cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6182522.v4
title: Data and statistical code associated with Oysters and eelgrass: Potential partners in a high pCO2 ocean

description: These data and statistics are associated with the following publication: Groner ML, Burge CA, Cox R, Rivlin N, Turner M, Van Alstyne KL, Wyllie-Echeverria S, Bucci J, Staudigel P, and Friedman CS. 2018. Oysters and eelgrass: potential partners in a high pCO2 ocean. Ecology _:_-_. <br>
DOI: 10.6084/m9.figshare.c.3666502_d31.v1
title: Egyptian fruit bat vocalizations files 222

description: Recordings of Rousettus aegyptiacus social vocalizations
DOI: 10.6084/m9.figshare.19137389.v1
title: Raw data for Yue et al. Biologial Reviews 2022

description: The raw data is for the article submitted to Biologial Reviews, and any use of the data should be email to "kyleyuechina@163.com" for consent. Thanks.
DOI: 10.6084/m9.figshare.20285982.v1
title: Supplementary Material for: New Insights into Macular Type of Primary Cutaneous B-Cell Lymphoma: Extension of the Clinical and Histopathological Patterns

description: <b><i>Background:</i></b> Primary cutaneous B-cell lymphoma (PCBCL) classically presents with papules, plaques, and nodules/tumors. Previous reports of PCBCL manifesting with macular lesions are scarce and focused on primary cutaneous follicle-center cell lymphoma (PCFCL). <b><i>Objectives:</i></b> The objective of this study was to report our experience with PCBCL presenting with erythematous macules. <b><i>Methods:</i></b> Patients with low-grade PCBCL manifesting with erythematous patches, diagnosed and managed between January 2000 through December 2019 at 2 tertiary cutaneous-lymphoma outpatient clinics, were included. Clinical data were retrospectively collected, and biopsy specimens of the macules, and if present of the typical nodular/tumoral lesions, were reviewed. <b><i>Results:</i></b> There were 14 patients, aged 16–67 years, 8 had PCFCL and 6 marginal zone lymphoma (PCMZL). All had 1–15 cm erythematous macules, mimicking: interstitial granuloma annulare/vascular tumors/early-stage folliculotropic mycosis fungoides, or presenting with figurate erythema or livedo reticularis-like/net-like pattern. In 3 patients, macules were the presenting lesions, in 2 as the sole manifestation, whereas in 12 patients, typical PCBCL lesions were observed during disease course. The macules showed in all, superficial and deep perivascular infiltrates, and in most, periadnexal infiltrates. Micronodules were observed in 11 specimens, with nodular infiltrates also observed in 4. B cells comprised the majority of the lymphocytes in only 4. Seven of 11 cases tested showed immunoglobulin heavy chain monoclonality. <b><i>Conclusions:</i></b> PCMZL and PCFCL may manifest with erythematous macules. Physicians should be aware of this unusual manifestation of low-grade PCBCL, which may represent a clinicopathological diagnostic pitfall.
DOI: 10.6084/m9.figshare.21956900.v1
title: data for paper

description: data for paper "<strong>Plastic and stimulus-specific coding of salient events in the central amygdala</strong> "
DOI: 10.17632/zjg95xdkbd
title: SAR_based_Fishing_Activity_Mediterranean_Sea_Total_2017_2021

description: This dataset was generated using Synthetic Aperture Radar (SAR) vessel detections and Automatic Identification System (AIS) data to predict trawl fishing intensity and distribution in areas where public AIS data are unavailable (https://doi.org/10.1093/icesjms/fsae153). The study creates a statistical relationship between SAR vessel detections and AIS fishing activity by processing SAR data and using a General Additive Model to account for spatial and temporal autocorrelation. The resulting dataset provides spatially explicit estimates (resolution 0.2 decimal degrees) of trawler fishing activity across the Mediterranean, as total hours of fishing activity in the years 2017-2021, including areas with historically high trawling pressure, such as the Strait of Sicily, the Adriatic Sea, the eastern Aegean Sea, and the Levant Sea off the Nile delta. These predictions offer new insights into fishing activity that were previously unavailable. The shapefile represents a regular grid in WGS1984 ("+proj=longlat +datum=WGS84 +no_defs +ellps=WGS84 +towgs84=0,0,0") with 2 fields: “hours” (total hours of fishing activity in the five-year period 2017-2021) and “se” (related standard error).
DOI: 10.5281/zenodo.15564600
title: Water Content and Bulk Density of sediments, Eastern Black Sea, DOORS Cruise 3 (MN256)

