cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/9mb472sw6h
title: Improved Sendai Viral System for Reprogramming to Naive Pluripotency 

description: These are raw image files and numerical data used in the manuscript entitled "Improved Sendai Viral System for Reprogramming to Naive Pluripotency ".
DOI: 10.17632/ft4ztnkgtr
title: NNPE

description: A code that automatically calculates missing data of any group of weather stations based on the station with the most consistent records of the group, called Neural Network Precipitation Estimator (NNPE)

Initial preparation:
*Install Python:

If you don't have Python installed, download it from python.org and install it.
*Install the necessary libraries:

Open the terminal or command prompt (depending on your operating system) and run the following command to install the required libraries: pip install pandas numpy scikit-learn matplotlib openpyxl
#You can run this code from the terminal or command prompt:

Steps to run the code from the terminal or command prompt:
*Prepare the files:

Save the code in a text file with .py extension.
Make sure you have an Excel file called Input.xlsx in the same directory as the .py file. This file should have a structure similar to what the code expects.
*Execute the code:

Open the terminal or command prompt.
Navigate to the directory where your .py and Input.xlsx file are located.
Type python filename.py (replace filename.py with the actual name of your Python file) and press Enter.
*Interact with the program:

The program will ask you to enter a number, either 1 or 2, to determine the number of base stations to use.
Follow the instructions that appear in the terminal or command prompt depending on the questions the program asks.
Or You can run this code from Jupyter Lab:
Steps to run the code in Jupyter Lab:
Initial preparation:
*Install Jupyter Lab:
If you don't already have Jupyter Lab installed, you can do so by using pip in your terminal or command prompt with the command: pip install jupyterlab
*Open Jupyter Lab:
Open the terminal or command prompt.
Navigate to the directory where your .ipynb and Input.xlsx file is located.
Run the jupyter lab command. This will open Jupyter Lab in your default web browser.
Code execution:
*Create a new notebook:
In Jupyter Lab, click the "New" button and select "Notebook: Python" to create a new notebook.
*Copy and paste the code:
In a cell of the notebook, copy and paste the provided code.
*Execute the code in sections:
Divide the code into logical sections (cells). You can do this by separating each block of code with comments indicating sections #0, #1, #2, etc.
Click on a cell and press Shift + Enter to run that section of code.
*Interact with the program:
When the program prompts for input (as in section #6), enter the answer in the appropriate cell and press Enter.
*Observe the results:
If there are parts of the code that generate graphs, these will be displayed directly below the corresponding code cells.
*Save results (optional):
You can save the generated results to files if the part of the code that saves the graphs or data to CSV files has been uncommented.
*End execution:
Continue executing the cells until you have finished using the code.
Once finished, close Jupyter Lab or save and close the notebook if you want to resume work later.
DOI: 10.17632/fz8hfk645g
title: LDHU3_05.1310

description: Protein of unknown function – conserved; Leishmania donovani (HU3 strain)
DOI: 10.17632/jkx55fyxcp
title: An upwind finite difference method to singularly perturbed parabolic convection-diffusion problems with discontinuous initial conditions on a piecewise-uniform mesh

description: the description outlines a specific numerical approach (upwind finite difference method) for solving a type of partial differential equation (singularly perturbed parabolic convection-diffusion problems) with additional complexities such as discontinuous initial conditions. The choice of a piecewise-uniform mesh suggests a structured grid approach for discretizing the spatial domain. This kind of numerical method is commonly employed in scientific computing and engineering to simulate and analyze physical processes governed by partial differential equations.
DOI: 10.17632/ndvs5mf8hx
title: CHK1 Inhibitor Blocks Phosphorylation of FAM122A and Promotes Replication Stress, Li et al.

description: Set of raw data for Li et al., Mol Cell 2020
DOI: 10.17632/rrcxjzv2jf
title: A disproportionality analysis of thromboembolic and cardiovascular adverse events about various JAK inhibitors base on FAERS database. version3

description: This is the supplementary materials of "A disproportionality analysis of thromboembolic and cardiovascular adverse events about various JAK inhibitors base on FAERS database" on Oct.14th, 2024.
DOI: 10.17632/wkcwr57bxy
title: Paper memory neural words

