cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/h3fhg9zr47
title: Colorectal Cancer Immune Cell Markers Dataset v1 (CRC-ICM-v1)

description: CRC-ICM-v1 dataset contains clinical data, histopathological and immune cell markers images of 136 CRC patients.
This dataset is a collaboration of different research groups. For more information you can visit this website: https://databiox.com

Colorectal cancer (CRC) is the second most common cause of cancer death in the world, and can be identified by the location of the primary tumor in the large intestine: right and left colon, and rectum. Based on the location, CRC shows differences in chromosomal and molecular characteristics, microbiomes, incidence, pathogenesis, and outcome. It has been shown that tumors on the left and right sides also have different immune landscapes, so the prognosis may be different based on primary tumor locations.
It is widely accepted that the immune components of the tumor microenvironment (TME) play a critical role in tumor development. Accordingly, analyses of the interactive relationships between tumor cells and the immune system components in the TME have received more attention, while routine grading system such as TNM classification does not have the power to predict the clinical outcome of the disease. Therefore, the identification of immune-related markers in TME might help to predict the prognosis and clinical outcome of the disease.
One of the critical regulatory molecules in the TME is immune checkpoints that as the gatekeepers of immune responses regulate the infiltrated immune cell functions. Inhibitory immune checkpoints such as PD-1, Tim3, and LAG3 as the main mechanism of immune suppression in TME overexpressed and result in further development of the tumor.
Therefore, this research aimed at providing a well-organized histopathological microscopy image dataset for best-scoring colorectal cancer. For this purpose, the images have been taken from colon tissues of patients with colorectal cancer stained with specific antibodies for CD3, CD8, CD45RO, PD-1, LAG-3, and Tim3 and separately determined in both invasive margin and center of tumor for each marker. Moreover, the present data set contains comprehensive information on the clinicopathological characteristics of the patients, focusing on the location of the tumor, separating the right and left and the rectum.
DOI: 10.17632/hh52mhtndg
title: Vibration data - Ponneri Bridge - Local Train 8 am

description: Vibration data taken on Ponneri Bridge in Tamilnadu, India. Three accelerometers were used. Two measured accelerations in the X, Y, and Z directions. The last one measured vibrations only in the X and Y directions. The measurements started when the train was approaching the bridge.
DOI: 10.17632/tywbtsjrjv
title: Data for: Identification of Plant Leaf Diseases Using a 9-layer Deep Convolutional Neural Network

description: In this data-set, 39 different classes of plant leaf and background images are available. The data-set containing 61,486 images. We used six different augmentation techniques for increasing the data-set size. The techniques are image flipping, Gamma correction, noise injection, PCA color augmentation, rotation, and Scaling. The classes are, 1.Apple_scab 2.Apple_black_rot 3.Apple_cedar_apple_rust 4.Apple_healthy 5.Background_without_leaves 6.Blueberry_healthy 7.Cherry_powdery_mildew 8.Cherry_healthy 9.Corn_gray_leaf_spot 10.Corn_common_rust 11.Corn_northern_leaf_blight 12.Corn_healthy 13.Grape_black_rot 14.Grape_black_measles 15.Grape_leaf_blight 16.Grape_healthy 17.Orange_haunglongbing 18.Peach_bacterial_spot 19.Peach_healthy 20.Pepper_bacterial_spot 21.Pepper_healthy 22.Potato_early_blight 23.Potato_healthy 24.Potato_late_blight 25.Raspberry_healthy 26.Soybean_healthy 27.Squash_powdery_mildew 28.Strawberry_healthy 29.Strawberry_leaf_scorch 30.Tomato_bacterial_spot 31.Tomato_early_blight 32.Tomato_healthy 33.Tomato_late_blight 34.Tomato_leaf_mold 35.Tomato_septoria_leaf_spot 36.Tomato_spider_mites_two-spotted_spider_mite 37.Tomato_target_spot 38.Tomato_mosaic_virus 39.Tomato_yellow_leaf_curl_virus
DOI: 10.17632/gb5wdp53r6
title: Data for: Gender Differences in Performance under Time Constraint: Evidence from Chess Tournaments

description: Data and Codes
DOI: 10.17632/npt257bjxn
title: Data for: Modern day monitoring and control challenges outlined on an industrial-scale benchmark fermentation process

