cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/m6dvnphgj5.2
title: Plasma metabolomics in spinal tuberculosis patients and healthy controls

description: This study aimed to conduct a non-targeted metabolomic analysis of plasma from patients with spinal tuberculosis (STB) to systematically elucidate the metabolomic alterations associated with STB. From January 2020 to January 2022, 30 patients with spinal tuberculosis (STBs) clinically diagnosed at the General Hospital of Ningxia Medical University and 30 age- and sex-matched healthy controls (HCs) were selected for this study. Using ultra-high performance liquid chromatography coupled with quadrupole time-of-flight mass spectrometry (UPLC-QTOF/MS) based metabolomics, we analyzed the metabolic profiles of 60 plasma samples.
DOI: 10.17632/stcztggnnp.2
title: Seattle ALS Patient Profile Database (SALSPPD)

description: The Seattle Amyotrophic Lateral Sclerosis (ALS) Patient Profile Database is a rich longitudinal dataset of ALS patients (n = 143) and their partners (spouses, significant others, or caregivers; n = 123) from clinics in Seattle, WA; San Francisco, CA; and Philadelphia, PA. The purpose of the study was to characterize the psychosocial and physical natural history of ALS and the interactions between them. Participants were interviewed in their homes every 3 months for up to 18 months between March 1987 and August 1989. Follow-up phone calls were completed in 1990, 1994, and 2008, primarily to ascertain patient outcomes.

See ReadMe file for information on usage of the database.

Data include information on both exposures and outcomes. See Data Dictionary for full listing.

Domain Contents Examples
ALS ALS Severity Scale Scores lower extremities, upper extremities
BHX Behavioral History alcohol and tobacco use
COG Social Cognition attitudes, beliefs, personality from informant
DDV Disease Devices feeding tube, respirator
DEM Demographics age, education
DHX Disease History symptom onsets, forced vital capacity
DTX Disease Treatments providers, treatments
FAM Family Structure marital status, number of children
FHX Family History neurological diseases, cancer, CVD
MHX Medical History infections, hospitalizations, surgeries
OUT Outcomes vital status
PPF Psychiatric and 
 Psychological Functions appraisals, coping
PSY Psychological Health anger, depression, body appraisal
SRA Social Role Activity hours in different activities, social roles
SSP Social Support support group attendance, social support
STU Study Variables completion, time to visits, study site
DOI: 10.17632/7cg46th7vz.1
title: 2024 -- Zhang, Livi et al, Cell Rep

description: This dataset is related to the paper by Zhang et al, "The representation of decision variables in orbitofrontal cortex is longitudinally stable", published Cell Reports (2024). Using 2P calcium imaging, we recorded the activity of neurons in orbitofrontal cortex (OFC) while mice performed an economic choice task. Recordings continued for up to 40 weeks. We attach here two folders that include (1) pre-processed imaging data (processed with CaImAn) and (2) the Matlab code we used to analyze the data. In each folder, there is a "readme" file that explains the data structure and code used for different analyses presented in the paper.
DOI: 10.17632/pyttcvc6xg.1
title: Soil lead (Pb) in neighbourhoods in Glasgow

description: Total Pb (mg/kg), organic matter (%), and pH from samples collected in Paisley and Bishopbriggs. Duplicate and mean values given. Along with data on controlling factors e.g. information on roads, buildings, and historic industry. For details on data collection and analysis see chapter 3 in http://dx.doi.org/10.7488/era/3340 or https://hdl.handle.net/1842/40575
DOI: 10.17632/9xw6fc9j54.1
title: Pleiotropic brain function of whirlin identified by a novel mutation

description: Raw output files including metadata information for all phenotyping tests in the manuscript (HCA, PIR, open field, OCT and ABR), electrophysiology data files and the qPCR RQ and deltaCT calculated over the triplicates for each sample. Additionally, an R markdown script (.Rmd) containing analysis for phenotyping tests and qPCR.
DOI: 10.57754/fdat.0tbbz-pv088
title: Context and Literality in Idiom Processing: Evidence from Self-Paced Reading

