cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25582/data.2023-01.2710551/2298363
title: Data for EMSL Project 51287 from January 2023
DOI: 10.6084/m9.figshare.12234095.v1
title: Additional file 3 of Prdx1 promotes the loss of primary cilia in esophageal squamous cell carcinoma

description: Additional file 3: Table S3. The occurrence of differentially expressed genes in classical signaling pathways. We studied the occurrence of significantly differentiated genes in classical signaling pathways based on data from public databases and the results of gene detection. We provide an enrichment analysis of the list of differentially expressed genes and the set of genes in the various classical pathways. We calculated the significance of P-value to determine which pathways of differentially expressed genes are enriched, as indicated in the classical pathway analysis column. A Z-score is given to indicate which pathways are activated or suppressed, based on the up/down regulation of genes according to chip analysis and the literature. (XLS 759 kb)
DOI: 10.25582/data.2023-01.2709064/2298364
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2711027/2298365
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2715882/2298366
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2710347/2298367
title: Data for EMSL Project 51287 from January 2023
DOI: 10.6084/m9.figshare.8039630
title: Additional file 3: of Analyses of circRNA profiling during the development from pre-receptive to receptive phases in the goat endometrium

description: Table S2. The result of nonlinear alignment using TopHat-Fusion. (XLS) (XLS 24â kb)
DOI: 10.6084/m9.figshare.8039630.v1
title: Additional file 3: of Analyses of circRNA profiling during the development from pre-receptive to receptive phases in the goat endometrium

description: Table S2. The result of nonlinear alignment using TopHat-Fusion. (XLS) (XLS 24â kb)
DOI: 10.6084/m9.figshare.8039648
title: Additional file 6: of Analyses of circRNA profiling during the development from pre-receptive to receptive phases in the goat endometrium

description: Table S5. CircRNA specifically expressed in the RE or PE. (XLS) (XLS 3082â kb)
DOI: 10.25582/data.2023-01.2715918/2298368
title: Data for EMSL Project 51287 from January 2023
DOI: 10.6084/m9.figshare.12234083.v1
title: Additional file 1 of Prdx1 promotes the loss of primary cilia in esophageal squamous cell carcinoma

description: Additional file 1: Table S1. Changes in the expression of different genes after Prdx1 inhibition in EC9706 cells. Intracellular differentially expressed genes after Prdx1 inhibition are presented in Table S1. The screening standard for a significant difference in gene expression was a value of |FC| greater than 1.3 and a P-value less than 0.05. Chip probe number and the FC information of the probe (Fold Change, the ratio of the expression of the treatment group to the control group) are listed.
DOI: 10.25582/data.2023-01.2710249/2298369
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-02.2732421/2298370
title: Data for EMSL Project 51287 from February 2023
DOI: 10.25582/data.2023-01.2711249/2298371
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-02.2733175/2298372
title: Data for EMSL Project 51287 from February 2023
DOI: 10.25582/data.2023-01.2709384/2298373
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2710858/2298374
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-02.2732664/2298375
title: Data for EMSL Project 51287 from February 2023
DOI: 10.25582/data.2023-02.2733094/2298376
title: Data for EMSL Project 51287 from February 2023
DOI: 10.25582/data.2023-01.2709410/2298377
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2711428/2298378
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2711358/2298379
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2710644/2298380
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2708870/2298381
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2710315/2298382
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2709722/2298383
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2710669/2298384
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-02.2732799/2298385
title: Data for EMSL Project 51287 from February 2023
DOI: 10.25582/data.2023-02.2732254/2298386
title: Data for EMSL Project 51287 from February 2023
DOI: 10.25582/data.2023-02.2732309/2298387
title: Data for EMSL Project 51287 from February 2023
DOI: 10.6084/m9.figshare.11188886
title: Rates of nitrification and ammonium assimilation