description: This data was generated using an advanced mathematical simulation of a 100,000 litre penicillin fermentation system referenced as IndPenSim. All details describing the simulation are available on the following website: www.industrialpenicillinsimulation.com. IndPenSim is the first simulation to include a realistic simulated Raman spectroscopy device for the purpose of developing, evaluating and implementation of advanced and innovative control solutions applicable to biotechnology facilities. This data set generated by IndPenSim represents the biggest data set available for advanced data analytics and contains 100 batches with all available process and Raman spectroscopy measurements (~2.5 GB). This data is highly suitable for the development of big data analytics, machine learning (ML) or artificial intelligence (AI) algorithms applicable to the biopharmaceutical industry. The 100 batches are controlled using different control strategies and different batch lengths representing a typical Biopharmaceutical manufacturing facility: Batches 1-30: Controlled by recipe driven approach Batches 31-60: Controlled by operators Batches 61:90: Controlled by an Advanced Process Control (APC) solution using the Raman spectroscopy Batches 91:100: Contain faults resulting in process deviations. Please reference: Goldrick S., Stefan, A., Lovett D., Montague G., Lennox B. (2015) The development of an industrial-scale fed-batch fermentation simulation Journal of Biotechnology, 193:70-82. and Goldrick S., Duran-Villalobos C., K. Jankauskas, Lovett D., Farid S. S, Lennox B., (2018) Modern day control challenges for industrial-scale fermentation processes. Computers and Chemical Engineering. Additionally help publicise this work on the following platforms: Twitter: @Stephen_Goldric Github: StephenGoldie LinkenIn: Stephen Goldrick - Post Doc @UCL Biochemical Socitey
DOI: 10.17632/r4zm9sj6cf
title: MLRN

description: This is an image dataset designed for restoring old photos. This dataset contains both noisy and original images.
Due to the constraints in dataset size, here we have only uploaded the raw, noisy images of old photos. For the original photo dataset, please refer to DIV2K and CelebA. In addition, this dataset will be continuously updated. Please feel free to contact us via email (haoqingbo4546@163.com) if you have any specific requirements.
DIV2K：https://data.vision.ee.ethz.ch/cvl/DIV2K
CelebA：http://mmlab.ie.cuhk.edu.hk/projects/CelebA.html
DOI: 10.17632/wnzc4md24b
title: Dataset Organisational Complexity BMI ERP

description: Dataset ERP on BMI mediated by Organizational Complexity
DOI: 10.6084/m9.figshare.25679565.v1
title: Supplementary Material for: miRNome profiling analysis reveals novel hepatocellular carcinoma diagnostic, prognostic and treatment-related candidate biomarkers: post-hoc analysis of SORAMIC trial

description: Introduction
Early diagnosis of hepatocellular carcinoma as well as evaluation of prognosis and prediction of treatment efficacy remain challenging due to the missing specific non-invasive biomarkers. The aim of this study is to identify disease-specific microRNA (miRNA) patterns for diagnosis, prediction of prognosis and treatment response in patients with hepatocellular carcinoma (HCC).
Methods
The study population included 42 HCC patients from SORAMIC clinical trial: 22 patients received sorafenib monotherapy, 20 patients underwent 90Y radioembolization in combination with sorafenib. 20 individuals were included in the control group. Hepatocellular carcinoma patients underwent collection of plasma samples before and 7-9 weeks after the beginning of the treatment. Isolation of circulating miRNAs, preparation of small RNA sequencing libraries and next-generation sequencing were performed. Association analysis for novel diagnostic, prognostic and treatment-related candidate biomarkers was performed.
Results
A total of 42 differentially expressed (16 up-regulated and 26 down-regulated) miRNAs were identified comparing baseline and control group plasma samples. hsa-miR-215-5p and hsa-miR-192-5p were down-regulated, while hsa-miR-483-5p and hsa-miR-23b-3p were up-regulated comparing baseline and 7-9 weeks post-sorafenib monotherapy samples. hsa-miR-215-5p was the sole down-regulated miRNA in the same combination therapy comparison. hsa-miR-183-5p, hsa-miR-28-3p and hsa-miR-1246 were found to be significantly up-regulated comparing non-responders versus responders to sorafenib. High hsa-miR-215-5p expression was significantly associated with worse HCC patients’ prognosis.
Conclusions
Systematic miRNA profiling of highly characterized samples from SORAMIC study revealed a subset of potential miRNA biomarkers for hepatocellular carcinoma diagnosis and prognosis of sorafenib-treated patients’ survival.
DOI: 10.17632/zrwwymws29
title: On the Monte Carlo Weights in Multiple Criteria Decision Analysis