description: The goal of the present study was to investigate whether exposing individuals with MDD to negative cues during the encoding stage would lead to deeper cognitive processing and improved memory retention of subsequent information. We hypothesized that in the MDD group, exposure to the negative prime cue would result in better recall of the subsequent word list compared to exposure to the positive prime cue. Furthermore, we predicted that the impact of the emotional prime cue on memory recall would be more pronounced when presented during the encoding stage compared to the retrieval stage. For the encoding condition, in the MDD group we found a significant difference indicating better word recalling for the negative compared to the positive video valance condition. In the HC group there was no significant difference between the two video valence conditions. For the retrieval condition, the results revealed no video valence X group interaction. Consistent with assumptions, individuals with MDD, but not HCs, showed enhanced word recall after exposure to negative, compared to positive, emotional stimuli during encoding. Notably, this effect was not observed when the emotional video was presented during the retrieval stage
DOI: 10.17632/xsb56m9gs8
title: Coordinated Action of Multiple Transporters in the Acquisition of Essential Cationic Amino Acids by the Intracellular Parasite Toxoplasma gondii (LC-MS Repeat Data set 2)

description: Intracellular parasites of the phylum Apicomplexa are dependent on the scavenging of essential amino acids from their hosts. We previously identified a large family of apicomplexan-specific plasma membrane-localized amino acid transporters, the ApiATs, and showed that the Toxoplasma gondii transporter TgApiAT1 functions in the selective uptake of arginine. TgApiAT1 is essential for parasite virulence, but dispensable for parasite growth in medium containing high concentrations of arginine, indicating the presence of at least one other arginine transporter. Here we identify TgApiAT6-1 as the second arginine transporter. Using a combination of parasite assays and heterologous characterisation of TgApiAT6-1 in Xenopus laevis oocytes, we demonstrate that TgApiAT6-1 is a general cationic amino acid transporter that mediates both the high-affinity uptake of lysine and the low-affinity uptake of arginine. TgApiAT6-1 is the primary lysine transporter in the disease-causing tachyzoite stage of T. gondii and is essential for parasite proliferation. Here we provide an LC-MS data set of Xenopus laevis oocytes expressing the TgApiAT6-1 transporter in the presence of Arg or Lys and the TgApiAT1 transporter in the presence of Arg. This data set measures the change in intracellular oocyte metabolism over a time course of up to 54 hours, charting the uptake of Lys or Arg by the transporters in addition to fluctuations in endogenous oocyte metabolite levels. In addition, samples are also present that demonstrate the efflux of the loaded substrates at 30min, 3hr, and 12hr following the removal of either the Arg or Lys incubating solution. This data set provides the .raw data files which accompanies Fig. 6 in the publication: Coordinated Action of Multiple Transporters in the Acquisition of Essential Cationic Amino Acids by the Intracellular Parasite Toxoplasma gondii Stephen J. Fairweather, Esther Rajendran, Martin Blume, Kiran Javed, Birte Steinhöfel, Malcolm J. McConville, Kiaran Kirk, Stefan Bröer, Giel G. van Dooren bioRxiv 2021.06.25.450001; doi: https://doi.org/10.1101/2021.06.25.450001 This is the data set for the 2nd repeat LC-MS experiment, containing: 1. Sample Summary Table (Excel file) of including samples IDs (numbered) corresponding to the uploaded raw data files. 2. A compressed (zipped) folder containing individual raw data files numbered with the same sample ID as in the summary spreadsheet. The folder contains a .raw output file of the Total Ion Chromatograms (TIC) from each sample in the Sample Summary Table. Processed .mzml files converted form each sample .raw file can be provided upon request of the authors from the publication above. They are not provided directly here due to file size constraints. Raw peak height was used for the quantification of metabolites. Intracellular Arg and Lys oocyte concentrations were quantified using the LC-MS calibration curves with known Arg/Lys standards (in Fig. S9 of the cited publication).
DOI: 10.17632/yxr5gtgwjt
title: A Footworm in the door: Revising Onchocerca phylogeny with previously unknown cryptic species in wild North American ungulates

description: Onchocerca is an important genus of vector-borne filarial nematodes that infect both humans and animals worldwide. Many Onchocerca species, most of medical and veterinary health relevance, are the focus of a variety of diagnostic and molecular research. However, despite the importance of these parasites, there is growing evidence of previously unexplored genetic diversity of these nematodes, particularly among wild ungulate hosts in North America. These understudied parasites prevent us from comprehending the evolutionary history of the genus Onchocerca, monitoring potential One Health threats, and improving our filarioid diagnostic capabilities. In order to fill these knowledge gaps, we identified five uncharacterized Onchocerca lineages and compared them to other well-known filarioid species using single and concatenated gene regions (i.e., nd5, cox1, 12S, 18S, 28S, hsp70, MyoHC, rbp1). Phylogenetic analyses revealed that the novel Onchocerca lineages of wild North American ungulates segregate into two clades. One clade comprised Onchocerca lineages II, IV, and V and other species found mainly in domestic animals and humans, and the second comprised Onchocerca lineages I and III and other species from a variety of hosts including cervids, bovids, and equids. The formation of two clearly separate clades supports the idea of at least two independent expansion events of ancestral Onchocerca species into the North American continent via the Bering land bridge. Cophylogenetic analysis shows evidence of ancestral Onchocerca species of Bovidae host-switching to wild Cervidae and giving rise to the novel Onchocerca species. Lastly, pairwise analysis confirms informative molecular markers of diagnostic relevance in both mitochondrial and nuclear gene regions of filarioid nematodes. The overall information provides greater context to the genus Onchocerca and emphasizes the need to discover, characterize, and monitor neglected parasites, especially those of wildlife origin.
DOI: 10.17632/zbr45fcj8r
title: Data for: Chemical and boron isotope compositions of tourmaline at the Baiyanghe Be-U deposit, northwest China: Implications for Be-U mineralization