description: Rates of nitrification and ammonium assimilation along the Pearl River Estuary in two summer cruises
DOI: 10.25582/data.2023-01.2711162/2298388
title: Data for EMSL Project 51287 from January 2023
DOI: 10.6084/m9.figshare.12237491
title: Gymnocypris namensis Full-length Transcriptome

description: <b>Full-length
transcript sequencing accelerates the transcriptome research of </b><i><b>Gymnocypris
namensis</b></i><b>,
an iconic fish of the Tibetan Plateau.</b><b></b>
DOI: 10.25582/data.2023-01.2709546/2298389
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2710342/2298390
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2710620/2298391
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2716633/2298392
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2706923/2298393
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2709908/2298394
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2709969/2298395
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2710863/2298396
title: Data for EMSL Project 51287 from January 2023
DOI: 10.6084/m9.figshare.12761966
title: Chromosomal distribution of total variants in H3 genome

description: Chromosomal distribution of total variants in H3 genome
DOI: 10.25582/data.2023-01.2711001/2298397
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2715546/2298398
title: Data for EMSL Project 51287 from January 2023
DOI: 10.6084/m9.figshare.12761969
title: Chromosomal distribution of total variants in H6 genome

description: Chromosomal distribution of total variants in H6 genome
DOI: 10.6084/m9.figshare.12761969.v1
title: Chromosomal distribution of total variants in H6 genome

description: Chromosomal distribution of total variants in H6 genome
DOI: 10.25582/data.2023-01.2710738/2298399
title: Data for EMSL Project 51287 from January 2023
DOI: 10.6084/m9.figshare.12761972
title: Chromosomal distribution of total variants in H4 genome

description: Chromosomal distribution of total variants in H4 genome
DOI: 10.6084/m9.figshare.12761972.v1
title: Chromosomal distribution of total variants in H4 genome

description: Chromosomal distribution of total variants in H4 genome
DOI: 10.6084/m9.figshare.12761975
title: Chromosomal distribution of total variants in H5 genome

description: Chromosomal distribution of total variants in H5 genome
DOI: 10.25582/data.2023-01.2709542/2298400
title: Data for EMSL Project 51287 from January 2023
DOI: 10.6084/m9.figshare.12761975.v1
title: Chromosomal distribution of total variants in H5 genome

description: Chromosomal distribution of total variants in H5 genome
DOI: 10.25582/data.2023-01.2708797/2298401
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2711461/2298402
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-02.2732331/2298403
title: Data for EMSL Project 51287 from February 2023
DOI: 10.25582/data.2023-02.2733233/2298404
title: Data for EMSL Project 51287 from February 2023
DOI: 10.25582/data.2023-01.2710323/2298405
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2715696/2298406
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2708339/2298407
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2710904/2298408
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2710529/2298409
title: Data for EMSL Project 51287 from January 2023
DOI: 10.6084/m9.figshare.9616355
title: ICeD-T Provides Accurate Estimates of Immune Cell Abundance in Tumor Samples by Allowing for Aberrant Gene Expression Patterns

description: Immunotherapies have attracted lots of research interests recently. The need to understand the underlying mechanisms of immunotherapies and to develop precision immunotherapy regimens has spurred great interest in characterizing immune cell composition within the tumor microenvironment. Several methods have been developed to estimate immune cell composition using gene expression data from bulk tumor samples. However, these methods are not flexible enough to handle aberrant patterns of gene expression data, for example, inconsistent cell type-specific gene expression between purified reference samples and tumor samples. We propose a novel statistical method for expression deconvolution called immune cell deconvolution in tumor tissues (ICeD-T). ICeD-T automatically identifies aberrant genes whose expression are inconsistent with the deconvolution model and down-weights their contributions to cell type abundance estimates. We evaluated the performance of ICeD-T versus existing methods in simulation studies and several real data analyses. ICeD-T displayed comparable or superior performance to these competing methods. Applying these methods to assess the relationship between immunotherapy response and immune cell composition, ICeD-T is able to identify significant associations that are missed by its competitors. Supplementary materials for this article, including a standardized description of the materials available for reproducing the work, are available as an online supplement.
DOI: 10.25582/data.2023-01.2708723/2298410
title: Data for EMSL Project 51287 from January 2023
DOI: 10.6084/m9.figshare.9616355.v2
title: ICeD-T Provides Accurate Estimates of Immune Cell Abundance in Tumor Samples by Allowing for Aberrant Gene Expression Patterns