description: The dataset contains Water content and Bulk density data of Holocene and Upper Pleistocene seafloor sediments in the Eastern Black Sea (Georgian EEZ) collected during DOORS cruise 3 (MN256), 2024. Sampling was performed using Van Veen Grab, multicorer and gravity сorer from seafloor depths from 31 m to 976 m. Water Content was determined after drying at T=105°C of 65 ml sediment samples previously frozen on board. Bulk density was determined by weighing a 65 ml wet unmixed sample.
DOI: 10.5281/zenodo.15564601
title: Water Content and Bulk Density of sediments, Eastern Black Sea, DOORS Cruise 3 (MN256)

description: The dataset contains Water content and Bulk density data of Holocene and Upper Pleistocene seafloor sediments in the Eastern Black Sea (Georgian EEZ) collected during DOORS cruise 3 (MN256), 2024. Sampling was performed using Van Veen Grab, multicorer and gravity сorer from seafloor depths from 31 m to 976 m. Water Content was determined after drying at T=105°C of 65 ml sediment samples previously frozen on board. Bulk density was determined by weighing a 65 ml wet unmixed sample.
DOI: 10.6084/m9.figshare.12612953.v1
title: Supplementary Material for: Programmed Cell Death Ligand Expression Drives Immune Tolerogenesis across the Diverse Subtypes of Neuroendocrine Tumours

description: <b><i>Introduction:</i></b> A comprehensive characterization of the tumour microenvironment is lacking in neuroendocrine tumours (NETs), where programmed cell death-1 receptor-ligand (PD-1/PD-L1) inhibitors are undergoing efficacy testing. <b><i>Objective:</i></b> We investigated drivers of cancer-related immunosuppression across NETs of various sites and grades using multi-parameter immunohistochemistry and targeted transcriptomic profiling. <b><i>Methods:</i></b> Tissue microarrays (<i>n</i> = 102) were stained for PD-L1 and 2 and indoleamine deoxygenase-1 (IDO-1) and evaluated in relationship to functional characteristics of tumour-infiltrating T-lymphocytes (TILs) and biomarkers of hypoxia/angiogenesis. PD-L1 expression was tested in circulating tumour cells (CTCs, <i>n</i> = 12) to evaluate its relationship with metastatic dissemination. <b><i>Results:</i></b> PD-L1 expression was highest in lung NETs (<i>n</i> = 30, <i>p</i> = 0.007), whereas PD-L2 was highest in pancreatic NETs (<i>n</i> = 53, <i>p</i> &lt; 0.001) with no correlation with grade or hypoxia/angiogenesis. PD-L1<sup>+</sup> NETs (<i>n</i> = 26, 25%) had greater CD4<sup>+</sup>/FOXP3<sup>+</sup> and CD8<sup>+</sup>/PD1<sup>+</sup> TILs (<i>p</i> &lt; 0.001) and necrosis (<i>p</i> = 0.02). CD4<sup>+</sup>/FOXP3<sup>+</sup> infiltrate had the highest PD-L1/IDO-1 co-expressing tumours (<i>p</i> = 0.006). Grade 3 well-differentiated NETs had lower CD4<sup>+</sup>/FOXP3<sup>+</sup> and CD8<sup>+</sup>/PD1<sup>+</sup> TIL density (<i>p</i> &lt; 0.001), and NanoString immune profiling revealed enrichment of macrophage-related transcripts in cases with poorer prognosis. We identified PD-L1(+) CTC subpopulations in 75% of evaluated patients (<i>n</i> = 12). <b><i>Conclusions:</i></b> PD-L1 expression correlates with T-cell exhaustion independent of tumour hypoxia and is enhanced in a subpopulation of CTCs, suggesting its relevance to the progression of NETs. These findings support a potential therapeutic role for PD-L1 inhibitors in a subset of NETs.
DOI: 10.17632/zr6bhgmsvg
title: Persepsi Siswa MAN 2 Bantul Tentang Pembelajaran Online, Offline, dan Campuran