description: Chemical and boron isotope compositions of tourmaline
DOI: 10.17632/zpbsk45dkm
title: [Dataset] Etiologic and antimicrobial susceptibility profiles of bacterial urinary tract infection and bacterial enteritis among children at a private multi‑specialty healthcare facility in Abuja, Nigeria: A 5‑year separate and comparative review

description: BACKGROUND: Urinary tract infection (UTI) and enteritis are major causes of morbidity and mortality in children. A combined profiling of UTI and enteritis could be helpful since stool plays a major role in the etiopathogenesis of UTI. 

AIM: This study aimed to examine and compare bacterial UTI and bacterial enteritis in respect of their etiology and anti‑microbial susceptibility (AMS) in children aged 0 to 17 years at Alliance Hospital, Abuja. 

MATERIALS and METHODS: This is a retrospective descriptive study of urine cultures in children who were investigated for UTI and of stool cultures in those investigated for enteritis. Data of 543 urine cultures and 614 stool cultures from January 1, 2017 to May 31, 2022 were retrieved. Bacterial yields, percentage susceptibility (PS), log‑normalized susceptibility value (SVn), percentage of multi‑drug‑resistant (MDR) pathogens, and multiple anti‑microbial resistance index (MARI) were computed and compared. 

RESULTS: The bacterial yields of urine and stool cultures were 29% and 34%, respectively. Escherichia coli was the most common bacterial cause of UTI and enteritis. Overall susceptibility was sub‑optimal and similar between uropathogens and enteropathogens [PS, 64% vs.62%; mean SVn, 5.75 vs. 5.62 (P = 0.564)]. Levofloxacin was the most effective anti‑microbial agent against both uro‑ and entero‑pathogens, while amoxicillin clavulanate and cotrimoxazole were among the least effective. The burdens of MDR
uro‑ and entero‑pathogens were 39% and 46%, and their MARIs were 0.36 and 0.38, respectively. 

CONCLUSIONS: Like in many healthcare institutions, Escherichia coli is the most common bacterial cause of UTI and enteritis in children at our facility. Second‑generation fluoroquinolones remain effective against bacterial UTI and bacterial enteritis in children. Stool AMS surveillance could potentially be a surrogate strategy for urine AMS surveillance in children. Training and re‑training on anti‑microbial stewardship remain crucial in Nigeria.

KEYWORDS: Anti‑microbial susceptibility, bacteria, children, enteritis, multi‑drug resistance, multiple anti‑microbial resistance index, urinary tract infection
DOI: 10.17632/zwm89pbgt5
title: LINF_230009500

description: aldose 1-epimerase-like protein
Leishmania infantum (strain JPCM5)
DOI: 10.17632/3b7gvbbf5m
title: Raw data of TMAs and Uncropped WB gels

description: Raw data of TMAs and Uncropped WB gels，Raw data from TMAs for PTBP3 staining in RCC, The form of TMAs files were OLYMPUS OlyVIA - Virtual Slide Image (.vsi), it can be opened using Olympus Image Viewer
DOI: 10.17632/9jhb8sghsm
title: LINF_360026100

description: DNA mismatch repair protein MSH6
Leishmania infantum (strain JPCM5)
DOI: 10.17632/f6zfttw8zg
title: Mechanism of activation and regulation of Deubiquitinase activity in MINDY1 and MINDY2

description: Raw gel scans of all gels presented in this study
DOI: 10.17632/kps4psh9z8
title: Industrial Policy and Export Product Upgrading Potentiality: A Study Based on the Chinese Government-Approved Project Dataset

