cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.6773422
title: Coordination between metabolic transitions and gene expression by NAD + availability during adipogenic differentiation in human cells

description: Adipocytes are the main cell type in adipose tissue, a critical regulator of metabolism highly specialized in storing energy as fat. Adipocytes differentiate from multipotent mesenchymal stromal cells through adipogenesis, a tightly controlled differentiation process involving closely interplay between metabolic transitions and sequential programs of gene expression. However, the specific gears driving this interplay remain largely obscure. Additionally, the metabolite nicotinamide adenine dinucleotide (NAD ⁺ ) is becoming increasingly recognized as a regulator of lipid metabolism, is postulated as a promising therapeutic target for dyslipidemia and obesity. Here, we explored the effect of manipulating NAD ⁺ bioavailability during adipogenic differentiation from human mesenchymal stem cells. We found a previously unappreciated strong repressive role for NAD ⁺ on adipocyte commitment, while a functional NAD+-dependent deacetylase SIRT1 appeared crucial for terminal differentiation of pre-adipocytes. Remarkably, repressing the NAD ⁺ biosynthetic salvage pathway during adipogenesis promoted the adipogenic transcriptional program, suggesting that SIRT1 activity during adipogenesis is independent of the NAD ⁺ salvage pathway, while two-photon microscopy and extracellular flux analyses suggest that its activation relies on the metabolic switch. Interestingly, SIRT1-directed control of subcellular compartmentalization of redox metabolism during adipogenesis was evidenced by two-photon fluorescence lifetime microscopy. Significance Statement Adipocyte differentiation occurs from mesenchymal stem cells through the adipogenic process, involving sequential activation of both transcriptional and metabolic programs in a tightly coordinated manner. However, how transcriptional and metabolic transitions reciprocally interact during adipogenic differentiation remains largely obscure. Here we describe that the metabolite NAD ⁺ suppresses adipogenesis through rewiring transcription, while a functional NAD-dependent deacetylase SIRT1 is essential for terminal differentiation of pre-adipocytes. Using two-photon fluorescence lifetime microscopy, we created a metabolic map of NADH and lipid content simultaneously in live cells and described a new role for SIRT1 in the control of compartmentalization of redox metabolism during adipogenesis. These findings advance our understanding to improve therapeutical approaches targeting the NAD ⁺ -SIRT1 axis as a treatment for obesity and dyslipemia.
DOI: 10.5281/zenodo.6773421
title: Coordination between metabolic transitions and gene expression by NAD + availability during adipogenic differentiation in human cells

description: Adipocytes are the main cell type in adipose tissue, a critical regulator of metabolism highly specialized in storing energy as fat. Adipocytes differentiate from multipotent mesenchymal stromal cells through adipogenesis, a tightly controlled differentiation process involving closely interplay between metabolic transitions and sequential programs of gene expression. However, the specific gears driving this interplay remain largely obscure. Additionally, the metabolite nicotinamide adenine dinucleotide (NAD ⁺ ) is becoming increasingly recognized as a regulator of lipid metabolism, is postulated as a promising therapeutic target for dyslipidemia and obesity. Here, we explored the effect of manipulating NAD ⁺ bioavailability during adipogenic differentiation from human mesenchymal stem cells. We found a previously unappreciated strong repressive role for NAD ⁺ on adipocyte commitment, while a functional NAD+-dependent deacetylase SIRT1 appeared crucial for terminal differentiation of pre-adipocytes. Remarkably, repressing the NAD ⁺ biosynthetic salvage pathway during adipogenesis promoted the adipogenic transcriptional program, suggesting that SIRT1 activity during adipogenesis is independent of the NAD ⁺ salvage pathway, while two-photon microscopy and extracellular flux analyses suggest that its activation relies on the metabolic switch. Interestingly, SIRT1-directed control of subcellular compartmentalization of redox metabolism during adipogenesis was evidenced by two-photon fluorescence lifetime microscopy. Significance Statement Adipocyte differentiation occurs from mesenchymal stem cells through the adipogenic process, involving sequential activation of both transcriptional and metabolic programs in a tightly coordinated manner. However, how transcriptional and metabolic transitions reciprocally interact during adipogenic differentiation remains largely obscure. Here we describe that the metabolite NAD ⁺ suppresses adipogenesis through rewiring transcription, while a functional NAD-dependent deacetylase SIRT1 is essential for terminal differentiation of pre-adipocytes. Using two-photon fluorescence lifetime microscopy, we created a metabolic map of NADH and lipid content simultaneously in live cells and described a new role for SIRT1 in the control of compartmentalization of redox metabolism during adipogenesis. These findings advance our understanding to improve therapeutical approaches targeting the NAD ⁺ -SIRT1 axis as a treatment for obesity and dyslipemia.
DOI: 10.34740/kaggle/dsv/3973090
title: YouTube Daily
DOI: 10.5525/gla.researchdata.1279
title: High Yield and Selective Electrocatalytic Reduction of Nitroarenes to Anilines using Redox Mediators