description: data diambil oleh tim peneliti dari Universitas Indonesia, melalui kuesioner digital google form yang dibagikan kepada para siswa MAN 2 Bantul Yogyakarta, ini merupakan data tentang Persepsi Siswa MAN 2 Bantul Tentang Pembelajaran Online, Offline, dan Campuran
DOI: 10.6084/m9.figshare.24130101.v1
title: Frequency dataset.xlsx

description: The frequency data is generated through ANSYS modeling. The model is created through an eigenvalue analysis of a cantilever beam with different distributed damages.
DOI: 10.6084/m9.figshare.22657624.v1
title: Supplementary Material for: Temporary Severe Neutropenia during Administration of Atezolizumab: A Novel Case Report

description: Here we describe a case of temporary severe neutropenia after atezolizumab monotherapy and its treatment course. Atezolizumab monotherapy was introduced as a 6th line treatment for a man in his late 60s who was diagnosed with stage Ⅳ lung adenocarcinoma. The first treatment cycle was administered under hospitalization, and the patients presented with a fever of 37.8°C on the first day. The fever resolved after administration of acetaminophen and naproxen, and the white blood cell count, neutrophil count, and other white blood cell fractions were normal. However, grade 3 leukopenia and grade 4 neutropenia appeared at the beginning of the third cycle, and the treatment was suspended. After treatment, monocytes in the leukocyte fraction increased from approximately 10% to 25.6%. Lenograstim 100 μg subcutaneous injection and oral levofloxacin 500 mg once daily were started of onset of neutropenia, and he was hospitalized on the next day. Laboratory findings upon admission showed significant improvement to 5300/µl for leukocytes and 3376/µl for neutrophils. Lenograstim was discontinued, with no further decrease in the neutrophil counts. Atezolizumab therapy was resumed and there was no further reduction in leukocytes, neutrophils, or leukocyte fractions over about 2-year period. Concomitant drugs were maintained during atezolizumab treatment, suggesting that they did not induce neutropenia. In conclusion, we observed temporary severe neutropenia during atezolizumab monotherapy. Neutrophil recovery with cautious monitoring has enabled longer efficacy. We should consider temporary symptom occurrence in cases of haematological immune-related adverse events.
DOI: 10.6084/m9.figshare.5690878.v1
title: Data sharing in PLOS ONE: An analysis of Data Availability Statements

description: This dataset contains Data Availability Statements from 47,593 papers published in PLOS ONE between March 2014 (when the policy went into effect) and May 2016, analyzed for type of statement.<br>
DOI: 10.6084/m9.figshare.7235471.v1
title: HCL DGE Data

