cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.25282993
title: Supplementary Material for: Oncogenic MTOR signaling axis compensates BTK inhibition in a Chronic Lymphocytic Leukemia patient with Richter Transformation: A Case Report and Review of the Literature

description: Introduction: Targeting the B cell receptor (BCR) pathway via ibrutinib, a specific inhibitor of Bruton’s tyrosine kinase, has shown marked clinical efficacy in treatment of patients with chronic lymphocytic leukemia (CLL), thus becoming a preferred first line option independent of risk factors. However, acquired resistance to ibrutinib poses a major clinical problem and requires the development of novel treatment combinations to increase efficacy and counteract resistance development and clinical relapse rates.
Case Presentation: In this study, we performed exome and transcriptome analyses of an ibrutinib resistant CLL patient in order to investigate genes and expression patterns associated with ibrutinib resistance. Here we provide evidence that ibrutinib resistance can be attributed to aberrant mammalian target of rapamycin (MTOR) signaling. 
Conclusion: Thus, our study proposes that combined use of MTOR inhibitors with ibrutinib could be a possible option to overcome therapy resistance in ibrutinib treated patients.
DOI: 10.15482/usda.adc/1529757
title: Data from: Two Years of Cotton (Gossypium hirsutum L.) Data from the Gulf Atlantic Coastal Plain LTAR Network Site

description: These data were collected throughout the 2018 and 2019 growing seasons from fields of cotton (Gossypium hirsutum L.) near Tifton, Georgia, USA. The data were intended to provide validation data for models of cropping systems describing plant water content (derived from above ground biomass), soil moisture, crop height, and phenological stage. This field campaigns were accomplished by researchers at the Gulf Atlantic Coastal Plain site of USDA Long-Term Agroecosystem Research (LTAR) Network, which is managed by the USDA-ARS Southeast Watershed Research Laboratory in Tifton, GA.
Field data for both years were collected from two farms. Detailed methods are described in an accompanying data paper. These data were intended for use to validate models of cropping systems that use remote sensing data, including optical imagery and synthetic aperture radar. There are nine datasets in this collection:

General information on the crop and field data (CottonCropData_2018_2019_ACF_TCF.xlsx)
Field measurements of cotton from the Ashburn Cooperator Farm in 2018 (ACF_2018r.xlsx)
Field measurements of cotton from the Ashburn Cooperator Farm in 2019 (ACF_2019r.xlsx)
Field measurements of cotton from the Ty Ty Cooperator Farm in 2018 (TCF_2018r.xlsx)
Field measurements of cotton from the Ty Ty Cooperator Farm in 2019 (TCF_2019r.xlsx)
Geospatial features providing exact locations of the ACF sites where data were collected in 2018 (ACF_2018_pt_WGS84.kmz).
Geospatial features providing exact locations of the ACF sites where data were collected in 2019 (ACF_2019_pt_WGS84.kmz).
Geospatial features providing exact locations of the TCF sites where data were collected in 2018 (TCF_2018_pt_WGS84.kmz).
Geospatial features providing exact locations of the TCF sites where data were collected in 2019 (TCF_2019_pt_WGS84.kmz).
DOI: 10.18727/archive/50
title: UVES reduced data obtained by standard ESO pipeline processing

description: This is the release of reduced 1D spectra from the UVES spectrograph, ECHELLE mode (as opposed to the FIBRE mode), point sources (as opposed to extended sources), taken without or with the image slicer. Data taken with the absorption cell are also included in the data release. This release is an open stream release, it includes the so far observed UVES ECHELLE data and will be continued operational lifetime. The data content will grow with time as new data are being acquired and processed (approximately with monthly cadence and with a short delay of 1 or 2 months). The processing scheme is as homogeneous as possible.
description: This is a dynamic dataset; it is growing as new data is added. The DOI refers to the newest available dataset.
DOI: 10.21227/jef5-4w68
title: Multivariate time series prediction of cellular traffic via Machine Learning

description: We describe all the steps needed to build an original real-world dataset used to perform the so-called "Multivariate time series prediction" through Machine Learning techniques. The dataset contains several features of cellular traffic organized into time series. The goal is to exploit Machine Learning to predict the future behavior of a feature based on the past value of the feature itself and on the past values of other features.
DOI: 10.5066/p9rr7g6t
title: Carbon Isotopes, Total Organic Carbon, Programmed Pyrolysis, Volcanic Zircon U-Pb, and Geochemistry Data from the Hue Shale, Arctic Alaska - 2024