description: Immunotherapies have attracted lots of research interests recently. The need to understand the underlying mechanisms of immunotherapies and to develop precision immunotherapy regimens has spurred great interest in characterizing immune cell composition within the tumor microenvironment. Several methods have been developed to estimate immune cell composition using gene expression data from bulk tumor samples. However, these methods are not flexible enough to handle aberrant patterns of gene expression data, for example, inconsistent cell type-specific gene expression between purified reference samples and tumor samples. We propose a novel statistical method for expression deconvolution called immune cell deconvolution in tumor tissues (ICeD-T). ICeD-T automatically identifies aberrant genes whose expression are inconsistent with the deconvolution model and down-weights their contributions to cell type abundance estimates. We evaluated the performance of ICeD-T versus existing methods in simulation studies and several real data analyses. ICeD-T displayed comparable or superior performance to these competing methods. Applying these methods to assess the relationship between immunotherapy response and immune cell composition, ICeD-T is able to identify significant associations that are missed by its competitors. Supplementary materials for this article, including a standardized description of the materials available for reproducing the work, are available as an online supplement.
DOI: 10.6084/m9.figshare.8043491
title: Combining sensor-based measurement and modeling of PM<sub>2.5</sub> and black carbon in assessing exposure to indoor aerosols

description: Accurate, cost-effective methods are needed for rapid assessment of traffic-related air pollution (TRAP). Typically, real-time data of particulate matter (PM) from portable sensors have been adjusted using data from reference methods such as gravimetric measurement to improve accuracy. The objective of this study was to create a correction factor or linear regression model for the real-time measurements of the RTI’s Micro Personal Exposure Monitor (MicroPEM™) and AethLab’s microAeth<sup>®</sup> black carbon (AE51) sensor to generate accurate real-time data for PM<sub>2.5</sub> (PM<sub>2.5RT</sub>) and black carbon (BC<sub>RT</sub>) in Cincinnati metropolitan homes. The two sensors and an SKC PM<sub>2.5</sub> Personal Modular impactor were collocated in 44 indoor sampling events for 2 days in residences near major roadways. The reference filter-based analyses conducted by a laboratory included particle mass (SKC PM<sub>2.5</sub> and MicroPEM™ PM<sub>2.5</sub>) and black carbon (SKC BC); these methods are more accurate than real-time sensors but are also more cumbersome and costly. For PM<sub>2.5</sub>, the average correction factor, a ratio of gravimetric to real time, for the MicroPEM™ PM<sub>2.5</sub> and SKC PM<sub>2.5</sub> utilizing the PM<sub>2.5RT</sub> and was 0.94 and 0.83, respectively, with a coefficient of variation (CV) of 84% and 52%, respectively; the corresponding linear regression model had a CV of 54% and 25%. For BC, the average correction factor utilizing the BC<sub>RT</sub> and SKC BC was 0.74 with a CV of 36% with the associated linear regression model producing a CV of 56%. The results from this study will help ensure that the real-time exposure monitors are capable of detecting an estimated PM<sub>2.5</sub> after an appropriate statistical model is applied. Copyright © 2019 American Association for Aerosol Research
DOI: 10.25582/data.2023-01.2710777/2298411
title: Data for EMSL Project 51287 from January 2023
DOI: 10.6084/m9.figshare.8043491.v2
title: Combining sensor-based measurement and modeling of PM<sub>2.5</sub> and black carbon in assessing exposure to indoor aerosols