description: This experimental data was created in the context of the project B9 Getting a Grip on Non-Literal Meaning The Dynamics of Understanding Idiomatic Expressions in Language Learners. It is a self-paced reading study.
description: Research carried out in work package B09 of the SFB 833.
DOI: 10.17632/6y4pkv2j55.1
title: Henry Seamount Research Data

description: Contains the research data for "Rejuvenated volcanism and flank collapse deposits on a Cretaceous seamount near El Hierro, Canary Archipelago" by A. Klügel et al. as supplementary information.
Supplementary Table S1: Reference standard measurements of electron microprobe analyses.
Supplementary Table S2: Reference standard measurements of LA-ICP-MS analyses.
Supplementary Table S3: Major and trace element compositions of glasses and groundmass from Henry Seamount samples.
Supplementary Table S4: Radiogenic isotope ratios of volcaniclastic samples from Henry Seamount, and for one sample from the El Hierro 2011-2012 eruption.
Supplementary Table S5: U-series concentrations and activity ratios measured by TIMS.
Supplementary Table S6: Results of Ar-Ar measurements.
DOI: 10.17632/3yc8x8z982.1
title: Simulations and measurements dataset of ETA radar sensing antenna

description: Simulation and measurement data
DOI: 10.17632/ty3t9fpfj4.1
title: Example survey and drawing data

description: Example survey and drawing data
DOI: 10.17632/bp64m9bf56.1
title: Studies on salt adaptation in Sesuvium portulacastrum (L.) L. using molecular and biotechnological approaches

description: Supplementary content of Ph.D. thesis entitled "Studies on salt adaptation in Sesuvium portulacastrum (L.) L. using molecular and biotechnological approaches" by Mr. Jayant Anant Kulkarni
This data includes following components 
Mendeley Table 1: Key findings from the metabolomic studies in different halophytes under salt stress. Findings demonstrated salinity induced metabolic regulations in halophytes.
Mendeley Table 2: Key findings from the transcriptomic studies in different halophytes under salt stress. Findings demonstrated salinity induced molecular regulations in halophytes. 
Mendeley Table 3: Categorization of detected metabolites in different functional groups after performing GC-MS based metabolite profiling in Sesuvium portulacastrum.
Mendeley Table 4: KEGG pathway enrichment analysis of altered metabolites at NR8 after performing GC-MS based metabolite profiling in Sesuvium portulacastrum.
Mendeley Table 5: KEGG pathway enrichment analysis of altered metabolites at NR24 after performing GC-MS based metabolite profiling in Sesuvium portulacastrum.
Mendeley Table 6: KEGG pathway enrichment analysis of altered metabolites at NS8 after performing GC-MS based metabolite profiling in Sesuvium portulacastrum.
Mendeley Table 7: KEGG pathway enrichment analysis of altered metabolites at NS24 after performing GC-MS based metabolite profiling in Sesuvium portulacastrum.
Mendeley Table 8: Meta-analysis of GC-MS based metabolite profiling in different halophytes under salt stress from seven studies (30 datasets). Significantly altered metabolites were identified for pathway analysis and the pathways were ranked using a cumulative pathway score (CPS). Table represents 1) Altered metabolites according to altered pathways, along with metabolite code and Log2 fold change in root and shoot. 2) Ranking of metabolic pathways according to CPS 
Mendeley Supplementary method 1: Correlation of experimental data with theoretical models.
DOI: 10.17632/zdb9ccrpm6.1
title: Egger et al., Spatial organization and functions of Chk1 activation by TopBP1 biomolecular condensates, Cell reports (2024)

description: Mendeley Data set containin all the raw data presented throughthout Egger et al., Cell reports (2024). 
Egger et al. implement their previously proposed ATR/Chk1 activation model by dissociating the functions of ATR and Chk1. Using reverse genetics and optogenetics, they show that Chk1 is phosphorylated at the interface of TopBP1 biomolecular condensates, triggering cell cycle checkpoints and slowing down replication fork progression.
DOI: 10.17632/95bzf9tnfv.1
title: Diagnostic utility of gingival biopsy for pemphigus vulgaris and mucosa membrane pemphigoid: A 10-year cohort study