description: This dataset contains results from a stratigraphic section of the Hue Shale located along the Jago River in the Arctic National Wildlife Refuge at 69.9099, -143.3947 (WGS84). Sample heights were measured with a tape measure in a continuous succession. Zircon grains from volcanic ashes were analyzed via laser ablation at either the University of California, Santa Barbara (UCSB) or the University of Arizona Laserchron Center (ALC) using a Photon Machines Analyte 193-nm Excimer laser and Nu Instruments Plasma HR MC-ICPMS. Zircon grains from volcanic ashes were analyzed via chemical abrasion at the Berkeley Geochronology Center using a Sector 54 TIMS. Bulk mudstone samples were subject to a variety of analyses. Total organic carbon (TOC) and total carbon (TC) were analyzed using a LECO Carbon Analyzer Model C744, programmed pyrolysis was performed using a HAWK instrument, and organic carbon isotopes of TOC were measured via isotope ratio mass spectrometry using a Thermo-Scientific MAT 253, all run at the USGS Petroleum Geochemistry Research Laboratory.  Elemental abundances were determined on samples fused at 750°C with sodium peroxide and dissolved in dilute nitric acid via inductively coupled plasma-optical emission spectroscopy (ICP-OES) and inductively coupled plasma-mass spectroscopy (ICP-MS) by Agat Laboratories. Spectral Gamma Ray (SGR) measurements were collected in the field using a 90 second assay at 0.5 m intervals using a Radiation Solutions 230 Bismuth Germanate Oxide handheld instrument. The study was funded by the Energy Resources Program of the U.S. Geological Survey (USGS).
DOI: 10.5281/zenodo.12636426
title: High-resolution AI image dataset for diagnosing oral submucous fibrosis and squamous cell carcinoma
title: ORCHID-train-data

description: This deposition contains only training dataset of ORCHID database. The validation and test dataset related to the same study can be found at DOI: 10.5281/zenodo.12646943.
DOI: 10.5281/zenodo.8325732
title: Two-Decadal Variability of Lacustrine Groundwater Discharge: Coupled Controls from Weather and Hydrologic Changes

description: Areas of oxbow lakes in 2022 to 2022
DOI: 10.6084/m9.figshare.26779870
title: Supplementary Material for: METTL3 and IGF2BP1-mediated m6A modification of ZHX2 promotes tumor property of renal cell carcinoma

description: Introduction: Renal cell carcinoma (RCC) is a common type of kidney cancer with limited treatment options and a high mortality rate. Therefore, it is essential to understand the role and mechanism of key genes in RCC development and progression. This study aimed to analyze the role of zinc fingers and homeoboxes 2 (ZHX2) in RCC and the underlying mechanism.
Methods:
RNA expression was analyzed by quantitative real-time polymerase chain reaction, while protein expression was analyzed by western blotting assay and immunohistochemistry assay. Cell viability was evaluated using CCK-8 assay, and cell proliferation was assessed by EdU assay. The rate of cell apoptosis was quantified by flow cytometry. Transwell assays were conducted to analyze cell migration and invasion. The sphere formation assay was performed to assess the formation of microspheres. Additionally, m6A RNA immunoprecipitation assay and RNA immunoprecipitation assay were utilized to investigate the relationship between ZHX2 and two proteins, methyltransferase like 3 (METTL3) and insulin like growth factor 2 mRNA binding protein 1 (IGF2BP1). The stability of ZHX2 mRNA was analyzed through the Actinomycin D assay. Furthermore, a xenograft mouse model assay was conducted to analyze the effect of ZHX2 overexpression and METTL3 silencing on RCC cell tumor properties in vivo.
Results: ZHX2 expression was upregulated in both RCC tissues and cells when compared with healthy renal tissues and human renal cortex proximal convoluted tubule epithelial cells. Depletion of ZHX2 inhibited RCC cell proliferation, migration, invasion and spheroid-forming capacity but promoted cell apoptosis. Moreover, it was found that METTL3 mediated m6A methylation of ZHX2 and IGF2BP1 also stabilized ZHX2 through m6A methylation modification. Furthermore, ZHX2 overexpression showed a potential for attenuating the effects induced by METTL3 silencing and counteracted the inhibitory effect of METTL3 depletion on tumor formation in vivo.
Conclusion: METTL3 and IGF2BP1-mediated m6A modification of ZHX2 promoted RCC progression. The finding suggests that ZHX2 may serve as a potential therapeutic target in RCC, providing valuable insights for future clinical interventions.
DOI: 10.5066/p9igec9g
title: USGS Dam Removal Science Database v4.0