description: Single-cell analysis is a valuable tool to dissect cellular heterogeneity in complex systems. Yet, a systematic single-cell atlas has not been achieved for human beings. We used single-cell RNA sequencing to determine cell type composition of all major human organs and construct a basic scheme for the human cell landscape (HCL). We reveal a single-cell hierarchy for many tissues that has not been well characterized previously. We present a ‘‘single-cell HCL analysis’’ pipeline that accurately defines human cell types; and exemplify its utility in stem cell biology. Finally, we perform single-cell comparative analysis for human and mouse cell atlas to reveal the conserved genetic networks in the mammalian system.<b></b><br><b>File Extension Specification</b><b></b><b></b><br><b>HCL_Fig1_adata.h5ad</b>: Use scanpy.api.read_h5ad to load AnnData. This AnnData stores the data used for HCL Figure 1.<b></b><br><b>HCL_Fig1_cell_Info</b>: The information, which includes the cell names, samples, clusters, stages, batches, donors and cell types for cells of data used for HCL Figure 1.<br><b>cluster_markers_HCL&MCA1.1</b>: The cell type annotation and marker genes for 102 HCL clusters of Fig1 and 104 MCA1.1 clusters of SFig. <br><b><br></b><b>dge_raw_data.tar</b>: The raw digital expression matrix (dge) of more than 720,000 single cells sorted by tissues. The batch genes were not removed.<br><b>dge_rmbatch_data.tar</b>: The batch gene removed dge of more than 700,000 primary single cells sorted by tissues. Some tissues are not included due to relatively strong batch effects. This dataset can be used to make global tissue tSNE plot and do cross-tissue analysis.<br><b>annotation_rmbatch_data.tar</b>: The cell annotations, which include cluster ID, belonged tissues, clusters and cell types ( Please use new version of cell types in <b>annotation_cluster_info</b>) for each rmbatch dge data.<br><b>annotation_cluster_info: <i>Modified</i></b> cell type annotation of each cluster in accord with ClusterID in annotation_rmbatch_data.zip<br><b>MCA1.1_adata.h5ad</b>: Use scanpy.api.read_h5ad to load AnnData. This AnnData stores the MCA1.1 data. <br><b>MCA1.1_cell_Info</b>: The information, which includes the cell names, samples, clusters, stages, batches, donors and ce;; types for cells of MCA1.1 data.<br><br>
DOI: 10.17632/g7xnn2bm4g
title: Nitrogen deficiency in maize: annotated image classification dataset

description: 1200 images were collected in the field in July 2023, in a 5-day window around flowering time of different genotypes. There were three N fertilization levels: N0, N69 and NFull, with no added N, 69 kg of added N and full fertilization with 136 kg added N, respectively. 238 genotypes were sown in augmented design, where some genotypes are replicated and the others are not. Images at different field rows were taken randomly between 7:30 and 11:00 AM.
"TensorFlow_preprocessing.ipynb" notebook can be used for data preprocessing and generation of additional 1200- 3600 images in processes of augmentation and segmentation.
DOI: 10.5281/zenodo.15564532
title: Water Content and Bulk Density of sediments, Western Black Sea, DOORS Cruises 1 ,2 (leg-2) & 3 (MN240, MN249, MN256)

description: The dataset contains Water Content and Bulk density data of Holocene and Upper Pleistocene seafloor sediments in the Western Black Sea (Romanian and Bulgarian EEZ) collected during DOORS cruises (MN240, MN249, MN256), 2023-2024. Sampling was performed using Van Veen Grab, multicorer and gravity сorer from seafloor depths from 26 m to 2123 m. Water Content was determined after drying at T=105°C of 65 ml sediment samples previously frozen on board. Bulk density was determined by weighing a 65 ml wet unmixed sample.
DOI: 10.5281/zenodo.15564533
title: Water Content and Bulk Density of sediments, Western Black Sea, DOORS Cruises 1 ,2 (leg-2) & 3 (MN240, MN249, MN256)

description: The dataset contains Water Content and Bulk density data of Holocene and Upper Pleistocene seafloor sediments in the Western Black Sea (Romanian and Bulgarian EEZ) collected during DOORS cruises (MN240, MN249, MN256), 2023-2024. Sampling was performed using Van Veen Grab, multicorer and gravity сorer from seafloor depths from 26 m to 2123 m. Water Content was determined after drying at T=105°C of 65 ml sediment samples previously frozen on board. Bulk density was determined by weighing a 65 ml wet unmixed sample.
DOI: 10.6084/m9.figshare.5500831.v1
title: BINEGI.xlsx

description: Descripción de ingreso disponible de los hogares per cápita. Fuente: OCDE Organización para la Cooperación y el Desarrollo Económicos. OCDE, con base en estimaciones del CONEVAL con datos en el MCS-ENIGH 2008, 2010, 2012 y 2014.
DOI: 10.6084/m9.figshare.3529301.v1
title: Appendix B. Details for application of the Kalman filter to the CTCRW model.