description: Accurate, cost-effective methods are needed for rapid assessment of traffic-related air pollution (TRAP). Typically, real-time data of particulate matter (PM) from portable sensors have been adjusted using data from reference methods such as gravimetric measurement to improve accuracy. The objective of this study was to create a correction factor or linear regression model for the real-time measurements of the RTI’s Micro Personal Exposure Monitor (MicroPEM™) and AethLab’s microAeth<sup>®</sup> black carbon (AE51) sensor to generate accurate real-time data for PM<sub>2.5</sub> (PM<sub>2.5RT</sub>) and black carbon (BC<sub>RT</sub>) in Cincinnati metropolitan homes. The two sensors and an SKC PM<sub>2.5</sub> Personal Modular impactor were collocated in 44 indoor sampling events for 2 days in residences near major roadways. The reference filter-based analyses conducted by a laboratory included particle mass (SKC PM<sub>2.5</sub> and MicroPEM™ PM<sub>2.5</sub>) and black carbon (SKC BC); these methods are more accurate than real-time sensors but are also more cumbersome and costly. For PM<sub>2.5</sub>, the average correction factor, a ratio of gravimetric to real time, for the MicroPEM™ PM<sub>2.5</sub> and SKC PM<sub>2.5</sub> utilizing the PM<sub>2.5RT</sub> and was 0.94 and 0.83, respectively, with a coefficient of variation (CV) of 84% and 52%, respectively; the corresponding linear regression model had a CV of 54% and 25%. For BC, the average correction factor utilizing the BC<sub>RT</sub> and SKC BC was 0.74 with a CV of 36% with the associated linear regression model producing a CV of 56%. The results from this study will help ensure that the real-time exposure monitors are capable of detecting an estimated PM<sub>2.5</sub> after an appropriate statistical model is applied. Copyright © 2019 American Association for Aerosol Research
DOI: 10.25582/data.2023-01.2710859/2298412
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2715569/2298413
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2712275/2298414
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2709727/2298415
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-02.2732410/2298416
title: Data for EMSL Project 51287 from February 2023
DOI: 10.25582/data.2023-01.2710401/2298417
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-02.2732265/2298418
title: Data for EMSL Project 51287 from February 2023
DOI: 10.25582/data.2023-02.2733273/2298419
title: Data for EMSL Project 51287 from February 2023
DOI: 10.25582/data.2023-01.2709472/2298420
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-01.2712143/2298421
title: Data for EMSL Project 51287 from January 2023
DOI: 10.25582/data.2023-02.2732633/2298422
title: Data for EMSL Project 51287 from February 2023
DOI: 10.25582/data.2023-01.2710762/2298423
title: Data for EMSL Project 51287 from January 2023
DOI: 10.6084/m9.figshare.20102210
title: FY-3D Global Active Fire product

description:  Wild fires have a strong negative effect on environment, ecology and public health. However, the potential degradation of mainstream global fire products leads to large uncertainty on the effective monitoring of wild fires and its influence. To fill this gap, we produced FY-3D global fire products with a similar spatial and temporal resolution, aiming to serve as the alternative and continuity for MODIS global fire products.  For visual-check-based accuracy assessment, five typical regions, Africa, South America, Indo-China Peninsula，Siberia and Australia, across the globe were selected and the overall accuracy exceeded 94%. Meanwhile, the consistence between FY-3D and MODIS fire products was examined. The result suggested that the overall consistence was 84.4%, with a fluctuation across seasons, surface types and regions.   Based on field-collected reference data, we further evaluated the suitability of FY-3D fire products in China. The overall accuracy and accuracy (without considering omission errors) was 79.43% and 88.50% respectively.
This dataset inlcude global fire products from 2018 to 2022. For detail information of the dataset,please refer to the Dataset Introduction - English.doc
DOI: 10.25387/g3.6995042.v1
title: Supplemental Material for Reid et al., 2018