description: This database is the result of an extensive literature search aimed at identifying documents relevant to the emerging field of dam removal science. In total the database contains 214 citations that contain empirical monitoring information associated with 181 different dam removals across the United States and abroad. Data includes publications through 2016 and supplemented with the U.S. Army Corps of Engineers National Inventory of Dams database, U.S. Geological Survey National Water Information System and aerial photos to estimate locations when coordinates were not provided. Publications were located using the Web of Science, Google Scholar, and Clearinghouse for Dam Removal Information.
DOI: 10.5281/zenodo.13761597
title: Pulleniatina obliquiloculata stable oxygen isotope and Mg/Ca ratios record from IODP Core 363-U1483

description: We carry out our work on a total of 202 sediment samples spanning the past ~400 kyr from IODP Core 363-U1483 (13.09°S, 121.80°E; water depth: 1733 m), which was recovered at the Timor Sea in the outflow area of the Indonesian Throughflow. In this study, we present Mg/Ca ratios and stable oxygen isotope from tests of planktonic foraminiferal Pulleniatina obliquiloculata, respectively.
DOI: 10.5281/zenodo.7641622
title: Metabolomics data: glutaminase inhibition in combination with azacytidine in myelodysplastic syndromes

description: Malignancies can become reliant on glutamine as an alternative energy source and as a facilitator of aberrant DNA methylation, thus implicating glutaminase (GLS) as a potential therapeutic target. We demonstrate preclinical synergy of Telaglenastat (CB-839), a selective GLS inhibitor, when combined with AZA, <em>in vitro</em> and <em>in vivo</em>, followed by a phase Ib/II study of the combination in patients with advanced MDS. Treatment with Telaglenastat/AZA led to an ORR of 70% with CRs in 66% patients and a median overall survival of 11.6 months. scRNAseq and flow cytometry demonstrated a myeloid differentiation program at the stem cell level in clinical responders. Expression of non-canonical glutamine transporter, SLC38A1, was found to be overexpressed in MDS stem cells and was associated with clinical responses to Telaglenastat/AZA; was predictive of worse prognosis in a large MDS cohort. These data demonstrate the safety and efficacy of a combined metabolic and epigenetic approach in MDS.
DOI: 10.6084/m9.figshare.25013387
title: Supplementary Material for: Efficiency and Toxicity of Imatinib Mesylate combined with Atorvastatin Calcium in the Treatment of Steroid-Refractory Chronic Graft-Versus-Host Disease: A Single-center, Prospective, Single-arm, Open-label study

description: Introduction: Steroid-refractory cGVHD (SR-cGVHD) presents new great challenges for treatment. We have reported imatinib monotherapy was effective to SR-cGVHD, but the CR rate was not satisfactory and the benefit was not showed specific to some target organs, previously. Imatinib and statin drugs have been recognized to regulate T-cell function, statins also have been demonstrated endothelia protection, but whether this combination therapy was able to improve the efficacy remains unknown. Therefore, we designed this prospective, single-arm, open-label trial to investigate the efficacy of imatinib-based combination therapy in the treatment of SR-cGVHD for the first time. 
Methods: 60 SR-cGVHD patients were entered into this trial to investigated the combination of imatinib mesylate and atorvastatin calcium for the treatment of SR-cGVHD. The primary endpoint included the overall response rate (ORR) after 6 months of combined treatment. The secondary endpoints included an evaluation of survival, changes in T-cell subsets and adverse events.
Results: At baseline, 45% (27/60) of patients had moderate cGVHD, and 55.0% (33/60) of patients had severe cGVHD. At the 6-month follow-up, a clinical response was achieved in 70.0% of patients, and a complete response (CR) was achieved in 26.7%. A total of 11.7% (7/60) of patients stopped immunosuppressive therapy at this point. After 6 months of treatment, the ORR rates of the liver, skin, eyes and oral cavity were 80.6%, 78.1%, 61.5%, and 60.9%, respectively, with the liver also having the highest CR of 58.1%. The patients with moderate cGVHD had a better CR rate than those with severe cGVHD (55.6% vs. 3.0%, P&lt;0.0001). The overall survival in patients who with ORR was improved (P = 0.0106). Lung involvement is an independent risk factor to affected ORR achievement (P = 0.021, HR = 0.335, 95%CI 0.133-0.847), and the dosage of steroids was reduced in ORR patients. In clinical response patients, the ratio of CD8+ T cells (P = 0.0117) and Th17 cells (P = 0.0171) decreased, while the number of Treg cells (P = 0.0147) increased after 3 months. The most common adverse events were edema, nausea, and neutropenia which were 13.3%, 11.7%, and 11.7%, respectively. 
Conclusion: Combination treatment with imatinib mesylate and atorvastatin calcium was effective in treating SR-cGVHD and significantly decreased target organ injury, especially liver damage, indicating that T-cell regulatory function may play an important role in this process.
DOI: 10.17909/cwtn-nh63
title: JWST NIRCam center of M82

