cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7334300
title: Accurate delineation of cell cycle phase transitions in living cells with PIP-FUCCI

description: Cell cycle phase transitions are tightly orchestrated to ensure efficient cell cycle progression and genome stability. Interrogating these transitions is important for understanding both normal and pathological cell proliferation. By quantifying the dynamics of the popular FUCCI reporters relative to the transitions into and out of S phase, we found that their dynamics are substantially and variably offset from true S phase boundaries. To enhance detection of phase transitions, we generated a new reporter whose oscillations are directly coupled to DNA replication and combined it with the FUCCI APC/C reporter to create “PIP-FUCCI”. The PIP degron fusion protein precisely marks the G1/S and S/G2 transitions; shows a rapid decrease in signal in response to large doses of DNA damage only during G1; and distinguishes cell type-specific and DNA damage source-dependent arrest phenotypes. We provide guidance to investigators in selecting appropriate fluorescent cell cycle reporters and new analysis strategies for delineating cell cycle transitions.
DOI: 10.6084/m9.figshare.7334342
title: Design of antimalarial transmission blocking agents: Pharmacophore mapping of ligands active against stage-V mature gametocytes of <i>Plasmodium falciparum</i>

description: The discovery of transmission-blocking (T-B) agents is crucial for preventing and complete removal of malaria infection. However, most of the existing antimalarials are only active against the asexual stages of <i>Plasmodium</i> parasite, but ineffective against the sexual stage (gametocytes). In this background, we have developed pharmacophore models against the stage-V mature gametocytes of <i>P. falciparum</i> parasites. The pharmacophore model (Hypo-1) showed five pharmacophoric features namely, one hydrogen bond donor (HBD), one hydrophobic aliphatic (HYAl), one ring aromatic (RA), and two hydrophobic aromatic (HYAr) essential for the anti-gametocytic activity. The amino, methyl, fused phenyl ring of the quinazoline heterocycle, two phenyl rings of biphenyl moiety (HBD, HYAl, HYAr1, HYAr2 and RA) are the crucial features responsible for the non-specific anti-gametocytic activity (PfG). Subsequently, the model (Hypo-2) developed against the stage-V female gametocytes (PffG) showed the contribution of three pharmacophoric features namely, two hydrogen bond acceptor (HYA) and one RA required for the anti-gametocytic activity. The sulfhydryl, imine and pyridyl groups are observed to be essential for anti-gametocytic activity against female gametocytes. Both the models (PfG and PfGG) showed the classification accuracies of 78.26 and 71.64% for training set compounds and 60.80 and 60.18% for the test set compounds, respectively, for classification of compounds into higher and lower active classes. Also, both the models were found to retain the higher active compounds (IC<sub>50</sub> &lt;100 nM) in top 1% of total compounds (actives and decoys) as observed after screening the decoy set compounds. Communicated by Ramaswamy H Sarma
DOI: 10.6084/m9.figshare.7334342.v1
title: Design of antimalarial transmission blocking agents: Pharmacophore mapping of ligands active against stage-V mature gametocytes of <i>Plasmodium falciparum</i>

description: The discovery of transmission-blocking (T-B) agents is crucial for preventing and complete removal of malaria infection. However, most of the existing antimalarials are only active against the asexual stages of <i>Plasmodium</i> parasite, but ineffective against the sexual stage (gametocytes). In this background, we have developed pharmacophore models against the stage-V mature gametocytes of <i>P. falciparum</i> parasites. The pharmacophore model (Hypo-1) showed five pharmacophoric features namely, one hydrogen bond donor (HBD), one hydrophobic aliphatic (HYAl), one ring aromatic (RA), and two hydrophobic aromatic (HYAr) essential for the anti-gametocytic activity. The amino, methyl, fused phenyl ring of the quinazoline heterocycle, two phenyl rings of biphenyl moiety (HBD, HYAl, HYAr1, HYAr2 and RA) are the crucial features responsible for the non-specific anti-gametocytic activity (PfG). Subsequently, the model (Hypo-2) developed against the stage-V female gametocytes (PffG) showed the contribution of three pharmacophoric features namely, two hydrogen bond acceptor (HYA) and one RA required for the anti-gametocytic activity. The sulfhydryl, imine and pyridyl groups are observed to be essential for anti-gametocytic activity against female gametocytes. Both the models (PfG and PfGG) showed the classification accuracies of 78.26 and 71.64% for training set compounds and 60.80 and 60.18% for the test set compounds, respectively, for classification of compounds into higher and lower active classes. Also, both the models were found to retain the higher active compounds (IC<sub>50</sub> &lt;100 nM) in top 1% of total compounds (actives and decoys) as observed after screening the decoy set compounds. Communicated by Ramaswamy H Sarma
DOI: 10.7284/103701
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise RR1117 using a Hawaii UHDAS instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7334267
title: Supplementary Material for: The Effect of Recombinant Human Erythropoietin on Bacterial Growth: A Dual-Edged Sword