description: Oral biopsy has been widely performed for the diagnosis of pemphigus vulgaris (PV) and mucosa membrane pemphigoid (MMP). It is more convenient to obtain normal-appearing mucosal tissues with high sensitivity of direct immunofluorescence (DIF) compared to the perilesional mucosa. This study was developed within a retrospective cohort between 2013 and 2023 including 84 PV patients and 74 MMP patients. The hematoxylin-eosin positivity of normal-appearing gingiva was 91.8% for PV and 73.7% for MMP. The DIF positivity of normal-appearing gingiva was 96.1% and 96.3% for PV and MMP, respectively. Compared with the perilesional mucosa (68.8%), the DIF positivity of normal-appearing gingiva (73.7%) was similar to each other in PV, while it was significantly higher (73.3% vs. 96.3%) in MMP (P = 0.02). Our results suggest that normal-appearing gingiva appears to be a good alternative biopsy site for the diagnosis of MMP and those pure gingival PV.
DOI: 10.17632/gt8c5893c4.1
title: Electrospun magnetic nanofibers for triggered inductive heating and organic pollutants degradation: a characterization dataset

description: The data presented shows some properties from electrospun nanofibers as a part of the research article “Magnetic nanofibers for remotely triggered catalytic activity applied to the degradation of organic pollutants” (J.A. Fuentes-García et al., 2022 in press). Morphology, composition, thermal behaviour, and magnetic properties data from the obtained magnetic nanofibers were collected using different state-of-art techniques such as: scanning electron microscopy, X-Ray photon spectroscopy, atenuated total reflectance infared spectroscopy, thermogravymetic analysis, diferential scanning calorimetry and superconducting quantum interference device magnetometry. Also, laboratory made setups were used for the contact angle determination and the magnetically triggered inductive heating responses data collection. The collected dataset was described and analysed, showing the related calculations and curves description with useful parameters for the application of magnetic membranes as inductive heating elements and organic pollutants degradation agents.
DOI: 10.17632/gvrycbk9kv.1
title: DATA AND QUESTIONNAIRE (MALAY & ENGLISH VERSION)

description: Data about the socioeconomic demographic of 200 families living in high-risk drug environments located in East Coast states of Peninsular Malaysia – survey questionnaire through face-to-face interviews in April 2021
DOI: 10.17632/69k4pp6bj6.1
title: LINF_300025500

description: calpain-like cysteine peptidase; Leishmania infantum (strain JPCM5)
DOI: 10.17632/fsxff9bjxh.1
title: LINF_300022200

description: protein of unknown function - conserved; Leishmania infantum (strain JPCM5)
DOI: 10.17632/5jhh6jt3s5.1
title: LINF_300017100

description: MA3 domain-containing protein; Leishmania infantum (strain JPCM5)
DOI: 10.17632/cnympvsrgt.4
title: RNA helicase Ighmbp2 regulates THO complex to ensure cellular mRNA homeostasis

description: Abstract
RNA helicases constitute a large protein family implicated in cellular RNA homeostasis and disease development. Here we show that the RNA helicase Ighmbp2, linked to the neuromuscular disorder SMARD1 associates with polysomes and impacts translation of mRNAs containing short, GC-rich and structured 5’UTRs. Absence of Ighmbp2 causes ribosome stalling at the start codon of target mRNAs, leading to reduced translation efficiency. The main mRNA targets of Ighmbp2-mediated regulation encode for components of the THO complex (THOC), linking Ighmbp2 to mRNA production and nuclear export. Accordingly, failure of Ighmbp2 regulation of THOC causes perturbations of the transcriptome and its encoded proteome, and ablation of THOC subunits phenocopies these changes. Thus, Ighmbp2 is an upstream regulator of THOC. Of note, Ighmbp2-dependent regulation of THOC is also observed in astrocytes derived from patients with SMARD1 disease, suggesting that deregulated mRNA metabolism contributes to SMARD1 etiology and may enable alternative therapeutic avenues. 
 