description: We constructed a new Chinese industrial policy measure at the product level based on 96,778 government-approved from 2009 to 2017. We classify the products into 3-digit codes according to the Standard International Trade Classification Revision 3 (SITC Rev.3). The aggregate amount of government-approved projects on a specific product measures policy intensity. Our findings reveal that Chinese industrial policy can generally enhance EPUP.
DOI: 10.17632/vxpxd3hh4p
title: Mechanical conflict mediated by a cell wall loosening enzyme is key to de novo shoot regeneration

description: This dataset contains raw files for the images, RNA seq analysis and ChiP seq analysis. We have included the URL of NCBI dataset submission (Accession to cite for these SRA data: PRJNA848450, Temporary Submission ID: SUB11603598).
DOI: 10.17632/w5fxj9v3zx
title: LINF_150012600

description: Hypothetical protein - conserved; Leishmania infantum (strain JPCM5)
DOI: 10.17632/w942hgr73b
title: LDHU3_18.0270

description: 60S ribosomal protein L7; Leishmania donovani (HU3 strain)
DOI: 10.17632/wy4vx8bc83
title: Data_RR01

description: Data for the manuscript entitled "Aging of nanosized titanium dioxide modulates the effects of dietary copper exposure on Daphnia magna – an assessment over two generations"
DOI: 10.17632/5ztrw7rbdt
title: LINF_040011700

description: Hypothetical protein - conserved; Leishmania infantum (strain JPCM5)
DOI: 10.17632/67zgj6wb26
title: Demo package

description: Demo package for fQSM
DOI: 10.17632/97nrhjtts9
title: Results of experiments on modelling the ecological niche and potential distribution of Megacopta cribraria (Fabricius, 1798) (Heteroptera, Plataspidae)

description: The dataset includes the results of experiments to modelling the ecological niche and potential distribution of Megacopta cribraria (Fabricius, 1798) (Heteroptera, Plataspidae). The experiments were based on data on species occurrences (GBIF, 2020; Kudzu bug (EDDMaps), 2020) and raster layers with bioclimatic variables in 2.5 minutes resolution. (Fick, Hijmans, 2017; https://www.worldclim.org/) 1. Fick S. E., Hijmans R. J. WorldClim 2: new 1km spatial resolution climate surfaces for global land areas // International Journal of Climatology. 2017. Vol. 37, iss. 12. P. 4302 – 4315. 2. GBIF.org. GBIF Occurrence Download. 2020. Available at: https://doi.org/10.15468/dl.9vrgkj (accessed: 02 September 2020). 3. Kudzu bug, Megacopta cribraria Hemiptera: Plataspidae – EDDMapS. 2020. Available at: https://www.eddmaps.org/species/subject.cfm?sub=56834 (accessed: 02 September 2020).
DOI: 10.17632/ckcfsd6gd7
title: resveratrol on LPS-induced septic intestinal barrier function raw in sepsis

description: 1 .raw in WB
2. all RSV raw data in excel
DOI: 10.17632/m8ny35w3rs
title: Adversarial Nonnegative Matrix Factorization

description: It combines the concepts of deep learning and adversarial training with nonnegative matrix factorization.
DOI: 10.17632/p3g9mgk6dm
title: LINF_310020500

description: Putative centrosomal protein; Leishmania infantum (strain JPCM5)
DOI: 10.17632/pbbvbf8gkk
title: LDHU3_10.1430

description: Arp2/3 complex subunit; Leishmania donovani (HU3 strain)
DOI: 10.17632/xfd9sfxyvg
title: Voltage controlled piezoelectric material - Simdata

description: Simulated system response of the piezoelectric composite models presented in: On modelling and stabilizability of voltage controlled piezoelectric material by Matthijs C. de Jong and Jacquelien M. A. Scherpen. 
The data is gathered by simulating the spatially discretized system models using:
dx/dt = An_all x + Bn_all u
y = Cm_all_new x + Dn_all u
The open-loop data for the static and quasi-static is available upon request due to storage limitations (2 x 18.216.046 KB)
send an email to: matthijs.de.jong@rug.nl
DOI: 10.17632/3f7jyczf4r
title: LINF_360011600

description: Ribosomal protein S27a Leishmania infantum (strain JPCM5)
DOI: 10.17632/6v4kmvk7sv
title: LINF_350014700

description: casein kinase I
Leishmania infantum (strain JPCM5)
DOI: 10.17632/88t8zrshs7
title: CONSTRUINDO UMA BASE SÓLIDA: A MATEMÁTICA COMPUTACIONAL COMO UMA DISCIPLINA INTEGRADORA NOS CURSOS DE ENGENHARIA

description: Anais do II Simpósio Gaúcho de Engenharia Aeroespacial e Mecânica, UFSM
Santa Maria, RS, 24 a 26 de outubro de 2023
DOI: 10.17632/fnjtkx4js7
title: MEK inhibitor – single-cell feature values

description: Data in the paper "Cellular state landscape and herpes simplex virus type 1 infection progression are connected" by Pietilä et al., 2023:
- Single-cell mean intensity of p-ERK: HeLa_MEKInhibitor_pERK.csv (Supplementary Figure 10a)
- Summary of ICP27-expressing HeLa cells:  HeLa_MEKInhibitor_ICP27_summary_twoReplicates.csv (Figure 5d)