description: <b><i>Background:</i></b> Hypererythropoietinemia is associated with common diseases like non-uremic anaemia where infection burden is high. Erythropoietin (EPO) is also given as therapy for anaemia associated with chronic kidney disease and cancer and in those who are at a higher risk of infections. EPO is known to have an effect on macrophages by which it helps in the growth of some intracellular pathogens. However, its direct role on bacterial growth is currently unknown. <b><i>Summary:</i></b> Here, we investigated the direct effect of recombinant human erythropoietin (rhuEPO) on the growth of pathogenic <i>Escherichia coli</i>, <i>Staphylococcus aureus</i> and <i>Pseudomonas aeruginosa</i>. In silico experiments were designed to gain insight into the mechanisms. We found that 30 IU/L rhuEPO promoted the growth of <i>E. coli</i> and <i>S. aureus</i> and inhibited the growth of <i>P. aeruginosa</i>. In silico observations suggest that bacterial cell surface proteins may interact with the EPO and may cause the observed effects. <b><i>Key Message:</i></b> It appears that some pathogens can explore EPO to proliferate and growth of others are inhibited by the same. The consequence of such observation is a matter of widespread concern for future research.
DOI: 10.6084/m9.figshare.7334267.v1
title: Supplementary Material for: The Effect of Recombinant Human Erythropoietin on Bacterial Growth: A Dual-Edged Sword

description: <b><i>Background:</i></b> Hypererythropoietinemia is associated with common diseases like non-uremic anaemia where infection burden is high. Erythropoietin (EPO) is also given as therapy for anaemia associated with chronic kidney disease and cancer and in those who are at a higher risk of infections. EPO is known to have an effect on macrophages by which it helps in the growth of some intracellular pathogens. However, its direct role on bacterial growth is currently unknown. <b><i>Summary:</i></b> Here, we investigated the direct effect of recombinant human erythropoietin (rhuEPO) on the growth of pathogenic <i>Escherichia coli</i>, <i>Staphylococcus aureus</i> and <i>Pseudomonas aeruginosa</i>. In silico experiments were designed to gain insight into the mechanisms. We found that 30 IU/L rhuEPO promoted the growth of <i>E. coli</i> and <i>S. aureus</i> and inhibited the growth of <i>P. aeruginosa</i>. In silico observations suggest that bacterial cell surface proteins may interact with the EPO and may cause the observed effects. <b><i>Key Message:</i></b> It appears that some pathogens can explore EPO to proliferate and growth of others are inhibited by the same. The consequence of such observation is a matter of widespread concern for future research.
DOI: 10.7284/110556
title: Expendable Probe data collected during research cruise RR1117 using a Turo Quoll instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/103702
title: GNSS (Global Navigation Satellite System) data collected during research cruise RR1117 using a Ashtech ADU2 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7334189
title: Chemical Education Pollutants PTML Modelling