description: Details for application of the Kalman filter to the CTCRW model.
DOI: 10.5281/zenodo.15564416
title: Total Organic Carbon (sediments), Eastern Black Sea, DOORS Cruise 3 (MN256)

description: The dataset contains Total Organic Carbon (TOC) data in thin layers of Holocene seafloor sediments (coccolith oozes and sapropels) in the Eastern Black Sea (Georgian EEZ) collected from a gravity core from a seafloor depth of 1062 m during DOORS cruise-3 (MN256), June 2024. Sampling for TOC analysis was performed with visual control using a microscope to detail the unmixed thin layers of sediment.
DOI: 10.5281/zenodo.15564417
title: Total Organic Carbon (sediments), Eastern Black Sea, DOORS Cruise 3 (MN256)

description: The dataset contains Total Organic Carbon (TOC) data in thin layers of Holocene seafloor sediments (coccolith oozes and sapropels) in the Eastern Black Sea (Georgian EEZ) collected from a gravity core from a seafloor depth of 1062 m during DOORS cruise-3 (MN256), June 2024. Sampling for TOC analysis was performed with visual control using a microscope to detail the unmixed thin layers of sediment.
DOI: 10.6084/m9.figshare.17079164.v1
title: Additional file 7 of miR-30b-5p inhibits proliferation, invasion, and migration of papillary thyroid cancer by targeting GALNT7 via the EGFR/PI3K/AKT pathway

description: Additional file 7. The raw data of Dual-Luciferase Reporter Assay.
DOI: 10.17632/2cdtv6r44w
title: Suction catheter as a guide for nasotracheal intubation under general anesthesia: randomized clinical trial of efficacy.

description: The aim of this study was to evaluate the efficacy of the suction catheter-guided ETT during NTI under general anesthesia. It was hypothesized that suction catheter guided method would reduce the injuries to nasal passage and improve the navigability. The study was designed as a single-site, randomized clinical trial with equal randomization (1:1), double-blinded (participants and primary outcome assessor) and parallel design.
The primary outcomes were the incidence and extent of bleeding. Records from the videolaryngoscope (GlideScope®) during intubation were reviewed. Only bleeding observed at posterior pharyngeal area, originating from trauma during the attempt to pass the ETT through the nasal passage, was accounted for. Bleeding was scored at its most severe state observed from the insertion to the removal of the videolaryngoscope after successful intubation, using a 4-point scale: 0 (no bleeding); 1 (blood-stained tube and/or cuff); 2 (blood-stained posterior pharyngeal wall; 3 (blood pooling at the posterior pharyngeal wall). Secondary outcomes included ease of navigation through the nasal passage, first-pass success rate, number of attempts, and nasal passage time. Ease of navigation was graded as follows: smooth (no resistance, no adjustments needed); slight resistance (resistance encountered, requiring manipulation more than once); and impinged (unable to pass through, requiring a change of nostril). The first-pass success rate was defined as the rate of successful nasal pass without changing nostrils. The number of attempts referred to the times the ETT needed to be withdrawn completely in order to find a new angulation, change nostrils or decrease the tube size before successful intubation. Nasal passage time was measured from when the ETT or suction catheter entered the anterior nares until the ETT passed into the pharynx or the suction catheter was completely withdrawn from the ETT.
DOI: 10.6084/m9.figshare.16895371.v1
title: Anchored screen glossary file

description: Raw data supporting Jaaks and Coker et al., 2022 (DOI: 10.1038/s41586-022-04437-2). Glossary of metrics in the raw data files for the anchored drug combination screens.<br>Users have a non-exclusive, non-transferable right to use data files for internal proprietary research and educational purposes, including target, biomarker and drug discovery. Excluded from this licence are use of the data (in whole or any significant part) for resale either alone or in combination with additional data/product offerings, or for provision of commercial services.<br>
DOI: 10.6084/m9.figshare.8295779.v1
title: Selected Pre-therapy MTB transcripts