description: The data for the article of the same tittle - an application to the wind turbine selection
DOI: 10.17632/zk5zgxns6d
title: Dynamic Tax Rate Optimisation of Environmental Protection Tax and Urban Industrial Pollution Abatement

description: This study focuses on the impact mechanism of environmental tax reform on environmental governance. The research hypothesis is that environmental protection taxes can effectively reduce industrial pollution emissions through pathways such as the diffusion of clean technologies and industrial structure upgrading, and there exists an optimal tax rate range to coordinate environmental regulation and economic development. The study integrates multi-source heterogeneous data, including industry classification standards from the Ministry of Ecology and Environment, environmental disclosure reports of listed companies, and regional statistical yearbooks. Interpolation methods are applied to handle discrete missing values, and observation units in Hong Kong, Macau, and Taiwan are excluded following the principle of regional data availability, constructing an environmental governance database covering major industrial cities across China. A three-sector dynamic stochastic general equilibrium model (DSGE) with pollution dynamic feedback is constructed to solve the Pareto-efficient tax rate range. Using a sample of 297 Chinese cities from 2014 to 2021, the difference-in-differences (DID) method is employed to evaluate the implementation effect of the Environmental Protection Tax Law of the People's Republic of China, and the optimal tax rate is calculated through the environmental governance cost allocation method. The data shows that increasing tax rates can significantly reduce industrial pollution emissions, but this effect varies significantly among cities with different levels of environmental regulation, cleanliness, innovation, and sizes. A notable finding is the institutional gap between the current actual tax rate and the optimal tax rate. The study indicates that the diffusion of clean technologies and industrial structure upgrading are the key transmission paths for environmental taxes to play a role in emission reduction. In the future, potential emission reduction dividends need to be released through stepwise dynamic tax rate adjustments. The data of this study provides a full-chain solution from theoretical threshold derivation and empirical effect testing to policy adaptation suggestions for the optimization of the environmental tax system, which helps to deeply understand the role mechanism of environmental taxes in environmental governance.
DOI: 10.17632/ch6rndwt5h
title: Chronic opioid use modulates human enteric microbiota and intestinal barrier integrity

description: Over the past three decades the United States has experienced a devastating opioid epidemic. One of the many debilitating side effects of chronic opioid use is opioid-induced bowel dysfunction. We investigated the impact of methadone maintenance treatment (MMT) on the gut microbiome, the gut bacterial metabolite profile, and intestinal barrier integrity. An imbalance in key bacterial communities required for production of short-chain fatty acids (SCFAs), mucus degradation, and maintenance of barrier integrity was identified. Consistent with dysbiosis, levels of fecal SCFAs were reduced in MMT. We demonstrated that metabolites synthesized by Akkermansia muciniphila modulate intestinal barrier integrity in vitro by strengthening the pore pathway and regulating tight junction protein expression. This study provides essential information about the therapeutic potential of A. muciniphila and warrants development of new clinical strategies that aim to normalize the gut microbiome in individuals affected by chronic opioid use.
DOI: 10.17632/jd38jhxpg6
title: Data used in Predicting fertility from sperm motility landscapes

description: Data for permit reproducibility of the results in Predicting fertility from sperm motility landscapes (https://doi.org/10.1038/s42003-022-03954-0). Check the related github repository (https://github.com/Polfe94/sperm_move) for instructions on how to reproduce the results from the paper. For more details, check out the methods section of the paper. For any issues regarding data or code, please publish an issue in the corresponding github repository.