File conent: Raw full blots as TIFF files. R-script for pSILAC analysis.
DOI: 10.17632/cnympvsrgt.3
title: RNA helicase Ighmbp2 regulates THO complex to ensure cellular mRNA homeostasis

description: Abstract
RNA helicases constitute a large protein family implicated in cellular RNA homeostasis and disease development. Here we show that the RNA helicase Ighmbp2, linked to the neuromuscular disorder SMARD1 (DSMA1) associates with polysomes and impacts on translation of cellular mRNAs containing short, GC-rich and highly structured 5’UTRs. Absence of Ighmbp2 causes ribosome stalling at the start codon of target mRNAs, leading to their reduced translation efficiency. The main mRNA targets of Ighmbp2-mediated regulation encode for components of the THO complex that links mRNA production and nuclear export. Accordingly, failure of Ighmbp2 regulation of the THO complex causes perturbations of the cellular transcriptome and its encoded proteome. Ablation of essential THO complex subunits phenocopies these perturbations. Thus, Ighmbp2 is an upstream regulator of the THO complex that affects cellular mRNA homeostasis. Of note, Ighmbp2 dependent regulation of the THO complex is also observed in astrocytes derived from SMARD1 patients, suggesting that de-regulated mRNA metabolism contributes to SMARD1 etiology and offers new avenues for developing alternative therapeutics to treating SMARD1. 

File conent: Raw full blots as TIFF files. R-script for pSILAC analysis.
DOI: 10.17632/cnympvsrgt.1
title: RNA helicase Ighmbp2 regulates THO complex to ensure cellular mRNA homeostasis

description: Abstract
RNA helicases constitute a large protein family implicated in cellular RNA homeostasis and disease development. Here we show that the RNA helicase Ighmbp2, linked to the neuromuscular disorder SMARD1 (DSMA1) associates with polysomes and impacts on translation of cellular mRNAs containing short, GC-rich and highly structured 5’UTRs. Absence of Ighmbp2 causes ribosome stalling at the start codon of target mRNAs, leading to their reduced translation efficiency. The main mRNA targets of Ighmbp2-mediated regulation encode for components of the THO complex that links mRNA production and nuclear export. Accordingly, failure of Ighmbp2 regulation of the THO complex causes perturbations of the cellular transcriptome and its encoded proteome. Ablation of essential THO complex subunits phenocopies these perturbations. Thus, Ighmbp2 is an upstream regulator of the THO complex that affects cellular mRNA homeostasis. Of note, Ighmbp2 dependent regulation of the THO complex is also observed in astrocytes derived from SMARD1 patients, suggesting that de-regulated mRNA metabolism contributes to SMARD1 etiology and offers new avenues for developing alternative therapeutics to treating SMARD1. 

File conent: Raw full blots as TIFF files.
DOI: 10.17632/ky9jpkhyv9.1
title: Impact of the Fertiliser Input Subsidy Program on the Productivity of Smallholder Cooperative Members in Zambia

description: Survey data from a sample of 438 cooperative members was carried out in November-December 2019 and September 2021. Provinces for data collection are Southern, Western and Central provinces.
DOI: 10.17632/swx8yfrtpr.1
title: LINF_300025900

description: RNA-binding domain (NFACT type) containing protein; Leishmania infantum (strain JPCM5)
DOI: 10.17632/y66tjjv32k.1
title: LINF_300026400

description: protein of unknown function - conserved; Leishmania infantum (strain JPCM5)
DOI: 10.17632/s4yjykzypt.1
title: LINF_300027400

description: Zinc finger (C3H1-type) domain-containing protein; Leishmania infantum (strain JPCM5)
DOI: 10.17632/ndrhjkx2hv.1
title: LINF_300027300

