanchard, J.L., Fulton, E.A. Evolution of global marine fishing fleets and the response of fished resources. <i>Proceedings of the National Academy of Sciences.</i> <b>201820344</b>, Available at DOI: 10.1073/pnas.1820344116 (2019).<br>where sector A = Artisanal, I = Industrial, cnumber = United Nations country number, kw = kilo-watt power, days= days at sea, vessno = number of vessels.<br>
DOI: 10.6084/m9.figshare.5091535
title: data

description: data for Effect of the p53-tristetraprolin-stathmin-1 pathway on trophoblasts at maternal-fetal interface
DOI: 10.6084/m9.figshare.5091535.v1
title: data

description: data for Effect of the p53-tristetraprolin-stathmin-1 pathway on trophoblasts at maternal-fetal interface
DOI: 10.25592/uhhfdm.1483
title: Hamburg Modern Times Corpus (HaMoTiC)

description: Audio recordings of a film retelling task with adult L2 users of German. The speakers' L1 and their L2 proficiencies vary. 24 communications + 1 German reference communication, duration between 2 and 16 minutes. For each speaker, a language learner biography (audio and freely transcribes) is available. The Hamburg Modern Times Corpus (HaMoTiC) consists of transcribed audio recordings of learners of German at different proficiency levels who renarrate a few scenes from the silent film "Modern Times" (USA 1936, Charles Chaplin). The corpus was compiled at the Hamburg Centre for Language Corpora (HZSK) in 2012 and 2013 with the intent to create a corpus that is analogous to data created within the ESF project 'Second language acquisition by adult immigrants' (cf. Perdue & Klein, 1992). For this purpose the original video clip was made available to us by the IMDI Corpus Archive of the Max Planck-Institute for Psycholinguistics in Nijmegen, Netherlands. The main objective was thus both to create a comparable linguistic resource based on existing data and also to demonstrate the functionality of the EXMARaLDA tools for transcription, annotation and analysis of spoken language corpora. The structural design of HaMoTiC is derived from the Hamburg Map Task Corpus (HAMATAC), that was developed in 2010. In terms of their content, HAMATAC and HaMoTiC complement each other with regard to their authenticity and the degree of control of learner language. <strong>CLARIN Metadata summary for Hamburg Modern Times Corpus (HaMoTiC) (CMDI-based)</strong> <strong>Title: </strong>Hamburg Modern Times Corpus (HaMoTiC)<br> <strong>Description: </strong>Audio recordings of a film retelling task with adult L2 users of German. The speakers' L1 and their L2 proficiencies vary. 24 communications + 1 German reference communication, duration between 2 and 16 minutes. For each speaker, a language learner biography (audio and freely transcribes) is available.<br> <strong>Publication date: </strong>2013-11-01<br> <strong>Data owner: </strong> HZSK Hamburger Zentrum für Sprachkorpora, Max-Brauer-Allee 60 / D-22765 Hamburg, corpora@uni-hamburg.de<br> <strong>Contributors: </strong> HZSK Hamburger Zentrum für Sprachkorpora, Max-Brauer-Allee 60 / D-22765 Hamburg, corpora@uni-hamburg.de (compiler)<br> <strong>Keywords: </strong> adult L2 acquisition, learner corpus, task-oriented communication, successive bilingualism, L2 data, adult bilingualism, film retelling task, multilingualism, EXMARaLDA<br> <strong>Language: </strong> German (deu)<br> <strong>Size: </strong> 29 speakers (20 female, 9 male), 25 communications, 25 recordings, 186 minutes, 25 transcriptions, 24464 words<br> <strong>Annotation types: </strong> transcription (manual): HIAT (modified), pho: manual annotation of phonetic phenomena, k: free comment, akz: accentuation/stress<br> <strong>Temporal Coverage: </strong> 2012-07-05/2012-12-13<br> <strong>Spatial Coverage: </strong> Hamburg, DE<br> <strong>Genre: </strong> discourse<br> <strong>Modality: </strong> spoken
DOI: 10.25592/uhhfdm.1482
title: Hamburg Modern Times Corpus (HaMoTiC)

description: Audio recordings of a film retelling task with adult L2 users of German. The speakers' L1 and their L2 proficiencies vary. 24 communications + 1 German reference communication, duration between 2 and 16 minutes. For each speaker, a language learner biography (audio and freely transcribes) is available. The Hamburg Modern Times Corpus (HaMoTiC) consists of transcribed audio recordings of learners of German at different proficiency levels who renarrate a few scenes from the silent film "Modern Times" (USA 1936, Charles Chaplin). The corpus was compiled at the Hamburg Centre for Language Corpora (HZSK) in 2012 and 2013 with the intent to create a corpus that is analogous to data created within the ESF project 'Second language acquisition by adult immigrants' (cf. Perdue & Klein, 1992). For this purpose the original video clip was made available to us by the IMDI Corpus Archive of the Max Planck-Institute for Psycholinguistics in Nijmegen, Netherlands. The main objective was thus both to create a comparable linguistic resource based on existing data and also to demonstrate the functionality of the EXMARaLDA tools for transcription, annotation and analysis of spoken language corpora. The structural design of HaMoTiC is derived from the Hamburg Map Task Corpus (HAMATAC), that was developed in 2010. In terms of their content, HAMATAC and HaMoTiC complement each other with regard to their authenticity and the degree of control of learner language. <strong>CLARIN Metadata summary for Hamburg Modern Times Corpus (HaMoTiC) (CMDI-based)</strong> <strong>Title: </strong>Hamburg Modern Times Corpus (HaMoTiC)<br> <strong>Description: </strong>Audio recordings of a film retelling task with adult L2 users of German. The speakers' L1 and their L2 proficiencies vary. 24 communications + 1 German reference communication, duration between 2 and 16 minutes. For each speaker, a language learner biography (audio and freely transcribes) is available.<br> <strong>Publication date: </strong>2013-11-01<br> <strong>Data owner: </strong> HZSK Hamburger Zentrum für Sprachkorpora, Max-Brauer-Allee 60 / D-22765 Hamburg, corpora@uni-hamburg.de<br> <strong>Contributors: </strong> HZSK Hamburger Zentrum für Sprachkorpora, Max-Brauer-Allee 60 / D-22765 Hamburg, corpora@uni-hamburg.de (compiler)<br> <strong>Keywords: </strong> adult L2 acquisition, learner corpus, task-oriented communication, successive bilingualism, L2 data, adult bilingualism, film retelling task, multilingualism, EXMARaLDA<br> <strong>Language: </strong> German (deu)<br> <strong>Size: </strong> 29 speakers (20 female, 9 male), 25 communications, 25 recordings, 186 minutes, 25 transcriptions, 24464 words<br> <strong>Annotation types: </strong> transcription (manual): HIAT (modified), pho: manual annotation of phonetic phenomena, k: free comment, akz: accentuation/stress<br> <strong>Temporal Coverage: </strong> 2012-07-05/2012-12-13<br> <strong>Spatial Coverage: </strong> Hamburg, DE<br> <strong>Genre: </strong> discourse<br> <strong>Modality: </strong> spoken