Raw data files (in RAW_DATA folder): fertility_data.csv, sperm_data.csv and capacitated_dataset.csv. 

fertility_data.csv contains the information about insemination outcomes. Namely (from left to right columns): boar unique ID, boar's age, sow unique ID, sow parity (number of times said sow has completed a cycle of pregnancy, from insemination to delivery), sow's age, insemination date (in format DD/MM/YYYY), number of born pigglets in said insemination, number of dead born pigglets, number of alive born pigglets, seminal dose extraction date (in format DD/MM/YYYY), whether the insemination succeded (pregnancy, 1) or not (0) and the ejaculate unique ID.

sperm_data.csv contains the motility features of the seminal doses described in the fertility dataset. The data contains the unique identifier for the boars and their ejaculates, as well as several motility features of the sperm. In particular (from left to right columns): area of the head of the spermatozoon, curvilinear velocity, straight-line velocity, average path velocity, linearity, straightness, wobble, amplitude of lateral head displacement, beat-cross frequency, boar unique ID and ejaculate unique ID. The last 3 columns are the cluster labels, the merged cluster labels and the effect on motility of said clusters.

capacitated_dataset.csv contains the motility features of the combined fresh and capacitated sperm, that was used to generate the Figure 5 in "Predicting fertility from sperm motility landscapes" (Fernández-López et al., 2022).  This dataset only contains the main variables (VCL, VSL, ALH and BCF), as well as a label indicating whether the spermatozoon was incubated in capacitating conditions (Capacitated) or not (Fresh). The x and y columns are the corresponding coordinates in the landscape.

The other data files are related to the figures of the paper. Check the github repository for details (https://github.com/Polfe94/sperm_move).
DOI: 10.17632/rjnw46vbdw
title: Data for: The evolution of the Patagonian Ice Sheet from 35 ka to the Present Day (PATICE)

description: All data used in the PATICE database is available in the Supplementary Information, which comprise:
•	Full Excel tables of recalibrated published ages (including all data required to rerun the calculations).
•	ESRI Shapefiles of each dating technique and compiled geomorphology.
•	ESRI Shapefiles of outlines of ice extent and uncertainty in the ice margin.
•	ESRI Shapefile of ice flow and ice divide at the LLGM.
•	ESRI Shapefile of names of outlet lobes.
DOI: 10.17632/z7sxkxg2ch
title: Yoga for Chronic Brain Injury
DOI: 10.17632/jt9kc43ttg
title: Dataset of Operational Energy of Forty Andean Buildings from 1980 to 2020

description: The files presented in this repository are structured in three main folders. The first one 01_OperationalEnergyDATA, contains a file named STOE.xlsx, which summarizes the operational energy data of the 40 sample houses. The second folder 02_SimulationDATA, contains 4 subfolders P1, P2, P3 and P4, each one of them allocates the ten simulation files (.dsb) corresponding to each sample and period (P). Moreover, the second folder contains three excel files, Building_Features.xlsx, Measuraments&Simulations_Results.xlsx and Measurements.xlsx, all of them related to morphological/materials characteristics and validation and simulation reports of each sample. Finally, the third folder 03_ClimateDATA, contains two files, Climate_Data_Forupdate.xlsx and ECU_CUENCA-_WEC_2022.epw, both related to the climate data needed for simulations. The detailed review of each folder is described below:
01_OperationalEnergyDATA
The STOE (Specific Total Operational Energy), accounts for the summatory of space heating and space cooling (sh + sc), lighting and electrical appliances (l + e) and Domestic Hot Water and Cooking (d + c), divided by the total floor area of each residential building. This value is calculated for each of the forty houses in the study accounting both annually and a 50-years lifespan consumption. 
These results are shown in the repository in the file named STOE.xlsx. 
02_SimulationDATA 
In First instance, this section presents the Building_Features.xlsx table that contains the raw data from the envelope materials of each one of the 40 sample buildings. 
The Measurements.xlsx file contains the raw data measured in situ from eight houses used in the study to validate the simulations. 
Furthermore, the Measurements&Simulations_Results.xlsx file, this table contains the raw data from each one of the eight samples measured in-situ and simulated in DesignBuilder accordingly.
Lastly, this section presents 40 DesignBuilder Files (.dsb) one for each of the 40 analysed houses and stored in separate .dsb files, named using the format P#_S#, where P represents the period (decade), and S represents the sample number. Each file is configured according to the unique morphology and the materials are taken from the file Building_Features.xlsx . The intensity and schedule of lighting, equipment and occupancy were established as a common setting for all forty samples. 
03_ClimateDATA
To begin with, this section presents the file Climate_Data_Forupdate.xlsx is an excel table, which was created through the climate data gathered during July and August from the weather station ICUENC29 (coordinates: 2.89°S, 79.01°W, altitude: 2564 masl) 
Finally, the second file is ECU_CUENCA_IWEC_2022.epw which is an Energy Plus Weather file updated with the information collected from the meteorological station from July 1, 2021, at 12:04 AM to August 31, 2021, at 11:59 PM, with a sampling interval of 1-hour.
DOI: 10.6084/m9.figshare.5128234.v1
title: Supplementary Material for: Severe Pulmonary Hypertension Associated with COPD: Hemodynamic Improvement with Specific Therapy