description: The hazardous organic waste generation in teaching and research laboratories suppose a big problem in education. In this work we report and experimental measurement of waste generation on the chemical education laboratories of our department. The data set released includes the results of the experimental measures and PTML models including chemical, operational, and academic factors for 6050 cases of laboratory practices <i>vs</i>. practices of reference.
DOI: 10.7284/103722
title: GNSS (Global Navigation Satellite System) data collected during research cruise RR1117 using a Furuno GP-150 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7334171
title: Mircoarray data-LncRNA Analysis of Lung Tissues after hUC-MSCandFTY720 Treatment of Lipopolysaccharide-induced Acute Lung Injury in Mice

description: <b>Methods</b>. We built a lipopolysaccharide (LPS)-induced ALI model in mice. After treatment with hUC-MSCs, FTY720, or a combination of hUC-MSCs and FTY207, the lung inflammatory response was apparently attenuated. To understand the mechanism underlying MSC treatment of ALI at the genetic level, significant differentially expressed long non-coding RNAs (lncRNAs) between the treatment and model groups were analyzed using microarray technology. Moreover, genetic gene prediction, gene ontology (GO) analysis, pathway analysis, and transcription factor (TF) prediction were carried out. The research procedures were approved by the Affiliated Hospital of Military Medical Science Scientific Research Ethics Committee.（IRB Approval number: ky-2015-3-7）
DOI: 10.6084/m9.figshare.7334162
title: The shared carrier shared depot collaboration vehicle routing problem

description: This study proposed a novel logistics collaboration model for a shared carrier shared depot collaboration vehicle routing problem (SCSDC-VRP) which inspired by the fact between a set of carriers and depots that a depot have order for multiple carriers and a carrier deliver order to multiple depots. This problem involves reducing transportation distance and improving capacity utilization by extending unilateral logistics collaboration between supply-sides to consider collaboration between supply-sides and collaboration between demand-sides simultaneously
DOI: 10.7284/104693
title: GNSS (Global Navigation Satellite System) data collected during research cruise RR1117 using a Furuno GP-150 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7334162.v2
title: The shared carrier shared depot collaboration vehicle routing problem

description: This study proposed a novel logistics collaboration model for a shared carrier shared depot collaboration vehicle routing problem (SCSDC-VRP) which inspired by the fact between a set of carriers and depots that a depot have order for multiple carriers and a carrier deliver order to multiple depots. This problem involves reducing transportation distance and improving capacity utilization by extending unilateral logistics collaboration between supply-sides to consider collaboration between supply-sides and collaboration between demand-sides simultaneously
DOI: 10.6084/m9.figshare.7334162.v1
title: The shared carrier shared depot collaboration vehicle routing problem

description: This study proposed a novel logistics collaboration model for a shared carrier shared depot collaboration vehicle routing problem (SCSDC-VRP) which inspired by the fact between a set of carriers and depots that a depot have order for multiple carriers and a carrier deliver order to multiple depots. This problem involves reducing transportation distance and improving capacity utilization by extending unilateral logistics collaboration between supply-sides to consider collaboration between supply-sides and collaboration between demand-sides simultaneously
DOI: 10.6084/m9.figshare.7334171.v2
title: LncRNA Analysis of Lung Tissues after hUC-MSCandFTY720 Treatment of Lipopolysaccharide-induced Acute Lung Injury in Mice

description: <b>Methods</b>. We built a lipopolysaccharide (LPS)-induced ALI model in mice. After treatment with hUC-MSCs, FTY720, or a combination of hUC-MSCs and FTY207, the lung inflammatory response was apparently attenuated. To understand the mechanism underlying MSC treatment of ALI at the genetic level, significant differentially expressed long non-coding RNAs (lncRNAs) between the treatment and model groups were analyzed using microarray technology. Moreover, genetic gene prediction, gene ontology (GO) analysis, pathway analysis, and transcription factor (TF) prediction were carried out. The research procedures were approved by the Affiliated Hospital of Military Medical Science Scientific Research Ethics Committee.（IRB Approval number: ky-2015-3-7）
DOI: 10.7284/104696
title: GNSS (Global Navigation Satellite System) data collected during research cruise RR1117 using a Ashtech ADU2 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7334171.v1
title: LncRNA Analysis of Lung Tissues after hUC-MSCandFTY720 Treatment of Lipopolysaccharide-induced Acute Lung Injury in Mice