description: RNA-binding protein | DRBD5; Leishmania infantum (strain JPCM5)
DOI: 10.17632/zdmsh6z2xt.1
title: Factors affecting smallholder earthen pond fish farm yields in the Rwenzori region of Uganda

description: The dataset includes survey data from smallholder fish farms in five districts of the mountainous Rwenzori region in Uganda, together with gridded rainfall and temperature data as well as a 0.0083° resolution Köppen-Geiger climate classification map to assess the barriers that prevent the expansion of the aquaculture production, as well as the influence of climatic variations, production methods, and sociodemographic factors on aquaculture yields.
DOI: 10.17632/cfd5g3gbp8.1
title: LINF_300026500

description: protein of unknown function - conserved; Leishmania infantum (strain JPCM5)
DOI: 10.17632/67h7rgjvys.2
title: Ambient conditions gamma-ray glow compared with GROWTH observations

description: Data of paper submitted to JGR atmospheres (2022) Diniz et al. 
Data description enclosed in the "read me" file.
DOI: 10.17632/gyjsdxdgc9.1
title: Data to replicate: The Geography of Mathematical (Dis)Opportunity

description: Abstract
Research has shown that mathematical proficiency gaps are related to students’ and schools’ indicators of poverty, with fewer studies on neighborhood effects on achievement gaps. Although this literature has accounted for students’ nesting within schools, so far methodological constraints have not allowed researchers to formally account for both multilevel and spatial effects. We contribute to this discussion by simultaneously considering test-takers own socioeconomic standing and the impact of their nesting school and neighborhood structures. Multilevel simultaneous autoregressive (MSAR) models and population-level data of 2.09 million test-takers, whose standardized performances were measured at grades 3 to 8 in New York State, revealed the presence of geography of mathematical (dis)opportunity. Since mathematical performance is spatially dependent across schools and neighborhoods, moving forward, applied researchers should rely on MSAR to account for sources of spatially driven bias that cannot be handled with multilevel models alone. Full replication code and data is provided https://cutt.ly/N4zRstL.
To be featured at AERA OPEN
DOI: 10.17632/prdgmjcg69.3
title: Dataset for the paper: Assessing the impact of forest management and climate on a peatland under Scots pine monoculture using a multidisciplinary approach

description: This data set includes palaeoecological data from Okoniny peatland that were published in the paper:
Bąk, M., Lamentowicz, M., Kołaczek, P., Wochal, D., Matulewski, P., Kopeć, D., Wietecha, M., Jaster, D., Marcisz, K., 2024. Assessing the impact of forest management and climate on a peatland under Scots pine monoculture using a multidisciplinary approach.
Publication available under a link: https://doi.org/10.5194/egusphere-2024-1308

The study was funded by the National Science Centre, Poland, grant 2020/39/D/ST10/00641. Remote sensing data collection and visualization were done within the scope of the project “Protection of Valuable Ecosystems of Tuchola Forest" funded by the European Economic Area Financial Mechanism 2014-2021 within the framework of the Environment, Energy and Climate Change Programme MF EEA 2014-2021 "Implementation of Ecosystem Management Plans".

The data set includes several proxies: 
- 14C dates and peat accumulation rates, bulk density
- Testate amoebae and depth to water table reconstruction
- Pollen and NPP
- Plant macrofossils
- Macroscopic and microscopic charcoal
- Dendroclimatic data
DOI: 10.17632/95c8wrz26v.1
title: Roles of epidermal growth factor receptor, claudin-1 and occludin in multi-step entry of hepatitis C virus into polarized hepatoma spheroids

description: HCV entry manuscript
DOI: 10.17632/yk7jfnbm34.1
title: LDHU3_07.1580

description: Chorein N domain-containing protein; Leishmania donovani (HU3 strain)
DOI: 10.17632/y37dn8j68p.1
title: LDHU3_07.1550

description: Protein of unknown function - conserved; Leishmania donovani (HU3 strain)
DOI: 10.17632/wr36275rg6.1
title: LINF_300031300