description: A fluorescent reporter promoter trap element was designed and tested in the mosquito, <i>Anopheles stephensi</i>. This study identified tissue-specific expression patterns and may improve promoter identification in <i>An. stephensi.</i>
DOI: 10.4121/8dfca93b-ffff-4e1d-b2e3-fe980716c658
title: Data underlying the publication: Assessment of in-situ tidal marsh erodibility under high flow velocities

description: This dataset contains data collected during the in-situ field experiment at Hedwigepolder (December 2020) as part of the PhD research by M. van den Berg. During the experiment, tidal marsh was exposed to flow velocities up to 1.3 m/s via construction of in-situ flow flumes. Water to the flume was supplied via a pump system and freely accelerated down the adjacent levee towards the tidal marsh. Vegetation response was observed and bed level measurements done. Soil samples were taken for laboratory tests.<br>This dataset mainly serves to complement the publication. Nonetheless, the data is suitable for own analysis and interpretation if interested. The data is raw or partially processed. More information to post-process the data can be found in the README.
DOI: 10.4121/8dfca93b-ffff-4e1d-b2e3-fe980716c658.v1
title: Data underlying the publication: Assessment of in-situ tidal marsh erodibility under high flow velocities

description: This dataset contains data collected during the in-situ field experiment at Hedwigepolder (December 2020) as part of the PhD research by M. van den Berg. During the experiment, tidal marsh was exposed to flow velocities up to 1.3 m/s via construction of in-situ flow flumes. Water to the flume was supplied via a pump system and freely accelerated down the adjacent levee towards the tidal marsh. Vegetation response was observed and bed level measurements done. Soil samples were taken for laboratory tests.<br>This dataset mainly serves to complement the publication. Nonetheless, the data is suitable for own analysis and interpretation if interested. The data is raw or partially processed. More information to post-process the data can be found in the README.
DOI: 10.5281/zenodo.10653002
title: Dataset related to article "Diagnostic accuracy and safety of EUS-guided end-cutting fine-needle biopsy needles for tissue sampling of abdominal and mediastinal lymphadenopathies: a prospective multicenter series"

description: This record contains raw data related to article “Diagnostic accuracy and safety of EUS-guided end-cutting fine-needle biopsy needles for tissue sampling of abdominal and mediastinal lymphadenopathies: a prospective multicenter series"



 Background and aims:  The role of the newer EUS fine-needle biopsy needles in lymphadenopathies (LAs) is still under evaluation. We aimed to evaluate the diagnostic accuracy and adverse event rate of EUS-guided fine-needle biopsy sampling (EUS-FNB) in diagnosing LAs.

 Methods:  From June 2015 to June 2022, all patients referred to 4 institutions for EUS-FNB of mediastinal and abdominal LAs were enrolled. Twenty-two-gauge Franseen tip or 25-gauge fork-tip needles were used. The criterion standard for positive results was surgery or imaging and clinical evolution over a follow-up of at least 1 year.

 Results:  One hundred consecutive patients were enrolled, consisting of those with a new diagnosis of LA (40%), presence of LA with a previous history of neoplasia (51%), or suspected lymphoproliferative disease (9%). EUS-FNB was technically feasible in all LA patients with 2 to 3 passes (mean, 2.62 ± .93). The overall sensitivity, positive predictive value, specificity, negative predictive value, and accuracy for EUS-FNB were 96.20%, 100%, 100%, 87.50%, and 97.00%, respectively. Histologic analysis was feasible in 89% of cases. Cytologic evaluation was performed in 67% of specimens. A statistical difference between the accuracy of the 22-gauge or 25-gauge needle (P = .63) was not found. A subanalysis on lymphoproliferative disease revealed a sensitivity and accuracy of 89.29% and 90.0%, respectively. No adverse events were recorded.

 Conclusions:  EUS-FNB with new end-cutting needles is a valuable and safe method to diagnose LAs. The high quality of histologic cores and the good amount of tissue allowed a complete immunohistochemical analysis of metastatic LAs and precise subtyping of the lymphomas. (Clinical trial registration number: NCT02855151.).