description: <b>Methods</b>. We built a lipopolysaccharide (LPS)-induced ALI model in mice. After treatment with hUC-MSCs, FTY720, or a combination of hUC-MSCs and FTY207, the lung inflammatory response was apparently attenuated. To understand the mechanism underlying MSC treatment of ALI at the genetic level, significant differentially expressed long non-coding RNAs (lncRNAs) between the treatment and model groups were analyzed using microarray technology. Moreover, genetic gene prediction, gene ontology (GO) analysis, pathway analysis, and transcription factor (TF) prediction were carried out. The research procedures were approved by the Affiliated Hospital of Military Medical Science Scientific Research Ethics Committee.（IRB Approval number: ky-2015-3-7）
DOI: 10.7284/104695
title: Gravimeter data collected during research cruise RR1117 using a Bell BGM-3 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7334153
title: Structural setting and detrital zircon U–Pb geochronology of Triassic–Cenozoic strata in the eastern Central Pamir, Tajikistan

description: Tables S5<i>a</i>-<i>l</i>. Detrital zircon U–Pb data
DOI: 10.6084/m9.figshare.7334144
title: Structural setting and detrital zircon U–Pb geochronology of Triassic–Cenozoic strata in the eastern Central Pamir, Tajikistan

description: Table S1. Coordinates of field stations. Table S2. Maximum deposition ages from detrital U–Pb analyses. Table S3. Zircon hafnium isotopic data. Table S4. Representative electron microprobe analyses.
DOI: 10.6084/m9.figshare.7334153.v1
title: Structural setting and detrital zircon U–Pb geochronology of Triassic–Cenozoic strata in the eastern Central Pamir, Tajikistan

description: Tables S5<i>a</i>-<i>l</i>. Detrital zircon U–Pb data
DOI: 10.7284/104694
title: Gyrocompass data collected during research cruise RR1117 using a iXSea Hydrins instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7334144.v1
title: Structural setting and detrital zircon U–Pb geochronology of Triassic–Cenozoic strata in the eastern Central Pamir, Tajikistan

description: Table S1. Coordinates of field stations. Table S2. Maximum deposition ages from detrital U–Pb analyses. Table S3. Zircon hafnium isotopic data. Table S4. Representative electron microprobe analyses.
DOI: 10.6084/m9.figshare.7334066
title: High abundances of class 1 integrase and sulfonamide resistance genes, and characterisation of class 1 integron gene cassettes in four urban wetlands, Nigeria

description: qPCR data of the antibiotic resistance indicator genes sul1, sul2, and intI1 as well as of bacterial 16S<br>
DOI: 10.7284/104697
title: Gyrocompass data collected during research cruise RR1117 using a iXSea Phins instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/103706
title: Meteorological Station data collected during research cruise RR1117 using a SIO MET-System instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.17028/rd.lboro.7333850
title: Multiwavelength laser beam induced current data

description: Multi-wavelength laser beam induced current measurements present a spatially resolved form of the external quantum efficiency.This is part of a collection (https://doi.org/10.17028/rd.lboro.c.4299728) for the article "Water based spray pyrolysis of metal-oxide solutions for CZTSSe solar cells using low toxicity amine/thiol complexants".<br>
DOI: 10.6084/m9.figshare.7334066.v1
title: High abundances of class 1 integrase and sulfonamide resistance genes, and characterisation of class 1 integron gene cassettes in four urban wetlands, Nigeria

description: qPCR data of the antibiotic resistance indicator genes sul1, sul2, and intI1 as well as of bacterial 16S<br>
DOI: 10.17028/rd.lboro.7333862
title: Supplementary information explaining the deposition procedure for CZTSSe solar cells

description: A selection of supplementary material explaining the deposition procedure for CZTSSe solar cells.This is part of a collection (https://doi.org/10.17028/rd.lboro.c.4299728) for the article "Water based spray pyrolysis of metal-oxide solutions for CZTSSe solar cells using low toxicity amine/thiol complexants".<br>
DOI: 10.7284/103705
title: Multibeam Echosounder data collected during research cruise RR1117 using a Kongsberg EM122 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.17028/rd.lboro.7333850.v1
title: Multiwavelength laser beam induced current data