description: <b><i>Background:</i></b> There is no recommendation for treating pulmonary hypertension (PH) when associated with chronic obstructive pulmonary disease (COPD). <b><i>Objective:</i></b> To evaluate the effect of PH-specific therapy in patients with COPD. <b><i>Methods:</i></b> All successive patients with severe PH [mean pulmonary arterial pressure (mPAP) ≥35 mm Hg] and COPD, who received specific PH medication and who underwent right heart catheterization at baseline and after 3-12 months of treatment, were analyzed from a prospective database. <b><i>Results:</i></b> Twenty-six patients were included with a median follow-up of 14 months. Mean forced expiratory volume in 1 s was 57 ± 20% of predicted, and mean forced expiratory volume in 1 s/forced vital capacity was 47 ± 12%. Dyspnea was New York Health Association classification stage (NYHA) II in 15%, NYHA III in 81% and NYHA IV in 4%. First-line treatments were endothelin receptor antagonists in 11 patients, phosphodiesterase-5 inhibitors in 11 patients, calcium blocker in 1 patient, combination therapy in 3 patients including 2 with a prostanoid. After 6 ± 3 months, pulmonary vascular resistance decreased from 8.5 ± 3 to 6.6 ± 2 Wood units (p &lt; 0.001), with significant improvement of cardiac index from 2.44 ± 0.43 to 2.68 ± 0.63 liters × min × m<sup>-2</sup> (p = 0.015) and mPAP from 48 ± 9 to 42 ± 10 mm Hg (p = 0.008). There was no significant difference in dyspnea, 6-min walking distance, echocardiographic parameters or N-terminal pro-brain natriuretic peptide levels. There was no significant difference in arterial oxygen saturation after 3-12 months of treatment. <b><i>Conclusions:</i></b> Specific PH medications may improve hemodynamic parameters in COPD patients with severe PH. Appropriate prospective randomized studies are needed to evaluate the potential long-term clinical benefit of treatment.
DOI: 10.17632/dc5s4ymvjb
title: Analytical modelling and experimental study of flexible pavement system and modified asphalt mixtures

description: Data Description: 
1. Analytical Modelling of Flexible Pavement Systems: Axle load and temperatures effects on pavement structure.
2. Experimental Study of modified asphalt mixture using rubber particles to replace asphalt binder in aggregate form was studied.
DOI: 10.17632/wrg5wmhk6k
title: Predicting Bitcoin Future Price Using Twitter Sentiment Analysis - Dissertation

description: The files contain Bitcoin price souced from Bitstamp and Twitter data used in my dissertation
DOI: 10.17632/r9x8h9h98r
title: Dataset for meta-analysis and metaregression of published outcomes data on definitive radiotherapy with or without chemotherapy for locally advanced cervical cancer in patients with contraindications to cisplatin

description: We performed a systematic review and meta-analysis to examine the outcomes of patients with locally advanced cervical cancer with contraindications to cisplatin, that were managed with definitive radiotherapy with or without chemotherapy or other co-interventions. We then performed a metaregression to examine the effects of clinical and treatment variables on outcomes.

We identified eligible studies and extracted relevant data using a standardized data extraction template.

Table 1 summarizes, per eligible study, the characteristics of the population or subgroup (including nature of contraindication to cisplatin), and the intervention groups (radiotherapy, brachytherapy and/or chemotherapy regimens).

Table 2 summarizes our assessment of risk of bias for each study using templates that were based on the CASP Critical Appraisal Checklists.

Table 3 and 4 summarize the outcomes (tumor response, survival, compliance rates, and toxicity) for each intervention group.

Table 5 consolidates numerical data from Table 1, 3 and 4, suitable for meta-analyses and meta-regression.

Table 6 is a composite database that contains the main template used in the preparation of the other datasets for the proprotional meta-analyses and meta-regression, given the variables and outcomes of interest.

Table 7 is a composite database that contains the datasets used for the comparative meta-analyses.
DOI: 10.17632/hkjsmry9fy
title: Data and source code

description: Data and source codes