description: Anilines are major commodity chemicals used extensively in the production of pharmaceuticals, dyes and polymers. Typically, these anilines are produced from their corresponding nitrobenzene precursors by reaction with hydrogen at high temperatures. However, this route suffers from a number of drawbacks, including the requirement to handle hydrogen gas, rather harsh reaction conditions that lead to a lack of selectivity and/or toleration of certain functional groups, and questionable environmental sustainability. In light of this, routes to the reduction of nitrobenzenes to their aniline derivatives that operate at room temperature, in aqueous solvent and without the requirement to use harsh process conditions, hydrogen gas, or sacrificial reagents could be of tremendous benefit. Herein, we report on an electrocatalytic route to the reduction of nitrobenzenes to their aniline derivatives that works in aqueous solution at room temperature and pressure, where the electrons and protons required to reduce the nitrobenzenes are obtained from water. Excellent selectivity for the aniline derivatives is obtained for a range of nitrobenzenes, including for nitrobenzene substrates such as ortho-iodides that are very challenging to reduce effectively by other methods. Our approach relies on the use of a polyoxometalate redox mediator that shuts off the direct electro-reduction of the nitrobenzene at the electrode surface and thus prevents unproductive side reactions. Given the scale and current environmental impact of global aniline production, this electrochemical route holds promise for the development of more sustainable processes for the production of these vital chemical feedstocks.
DOI: 10.5281/zenodo.6882576
title: Evolution and modulation of antigen-specific T cell responses in melanoma patients

description: * Unpublished TCRseq repertoire data (Helsinki cohort)<br> * Unpublished epitope-specific (MART1 AAGIGILTV) TCRseq data <br> * Unpublished TCRGP models for predicting anti-MAA T cells with TCRGP (please see https://github.com/emmijokinen/TCRGP)<br> * Published TCRseq reperotire data
DOI: 10.5281/zenodo.5747249
title: Evolution and modulation of antigen-specific T cell responses in melanoma patients

description: * Unpublished TCRseq repertoire data (Helsinki cohort)<br> * Unpublished epitope-specific (MART1 AAGIGILTV) TCRseq data <br> * Unpublished TCRGP models for predicting anti-MAA T cells with TCRGP (please see https://github.com/emmijokinen/TCRGP)<br> * Published TCRseq reperotire data
DOI: 10.21227/txwd-q616
title: Dataset of user recommendation experiment on Bilibili

description: The repository contains the data collected during User Behavior Experiment (UBE) in [1]. References:[1] D. Wei and S. Han, "An experimental study of recommendation for wireless edge caching," in Proc. IEEE ICCC, 2022.
DOI: 10.5281/zenodo.6873381
title: Acquisition and processing methods of whole-brain layer-fMRI VASO and BOLD: The Kenshu dataset.

description: Supplemental results of our analysis
DOI: 10.6084/m9.figshare.20358804
title: Complete genome sequence from an uncultivated freshwater Elusimicrobiota lineage

description: This repository contains information belonging to the manuscript intitled "Complete genome sequence from an uncultivated freshwater Elusimicrobiota lineage" 1. Elusimicrobia.fasta: Genomic sequence in FASTA format. 2. Elusimicrobia_prokka.gbk: Genome annotated by Prokka in Genbank format. 3. Elusimicrobia_KO.txt: Proteome annotation with KO numbers in txt format. 4. Elusimicrobia_pfam.txt: Proteome annotation with Pfam IDs in txt format.
DOI: 10.6084/m9.figshare.20358804.v1
title: Complete genome sequence from an uncultivated freshwater Elusimicrobiota lineage

description: This repository contains information belonging to the manuscript intitled "Complete genome sequence from an uncultivated freshwater Elusimicrobiota lineage" 1. Elusimicrobia.fasta: Genomic sequence in FASTA format. 2. Elusimicrobia_prokka.gbk: Genome annotated by Prokka in Genbank format. 3. Elusimicrobia_KO.txt: Proteome annotation with KO numbers in txt format. 4. Elusimicrobia_pfam.txt: Proteome annotation with Pfam IDs in txt format.
DOI: 10.5258/soton/d2286
title: Dataset to support the Southampton Doctoral thesis 'Emissivity and resistivity of SLM 316L stainless steel'