description: Multi-wavelength laser beam induced current measurements present a spatially resolved form of the external quantum efficiency.This is part of a collection (https://doi.org/10.17028/rd.lboro.c.4299728) for the article "Water based spray pyrolysis of metal-oxide solutions for CZTSSe solar cells using low toxicity amine/thiol complexants".<br>
DOI: 10.17028/rd.lboro.7333862.v1
title: Supplementary information explaining the deposition procedure for CZTSSe solar cells

description: A selection of supplementary material explaining the deposition procedure for CZTSSe solar cells.This is part of a collection (https://doi.org/10.17028/rd.lboro.c.4299728) for the article "Water based spray pyrolysis of metal-oxide solutions for CZTSSe solar cells using low toxicity amine/thiol complexants".<br>
DOI: 10.6084/m9.figshare.7333841
title: Temperature and relative humidity vs Polarization Mode Dispersion (PMD) data in highland and semi arid areas conducted in Mau Summit and Sultan Hamud respectively

description: This data was obtained in a fibre optic communication cable deployed in the field. Two climatic zones were tested i.e. tropical highland and semi arid area. The field test activity was carried out at hourly intervals and lasted for about 1500 hours in each climatic zone. Polarization Mode Dispersion was measured alongside temperature and relative humidity fluctuations at hourly intervals.
DOI: 10.7284/104709
title: Winch data collected during research cruise RR1117 using a Markey DUSH-5 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/104719
title: Winch data collected during research cruise RR1117 using a Markey DUTW-9-11 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7333829
title: Supplementary Material for: Coronary Artery Calcification in Hemodialysis and Peritoneal Dialysis

description: <b><i>Background:</i></b> Vascular calcification is seen in most patients on dialysis and is strongly associated with cardiovascular mortality. Vascular calcification is promoted by phosphate, which generally reaches higher levels in hemodialysis than in peritoneal dialysis. However, whether vascular calcification develops less in peritoneal dialysis than in hemodialysis is currently unknown. Therefore, we compared coronary artery calcification (CAC), its progression, and calcification biomarkers between patients on hemodialysis and peritoneal dialysis. <b><i>Methods:</i></b> We measured CAC in 134 patients who had been treated exclusively with hemodialysis (<i>n</i> = 94) or peritoneal dialysis (<i>n</i> = 40) and were transplantation candidates. In 57 of them (34 on hemodialysis and 23 on peritoneal dialysis), we also measured CAC progression annually up to 3 years and the inactive species of desphospho-uncarboxylated matrix Gla protein (dp-ucMGP), fetuin-A, osteoprotegerin. We compared CAC cross-sectionally with Tobit regression. CAC progression was compared in 2 ways: with linear mixed models as the difference in square root transformed volume score per year (ΔCAC SQRV) and with Tobit mixed models. We adjusted for potential confounders. <b><i>Results:</i></b> In the cross-sectional cohort, CAC volume scores were 92 mm<sup>3</sup> in hemodialysis and 492 mm<sup>3</sup> in peritoneal dialysis (adjusted difference 436 mm<sup>3</sup>; 95% CI –47 to 919; <i>p</i> = 0.08). In the longitudinal cohort, peritoneal dialysis was associated with significantly more CAC progression defined as ΔCAC SQRV (adjusted difference 1.20; 95% CI 0.09 to 2.31; <i>p</i> = 0.03), but not with Tobit mixed models (adjusted difference in CAC score increase per year 106 mm<sup>3</sup>; 95% CI –140 to 352; <i>p</i> = 0.40). Peritoneal dialysis was associated with higher osteoprotegerin (adjusted <i>p</i> = 0.02) but not with dp-ucMGP or fetuin-A. <b><i>Conclusions:</i></b> Peritoneal dialysis is not associated with less CAC or CAC progression than hemodialysis, and perhaps with even more progression. This indicates that vascular calcification does not develop less in peritoneal dialysis than in hemodialysis.