HeLa cells were infected with HSV-1 and treated with a MEK inhibitor (UO126) or DMSO (indicated by “treatment”), and after fixation at 12 or 18 hpi (indicated by “timePoint”) p-ERK and ICP27 were detected by immunofluorescence imaging. Cells were classified into uninfected cells without infected neighbors, uninfected cells with infected neighbors, and infected cells (indicated by “classification_infection”) as described in the paper. Single-cell intensities are provided as background-subtracted mean intensity values for the whole-cell. Data cleanup and background subtraction of the intensity values were applied as described in the paper. Experimental conditions are in duplicate or triplicate (indicated by “well_name”). Summary of ICP27-expressing HeLa cells reports not-normalised values.
DOI: 10.17632/nf6zv9g6jy
title: LDHU3_15.0530

description: 60S acidic ribosomal protein P1a; Leishmania donovani (HU3 strain)
DOI: 10.17632/t88bhbgggb
title: Figure6H GBO #23 _DMSO

description: Figure6H GBO #23 _DMSO
DOI: 10.17632/vfpsvjzwkw
title: Supplemental Table_SDCT

description: Supplemental Table
DOI: 10.17632/7rs3p6xwtn
title: Centralization of the manufacturing process, Ca calculation for width and thickness.

description: Ca calculation, part manufacturing, width and thickness
DOI: 10.17632/kvfk7mf9vz
title: Unveiling the Microbial Dynamics in Vermicomposting with Coir Pith as Earthworm Substrate

description: 16s rDNA sequencing data set of earthworm casts fed with different substrate
DOI: 10.17632/ngxzc3dcfp
title: SeqLengthPlot assessment on the de novo paired-end transcriptome assembly of Savalia savaglia

description: This dataset contains the output folder compiled by SeqLengthPlot assessed on the de novo paired-end transcriptome assembly of the false black coral Savalia savaglia. 

The folder seq_length_Assembly_Ss_PE.Trinity contains:

• seq_above199bp.fasta: Retrieved FASTA file containing transcripts with lengths of 200 bp and above, after splitting of the input FASTA file.

• seq_below200bp.fasta: Retrieved FASTA file containing transcripts with lengths below 200 bp, after splitting of the input FASTA file.

• seq_length_distribution_above99bp.png: PNG image file showing a histogram of transcripts with lengths of 200 bp and above on a linear scale.

• seq_length_distribution_above199_log.png: PNG image file showing a histogram of transcripts with lengths of 200 bp and above on a logarithmic scale.

• seq_length_distribution_below200bp.png: PNG image file showing a histogram of transcripts with lengths below 200 bp on a linear scale.

• seq_length_distribution_below200_log.png: PNG image file showing a histogram of transcripts with lengths below 200 bp on a logarithmic scale.

• seq_length_stats_by_threshold_200.txt: Text file containing detailed statistics of the transcripts lengths in the input FASTA file, including the total number of sequences, the number of sequences 200 bp and above, the number of sequences below 200 bp, and the corresponding minimum and maximum lengths.
DOI: 10.17632/rv2h388wdx
title: LINF_270016100

description: ATP-binding cassette protein subfamily A, member 9 (ABCA9)
Leishmania infantum (strain JPCM5)
DOI: 10.17632/tdrrjjdrrs
title: Data for: Model-independent bounds on light pseudoscalars from rare B-meson decays

description: The file contains a ROOT Tree of the momenta of B^0, B_S^0, and B^+ and their anti-particles, produced after 400 GeV proton beam interactions onto a fixed proton target. The z component is along the beam line.
DOI: 10.17632/vy96jw2jfm
title: LINF_360016400

description: nucleoplasmin-like protein (NLP)
Leishmania infantum (strain JPCM5)
DOI: 10.17632/ybz8tcvnv9
title: Context embeddings trained on short sequence FASTA files for human alternative splicing

description: Data to generate "FIGURE 5: Context embeddings trained on short sequence FASTA files for human alternative splicing – n = 10,541" for "Vector Embeddings by Sequence Similarity and Context for Improved Compression, Similarity Search, Clustering, Organization, and Manipulation of cDNA Libraries" by Daniel H. Um, et al.