description: NIRCam 6-filter short observations of the central 1 kpc of M82 by program 1701
DOI: 10.17909/mj38-1s44
title: Levy et al. 2024, ApJL

description: HST data used as a comparison in Levy et al. 2024 ApJL. These images were also used by Mayya et al. 2008.
DOI: 10.25364/wegc/ops5.6:2020.1
title: Wegener Center GNSS Radio Occultation Record (2001–2019)
title: OPS 5.6 Level 2 profiles

description: The latest version of the Wegener Center (WEGC) Global Navigation Satellite System (GNSS) radio occultation (RO) record, OPSv5.6, provides globally distributed upper-air satellite data of high quality from multiple RO satellite missions, usable for climate and other high-accuracy applications.
DOI: 10.5281/zenodo.11088177
title: AREX 2017 selected hydrographic profiles: CTD and oxygen concentration in the south-west Spitsbergen area

description: Data from AREX 2017 cruise aboard rv Oceania collected in July 2017 on the south-western Svalbard shelf in the MathWorks Matlab table and Microsoft Excel formats.

This data selection was used and described in Vivier et al., 2024: Dense water production in Storfjorden, Svalbard, from a one-year time series of observations and a simple 3 model: Are polynyas in a warming Arctic exporting heat to the deep ocean? (for publication in JGR Oceans).

The sampling took place during the Arctic Experiments AREX carried out by the Institute of Oceanology, Polish Academy of Sciences (IO PAN), Sopot, Poland since 1987 until present.

During the AREX 2017 cruise CTD (conductivity, temperature, depth) vertical profiles were taken from surface to bottom with Sea-Bird Electronics, Inc. SBE 911plus CTD system (composed of duplicate SBE 3plus Temperature sensors, SBE 4C Conductivity sensors, and a Digiquartz® Pressure sensor, all calibrated by the manufacturer before each cruise). In addition to standard sensors, the system was equipped with the SBE43 dissolved oxygen sensor. Raw data were then filtered and processed with the SBE Data Processing Software (averaged to 1 dbar intervals) and further analysed and visualised in the MATLAB and exported to Excel (variables were rounded, blank values kept). Raw data are available from the IO PAN, Sopot, Poland (https://www.iopan.pl/).
DOI: 10.5281/zenodo.12193995
title: Harmonising Contributions: Exploring Diversity in Software Engineering through CQA Mining on Stack Overflow – Replication Package

description: Community question-and-answering platforms dedicated to software engineering, such as Stack Overflow, have assumed indispensable roles in fostering a thriving global knowledge ecosystem. As these platforms suffer from diversity-related issues, investigating the underlying reasons behind such challenges becomes imperative to devise potential intervention strategies.

The proposed study highlights Stack Overflow users’ contribution profiles, both in isolation and relative to various diversity metrics, including GDP and access to electricity. Finally, the study explores whether these contribution profiles extend to the city and state levels.

This replication package complements our study, prompting future scholars to further examine our research process or conduct follow up analyses.
DOI: 10.5281/zenodo.6962717
title: Individual TLS tree clouds collected from both Alto Tajo and Cuellar in Spain.