description: <b>Pre-therapy levels of selected <i>Mycobacterium tuberculosis </i>transcripts in <i></i>sputum, stratified by 2-month culture conversion</b>
DOI: 10.17632/6s6m9mxfzp
title: Three dimensional point cloud data of Total Knee Replacement Components

description: Total Knee Replacement (TKR) is permanent and reliable solution for arthritis and debilitating pain in the knee joint. It is a surgery in which the infected knee is replaced with biocompatible components of Total Knee Replacement. Total Knee Replacement has three components- femoral component, bearing component, and tibial component. These components are fixed to Femur and Tibia bones with a strong cement (Kanyal, 2021). The point cloud data of a posterior-stabilized, fixed bearing total knee prosthesis, PFC Sigma (De Puy, Johnson & Johnson, Leeds, UK) is presented here. The data consists of point cloud data of femoral component, bearing component, and tibial component. The point cloud data of each component can be imported into a reverse engineering software like Geomagic Studio (Raindrop Geomagic, Research Triangle Park, NC) where it can be converted into a CAD model. After obtaining CAD models of all three components- femoral component, bearing component, and tibial component, they can be assembled in a CAD software like Solidworks or Catia like Kanyal(2021) did. The final CAD assembly can be used to perform a finite element analysis concerning Total Knee Replacement which can be very useful to visualize kinematics and mechanics of the Total Knee Replacement.
DOI: 10.6084/m9.figshare.12591854.v1
title: An open-source site database of strong-motion stations in Japan: K-NET and KiK-net (v1.0.0)

description: This is an open-source site database for a total number of 1742 earthquake recording sites in the K-NET (Kyoshin network) and KiK-net (Kiban Kyoshin network) networks in Japan. This database contains site characterization parameters directly derived from available velocity profiles, including average wave velocities, bedrock depths, and velocity contrast. Meanwhile, it also consists of parameters obtained from earthquake horizontal-to-vertical spectral ratio (HVSR), e.g., peak frequency, amplitude, width and prominence. In addition, the site database also comprises topographic and geological proxies inferred from regional models or maps. Each parameter is derived in a consistent manner for all sites. This site database can benefit the application of machine learning techniques in studies on site amplifications. Besides, it can facilitate, for instances, the search of the optimal site parameter(s) in depicting site amplifications, the development and testing of new or existing prediction models or methodologies.This zip file contains earthquake HVSR data, including metadata and plots of automatically identified peaks (frequency, amplitude, prominence and width) at 1700+ K-NET and KiK-net strong-motion recordings stations.<br>This MATLAB code is for automatically picking peaks (frequency, amplitude, prominence and width) from HVSR curves.<br><br><b>Reference:</b><br><i>Zhu C, Weatherill G, Cotton F, Pilz M, Kwak DY, Kawase H. An open-source site database of strong-motion stations in Japan: K-NET and KiK-net (v1.0.0). Earthquake Spectra. 2021;37(3):2126-2149. doi:10.1177/8755293020988028 </i>
DOI: 10.6084/m9.figshare.20055056.v3
title: Antidepressants for Depressed Patients with Type 2 Diabetes Mellitus: A Systematic Review and Network Meta-Analysis of Short-Term Randomized Controlled Trials

description: Antidepressants for Depressed Patients with Type 2 Diabetes Mellitus: A Systematic Review and Network Meta-Analysis of Short-Term Randomized Controlled Trials
DOI: 10.6084/m9.figshare.23907951.v1
title: Biogeochemical explanations for the world’s most phosphate-rich lake, an origin-of-life analog

description: Data underlying the presented results and supporting the conclusions in the following manuscript submitted to Nature Communications: Biogeochemical explanations for the world’s most phosphate-rich lake, an origin-of-life analog Authors: Sebastian Haas, Kimberly P. Sinclair, David C. CatlingSD = standard deviation
DOI: 10.6084/m9.figshare.26533921.v1
title: Segregation Analysis

description: This program provides algorithm for calculating new measures to evaluate spatial segregation of points.