description: This data is the total hemispherical emissivity and resistivity for 316L stainless steel manufactured by SLM. The data was collected on 17 different samples, each manufactured using different combinations of SLM process parameters (build angle, laser power, scanning speed, hatch spacing and layer thickness). Details of the process parameters are in the PhD thesis. This dataset contains: Total hemispherical emissivity and resistivity data for 316L stainless steel 17 different samples.
DOI: 10.5281/zenodo.6882807
title: How disconnected are slogans from action? Analysis of the joint effect of multiple factors that stimulate employees' innovation behavior

description: <strong>How disconnected are slogans from action? Analysis of the joint effect of multiple factors that stimulate employees' innovation behaviorHow disconnected are slogans from action? Analysis of the joint effect of multiple factors that stimulate employees' innovation behavior.DATE</strong>
DOI: 10.5281/zenodo.6882806
title: How disconnected are slogans from action? Analysis of the joint effect of multiple factors that stimulate employees' innovation behavior

description: <strong>How disconnected are slogans from action? Analysis of the joint effect of multiple factors that stimulate employees' innovation behaviorHow disconnected are slogans from action? Analysis of the joint effect of multiple factors that stimulate employees' innovation behavior.DATE</strong>
DOI: 10.5519/qd.tvz364dp
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1 records)
DOI: 10.5519/qd.9z7eq4w8
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1 records)
DOI: 10.5519/qd.azga8ncp
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1 records)
DOI: 10.5519/qd.cqhwdjls
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1 records)
DOI: 10.5517/ccdc.csd.cc286pnv
title: CCDC 2091807: Experimental Crystal Structure Determination

description: Related Article: Anamar Blanes-Díaz, Orlando Stewart, Jr, Monica Vasiliu, Aaron Nicholas, Aphra V. Murray, Madeline C. Shore, David A. Dixon, Karah E. Knope|2022|Cryst.Growth Des.|22|4375|doi:10.1021/acs.cgd.2c00353
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.cc2bgxvl
title: CCDC 2159300: Experimental Crystal Structure Determination

description: Related Article: Devon E. Chapple, Megan A. Hoffer, Paul D. Boyle, Johanna M. Blacquiere|2022|Organometallics|41|1532|doi:10.1021/acs.organomet.2c00170
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.6882978
title: Data results of the usability study of PedaleoVR from PwLLD and elderly people

description: Data results of the usability study of a virtual reality application for cycling exercise in patients with lower limb disorders and elders. This dataset collection includes the results of the Intrinsic Motivation Inventory (IMI), the Credibility and Expectancy Questionnaire (CEQ) and the System Usability Scale (SUS) completed by patients with lower limb disorders (PwLLD). And it is also includes the results of the System Usability Scale (SUS), the Presence Questionnaire (PQ), the Game User Experience Satisfaction Scale (GUESS) of 18 items and the Sickness Simulator Questionnaire (SSQ) (pre-post exposure to the VR system) completed by elders.
DOI: 10.5517/ccdc.csd.cc2bgxwm
title: CCDC 2159301: Experimental Crystal Structure Determination

description: Related Article: Devon E. Chapple, Megan A. Hoffer, Paul D. Boyle, Johanna M. Blacquiere|2022|Organometallics|41|1532|doi:10.1021/acs.organomet.2c00170
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.6882977
title: Data results of the usability study of PedaleoVR from PwLLD and elderly people

description: Data results of the usability study of a virtual reality application for cycling exercise in patients with lower limb disorders and elders. This dataset collection includes the results of the Intrinsic Motivation Inventory (IMI), the Credibility and Expectancy Questionnaire (CEQ) and the System Usability Scale (SUS) completed by patients with lower limb disorders (PwLLD). And it is also includes the results of the System Usability Scale (SUS), the Presence Questionnaire (PQ), the Game User Experience Satisfaction Scale (GUESS) of 18 items and the Sickness Simulator Questionnaire (SSQ) (pre-post exposure to the VR system) completed by elders.
DOI: 10.5519/qd.dntbnpo3
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1 records)
DOI: 10.5519/qd.7yujscfi
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1 records)
DOI: 10.5519/qd.b00ryx84
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1 records)
DOI: 10.5519/qd.57i82f01
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1 records)
DOI: 10.23729/d213ae5d-fa3c-4b3e-b18c-7357c8f089ed
title: Tutorial Dynamic organic growth modeling with a volatility basis set: package vbsgrowth and research data