description: 36 30 x 30 m plots across two sites in Spain were scanned using a Leica HDS6200 scanner (3.2mm resolution at 10 m) following a grid pattern (see Owen et al., 2021 for more details). All 16 scans were co-registered and individual trees segmented using a combination of treeseg (Burt et al. 2019) and manual extraction/refinement. Trees in this database have been zero-centred and downsampled to 5 cm for the purpose of classifying species using deep learning. Individual tree species ID (Quercus faginea, Quercus ilex, Pinus nigra, Pinus sylvestris and Pinus pinaster) were appended to each tree using a combination of field derived hand drawn stem maps and TLS derived stem maps. Whether a tree is a multi-stem or single-stem has also been included in the metadata file. Owen et al 2021 - https://doi.org/10.1111/1365-2745.13670
DOI: 10.5281/zenodo.7888625
title: Supplementary Material for Men's Perceptions of Gender Inequality in Software Engineering

description: <strong>README</strong> This repository contains supplementary materials for the paper titled "<em>Do you see what happens around you? Men's Perceptions of Gender Inequality in Software Engineering".</em> The data in this repository originates from a survey conducted with men technology practitioners, focusing on their experiences within the industry and their perceptions of gender inequality within their teams and workplaces. The survey was administered using Microsoft Forms, allowing practitioners to respond to the questionnaire asynchronously, anonymously, and without supervision. The organization of this repository is as follows: <em><code>charts.Rmd</code>:</em> This file contains R scripts used to generate the figures that present quantitative data in the manuscript. <em><code>Q<strong>x</strong>.png</code></em>: These images are the figures generated by the <code>charts.Rmd</code> script. <em><code>responses.csv</code></em>: This file contains complete and detailed responses to the questionnaire submitted by participants. <em><code>responses_coding.xlsx</code></em>: Within this sheet, you will find the results of the coding process conducted using the Grounded Theory methodology. <em><code>survey_questions_english.pdf</code></em>: This document contains a faithful translation of the questionnaire sent to the participants.
DOI: 10.15468/hx964y
title: Spiders (Araneae) of the National Nature Park Buzkyi Hard and its vicinity (Mykolaiv Region, Ukraine)

description: This dataset contains records of 266 species of 28 families of the Buzkyi Hard National Nature Park, Mykolaiv Region, Ukraine. The aim of the research was to combine all the spider material collected in different years (1997-2013), to compile a list of spider species of the National Park and its vicinity, and to identify species of high conservation value.
DOI: 10.24381/cds.38b394e6
title: CERRA sub-daily regional reanalysis data for Europe on height levels from 1984 to present
DOI: 10.25919/spmy-5151
title: DeepSeagrass

description: Underwater images of seagrasses in Moreton Bay, Queensland, Australia. Images are labelled by the seagrass superclass: Strap-like, Fern-like and Rounded. Additionally, a class of images without seagrass present was collected. Only images containing dense seagrass cover are included in this dataset. This dataset also includes additional images for the 5 class case, in which the background is divided into substrate and water column. Each image (4624 x 2600 pixels) has been divided into patches of 578 x 520 pixels for training.
DOI: 10.3886/e206101v1
title: Code for: Optimally Imprecise Memory and Biased Forecasts

description: We propose a model of optimal decision making subject to a memory constraint. The constraint is a limit on the precision of memory measured using Shannon's mutual information, as in models of rational inattention; but our theory differs from that of Sims (2003) in not assuming costless memory of past cognitive states. We show that the model implies that both forecasts and actions will exhibit idiosyncratic random variation; that average beliefs will also differ from rational-expectations beliefs, with a bias that fluctuates forever with a variance that does not fall to zero even in the long run; and that more recent news will be given disproportionate weight in forecasts. We solve the model under a variety of assumptions about the degree of persistence of the variable to be forecasted and the horizon over which it must be forecasted, and examine how the nature of forecast biases depends on these parameters. The model provides a simple explanation for the over-reaction to news observed in the laboratory by Afrouzi et al. (2023).
DOI: 10.5066/p914sgb1
title: Genetic Data from Cooper's Hawks (Accipiter cooperii), North America

description: This data set describes nuclear microsatellite genotypes derived from six autosomal loci (AgCA222, Age7.1JT, BV13, BV20, NVH206, NVH195-2) in Cooper's Hawks. Samples originated from blood samples collected from live trapped birds.
DOI: 10.5281/zenodo.10423537
title: Data from: Temporal dynamics in psychological assessments: a novel dataset with scales and response times

description: This dataset is collected from February 27 to March 17, 2021, it includes responses from 24,292 students to four recognized psychological scales: PHQ-9, GAD-7, ISI, and PSS. A unique aspect of this dataset is the inclusion of response time data, which reflects the duration students took to answer each question. This temporal information offers a new dimension in understanding respondent behavior and enhances the reliability of these scales.