description: protein of unknown function - conserved; Leishmania infantum (strain JPCM5)
DOI: 10.17632/vfjjtwstw9.1
title: Zalm et al. technical drawings

description: The are the technical diagrams for the radiation setup as described in the STAR Protocols paper "Local irradiation of patient-derived tumors in immunodeficient mice" .
DOI: 10.17632/9djcgg24t4.1
title: LINF_300027900

description: zinc-finger protein; Leishmania infantum (strain JPCM5)
DOI: 10.17632/h6zy9s4xf6.1
title: LINF_300028500

description: protein of unknown function - conserved; Leishmania infantum (strain JPCM5)
DOI: 10.17632/2f2w5kstmv.1
title: LDHU3_07.1590

description: Amino acid transporter | AAT19; Leishmania donovani (HU3 strain)
DOI: 10.17632/b5fv7txy2m.1
title: The Thermal Dependent Biology of Cultured Lummpfish (Cyclopterus lumpus Linnaeus 1758): Differences Due to Temperatures During Early Life and How Tolerance is Measured

description: Thus, we reared lumpfish embryos (eggs), larvae and juveniles under different temperature regimes, and measured their metabolic physiology and upper thermal limits, with the goal of better understanding their physiology and mitigating the effects of high summer water temperatures on their welfare. The specific incubation (egg) / rearing temperature combinations were 6°C / 9°C (normal production temperatures), 8.5°C / 9°C, 6-11°C / 9°C, 8.5°C / 9-11°C and 6-11°C / 9-11°C; with a range of temperatures indicating that fish were exposed to stochastic temperature changes.
DOI: 10.5281/zenodo.14699186
title: synthea FHIR resources for Orange case studies
DOI: 10.5281/zenodo.14699187
title: synthea FHIR resources for Orange case studies
DOI: 10.17632/z7gbxsjv3w.1
title: LDHU3_08.0080

description: Phosphoglycerate mutase; Leishmania donovani (HU3 strain)
DOI: 10.17632/yrrdy9x5vg.1
title: LINF_300027800

description: protein of unknown function - conserved; Leishmania infantum (strain JPCM5)
DOI: 10.17632/hvbv44vv59.1
title: gnss_clock_aging_dataset

description: Raw data used in the publication "Aging of ground Global Navigation Satellite System oscillators" (DOI: https://doi.org/10.17531/ein.2022.2.18).

1. logs.zip - GNSS permanent station logs downloaded from IGS ftp server (https://files.igs.org/pub/station/log/)
2. clock.zip - calculated HDEV of selected reference stations (https://cddis.gsfc.nasa.gov/archive/gnss/products/)
DOI: 10.17632/x9c3jbb37g.1
title: Antibacterial flavonoids from Tetrapleura tetraptera (Fabaceae) fruit pulp

description: Tetrapleura tetraptera fruit pulps were extracted, extracts partioned into hexane, ethyl acetate, methanol, n-butanol fractions. n-butanol fraction was chromatographed on gravity liquid columns with silica gel, sephadex LH20 columns, and the preparatory HPLC to obtain pure compounds. Data obtained from NMR and Mass spectroscopic analysis of pure compounds is recorded herein. Pure compounds were assayed for antibacterial activity on ten strains of bacterial both gram-(+) and gram-(-), their MICs and MBC included. Data also developed from Molecular Docking, molecular Dynamics and ADMET studies is represented in this dataset.
DOI: 10.17632/62tr7cxths.1
title: Geochronological data of the late Mesoproterozoic-early Neoproterozoic strata in northeastern margin of the North China Craton

description: This dataset includes the detrital zircon and apatite U-Pb isotopic data and trace element data.
DOI: 10.17632/wprg2cr769.1
title: Supplementary information for Decreased CD19+CD24hiCD38hi Regulatory B cells in Alopecia Areata

description: Supplementary information for Decreased CD19+CD24hiCD38hi Regulatory B cells in Alopecia Areata: A case control study