description: vbsgrowth package for python calculations of monodisperse aerosol growth from oxygenated organic compounds using a volatility basis set (VBS) corresponding to the GitLab repository https://version.helsinki.fi/atm-public/vbsgrowth on July 22nd 2022, the submission date of the revised version to the Journal of Aerosol Science.
DOI: 10.5281/zenodo.6882555
title: NDVI from Copernicus Global Land Service over Mumbai (India)

description: This data collection contains two datasets over the region of Mumbai (India): - Long-term statistics of NDVI computed over 1999-2019 - NDVI values for 2021 (10-days) The original NDVI datasets can be downloaded from the Copernicus Global Land Service portal (registration is mandatory but free of charge). <br> Data can be downloaded as well directyl from Copernicus Open Access Hub but data are not based on atmospherically and BRDF corrected data.
DOI: 10.5281/zenodo.6882554
title: NDVI from Copernicus Global Land Service over Mumbai (India)

description: This data collection contains two datasets over the region of Mumbai (India): - Long-term statistics of NDVI computed over 1999-2019 - NDVI values for 2021 (10-days) The original NDVI datasets can be downloaded from the Copernicus Global Land Service portal (registration is mandatory but free of charge). <br> Data can be downloaded as well directyl from Copernicus Open Access Hub but data are not based on atmospherically and BRDF corrected data.
DOI: 10.6084/m9.figshare.19393690
title: Quantile-specific heritability of serum growth factor concentrations

description: “Quantile-dependent expressivity” occurs when the effect size of a genetic variant depends upon whether the phenotype (e.g. growth factor concentration) is high or low relative to its distribution. Quantile-regression analysis was applied to family sets from the Framingham Heart Study to determine whether the heritability (<i>h<sup>2</sup></i>) of vascular endothelial growth factor (VEGF), hepatocyte growth factor (HGF), angiopoietin-2, and angiopoietin-2 (sTie-2) and VEGFR1 (sFlt-1) receptor concentrations were quantile-specific. Quantile-specific <i>h<sup>2</sup></i> (±SE) increased with increasing percentiles of the age- and sex-adjusted VEGF (<i>P</i><sub>trend</sub>&lt;10<sup>−16</sup>), HGF (<i>P</i><sub>trend</sub>=0.0004), angiopoietin-2 (<i>P</i><sub>trend</sub>=0.0002), sTie-2 (<i>P</i><sub>trend</sub>=1.2 × 10<sup>−5</sup>), and sFlt-1 distributions (<i>P</i><sub>trend</sub>=0.04). Heritabilities of VEGF, HGF, angiopoitein-2, sTie-2 and sFlt-1 concentrations are quantile dependent. This may explain reported interactions of genetic loci (rs10738760, rs9472159, rs833061, rs3025039, rs2280789, rs1570360, rs2010963) with metabolic syndrome, diet, recurrent miscarriage, hepatocellular carcinoma, erysipelas, diabetic retinopathy, and bevacizumab treatment in their effect on VEGF concentrations.
DOI: 10.6084/m9.figshare.19393690.v2
title: Quantile-specific heritability of serum growth factor concentrations

description: “Quantile-dependent expressivity” occurs when the effect size of a genetic variant depends upon whether the phenotype (e.g. growth factor concentration) is high or low relative to its distribution. Quantile-regression analysis was applied to family sets from the Framingham Heart Study to determine whether the heritability (<i>h<sup>2</sup></i>) of vascular endothelial growth factor (VEGF), hepatocyte growth factor (HGF), angiopoietin-2, and angiopoietin-2 (sTie-2) and VEGFR1 (sFlt-1) receptor concentrations were quantile-specific. Quantile-specific <i>h<sup>2</sup></i> (±SE) increased with increasing percentiles of the age- and sex-adjusted VEGF (<i>P</i><sub>trend</sub>&lt;10<sup>−16</sup>), HGF (<i>P</i><sub>trend</sub>=0.0004), angiopoietin-2 (<i>P</i><sub>trend</sub>=0.0002), sTie-2 (<i>P</i><sub>trend</sub>=1.2 × 10<sup>−5</sup>), and sFlt-1 distributions (<i>P</i><sub>trend</sub>=0.04). Heritabilities of VEGF, HGF, angiopoitein-2, sTie-2 and sFlt-1 concentrations are quantile dependent. This may explain reported interactions of genetic loci (rs10738760, rs9472159, rs833061, rs3025039, rs2280789, rs1570360, rs2010963) with metabolic syndrome, diet, recurrent miscarriage, hepatocellular carcinoma, erysipelas, diabetic retinopathy, and bevacizumab treatment in their effect on VEGF concentrations.
DOI: 10.6084/m9.figshare.19393690.v1
title: Quantile-specific heritability of serum growth factor concentrations

description: “Quantile-dependent expressivity” occurs when the effect size of a genetic variant depends upon whether the phenotype (e.g. growth factor concentration) is high or low relative to its distribution. Quantile-regression analysis was applied to family sets from the Framingham Heart Study to determine whether the heritability (<i>h<sup>2</sup></i>) of vascular endothelial growth factor (VEGF), hepatocyte growth factor (HGF), angiopoietin-2, and angiopoietin-2 (sTie-2) and VEGFR1 (sFlt-1) receptor concentrations were quantile-specific. Quantile-specific <i>h<sup>2</sup></i> (±SE) increased with increasing percentiles of the age- and sex-adjusted VEGF (<i>P</i><sub>trend</sub>&lt;10<sup>−16</sup>), HGF (<i>P</i><sub>trend</sub>=0.0004), angiopoietin-2 (<i>P</i><sub>trend</sub>=0.0002), sTie-2 (<i>P</i><sub>trend</sub>=1.2 × 10<sup>−5</sup>), and sFlt-1 distributions (<i>P</i><sub>trend</sub>=0.04). Heritabilities of VEGF, HGF, angiopoitein-2, sTie-2 and sFlt-1 concentrations are quantile dependent. This may explain reported interactions of genetic loci (rs10738760, rs9472159, rs833061, rs3025039, rs2280789, rs1570360, rs2010963) with metabolic syndrome, diet, recurrent miscarriage, hepatocellular carcinoma, erysipelas, diabetic retinopathy, and bevacizumab treatment in their effect on VEGF concentrations.
DOI: 10.6084/m9.figshare.20358987
title: Questionnaire

description: Questionnaire
DOI: 10.5281/zenodo.6883211
title: Supplementary materials of "Anticausatives in Classical Armenian"

description: Supplementary materials of: Petr A. Kocharov. 2022. Anticausatives in Classical Armenian. Journal of Historical Linguistics. The package includes two wordlists: 1) the complete list of morphological causatives with the suffix -oyc'/uc'- attested in the Armenian Bible; 2) the complete list of the base verbs of the -e-, -i-, -u-, and -a- conjugations attested in the Armenian Bible. The first wordlist additionally contains the base verbs corresponding to the causatives and relevant lexicosyntactic information on these base verbs (the base verbs marked by an asterisk are not attested in the Bible). Both lists are based on the digital concordance of the Armenian Bible available at https://arak29.org, which reproduces the Constantinople 1895 edition.
DOI: 10.6084/m9.figshare.20358966
title: ICTbioStats-QuestionnaireEN-Nov2020

description: An anonymous cross-sectional survey was conducted among the students in the fourth year in regard to the courses they previously attended, in contrast with the ongoing course of emergency medicine (EM) during the first semester of the academic year 2020 – 2021, when all activities went on-line. The questionnaire included items of opinion about courses and self-assessed knowledge, and questions probing into respondents' familiarity with the data science basics.
DOI: 10.5281/zenodo.6883247
title: Oxyrhabdium leporinum zanfona 1

description: .
DOI: 10.5281/zenodo.6883246
title: Oxyrhabdium leporinum zanfona 1

description: .
DOI: 10.5281/zenodo.6883258
title: Supplementary materials of "Anticausatives in Classical Armenian"

description: Supplementary materials of: Petr A. Kocharov. 2022. Anticausatives in Classical Armenian. Journal of Historical Linguistics. The package includes two wordlists: 1) the complete list of morphological causatives with the suffix -oyc'/uc'- attested in the Armenian Bible; 2) the complete list of the base verbs of the -e-, -i-, -u-, and -a- conjugations attested in the Armenian Bible. The first wordlist additionally contains the base verbs corresponding to the causatives and relevant lexicosyntactic information on these base verbs (the base verbs marked by an asterisk are not attested in the Bible). Both lists are based on the digital concordance of the Armenian Bible available at https://arak29.org, which reproduces the Constantinople 1895 edition.