cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.4rsvpm
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "OccurrenceStatus is Present",
 "TaxonKey is Dasya sinicola var. abyssicola (Dawson) Dawson"
 ]
}

 The dataset includes 8 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0063826-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7gcttv
title: Occurrence Download

description: A dataset containing 16093 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Ovis aries Linnaeus, 1758"
 ]
}

 The dataset includes 16093 records from 217 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0252873-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.epoqfq
title: Occurrence Download

description: A dataset containing 354 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Hippocrepis eriocarpa (Boiss.) Boiss."
 ]
}

 The dataset includes 354 records from 35 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013034-190918142434337/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ajj9z5
title: Occurrence Download

description: A dataset containing 1588 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Plantae",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "Country is Germany",
 "DecimalLongitude is greater than or equal to 7.78161029343114",
 "DecimalLongitude is less than 7.78466984661554",
 "DecimalLatitude is greater than or equal to 47.27011",
 "DecimalLatitude is less than or equal to 55.05864"
 ]
}

 The dataset includes 1588 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006255-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rfdfbh
title: Occurrence Download

description: A dataset containing 83988 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Odocoileus virginianus (Zimmermann, 1780)"
 ]
}

 The dataset includes 83988 records from 246 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0252859-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.lnur7x
title: Occurrence Download

description: A dataset containing 218938 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Carpinus betulus L."
 ]
}

 The dataset includes 218938 records from 726 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013036-190918142434337/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4krhhc
title: Occurrence Download

description: A dataset containing 1167 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Ansellia africana Lindl."
 ]
}

 The dataset includes 1167 records from 59 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006310-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jfedyr
title: Occurrence Download

description: A dataset containing 4008 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Oreamnos americanus (Blainville, 1816)"
 ]
}

 The dataset includes 4008 records from 78 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0252865-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8ruu3a
title: Occurrence Download

description: A dataset containing 1489 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Population research on small rodents (Rodentia) and shrews (Soricidae) in Steinkjer Municipality – Norway; 1996 - 2017 based on systematic catches with ordinary mouse traps in traplines"
 ]
}

 The dataset includes 1489 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013035-190918142434337/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fs5bsy
title: Occurrence Download

description: A dataset containing 62 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Indonesia",
 "TaxonKey is Caulerpa taxifolia (M.Vahl) C.Agardh"
 ]
}

 The dataset includes 62 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0274006-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6qeqpd
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Anogramma reichsteinii Fraser-Jenk."
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006261-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.15swiv
title: Occurrence Download

description: A dataset containing 2629628 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Continuous Plankton Recorder Dataset (SAHFOS)"
 ]
}

 The dataset includes 2629628 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013040-190918142434337/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6be6cz
title: Occurrence Download

description: A dataset containing 274638 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Carassius auratus (Linnaeus, 1758), Carassius carassius (Linnaeus, 1758), Carassius gibelio (Bloch, 1782), Ctenopharyngodon idella (Valenciennes, 1844), Cyprinus carpio Linnaeus, 1758)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 274638 records from 501 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0325554-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.7745861.v1
title: Proton therapy for thymic malignancies: multi-institutional patterns-of-care and early clinical outcomes from the proton collaborative group and the university of Florida prospective registries

description: <b>Objective:</b> Thymic malignancies (TM) are rare tumors with long-term survivorship, causing concerns for radiotherapy-related late side effects. Proton therapy (PT) reduces the radiation dose to organs at risk, potentially decreasing long-term toxicities while preserving disease control. We report patterns-of-care and early clinical outcomes after PT for thymoma and thymic carcinoma. <b>Methods:</b> Between January 2008 and March 2017, 30 patients with TMs enrolled on one of two IRB-approved prospective protocols and received postoperative or definitive PT. Clinical outcomes, pathology, treatment dose, toxicities, and follow-up information were analyzed. <b>Results:</b> Twenty-two thymoma patients with a median age of 52.1 years (range, 23–72) received a median RT dose of 54 Gy (RBE) (range, 45–70) either postoperatively (91%) or definitively (9%); 23% received adjuvant chemotherapy. Among eight thymic carcinoma patients, the median age was 65.5 years (range, 38-88) and median RT dose was 60 Gy (RBE) (range, 42–70) delivered postoperatively (75%) or definitively (25%); 50% received chemotherapy. Median follow-up for all patients was 13 months (range, 2–59 months). Five patients relapsed, one locally (3%). Three patients died of disease progression, including two thymomas and one thymic carcinoma patient; a fourth died of intercurrent disease. One patient with thymic carcinoma and 1 with thymoma are alive with disease. No patients treated with PT for their initial disease (de novo) experienced grade ≥3 toxicities. The most common grade 2 toxicities were dermatitis (37%), cough (13%), and esophagitis (10%). <b>Conclusion:</b> Adjuvant and definitive PT are being used in the treatment of TMs. Early results of the largest such cohort reported to date demonstrates an acceptable rate of recurrence with a favorable toxicity profile. Longer follow-up and a larger patient cohort are needed to confirm these findings.
DOI: 10.6084/m9.figshare.11415882
title: MOESM1 of Combining transcriptomics and metabolomics to reveal the underlying molecular mechanism of ergosterol biosynthesis during the fruiting process of Flammulina velutipes

description: Additional file 1: Table S1. The statistics of RNA-Seq data at different developmental stages of F. velutipes. Figure S1. The DEG statistics at different stages of F. velutipes. Figure S2. GO functional annotation and classification of DEGs during T1 of F. velutipes. Figure S3. GO functional annotation and classification of DEGs during T2 of F. velutipes. Figure S4. Differential expression profiles of nine DEGs at different developmental stages of F. velutipes. GAPDH and β-actin were used as internal controls. There were three biological replicates and three technical replicates for each gene. Table S2. The results of differential ions identification at different developmental stages of F. velutipes. Table S3. Identified metabolites in the ergosterol biosynthesis during T1 of F. velutipes. Table S4. Identified metabolites in the ergosterol biosynthesis during T2 of F. velutipes. Figure S5. Verification results of the end product ergosterol in metabolomics. (A) LC-MS spectrum of the ergosterol standard. (B) LC-MS spectrum of ergosterol from F. velutipes. Their corresponding m/z and retention time (RT) are indicated in the figure. Excel S1. The profiles of metabolites and gene expression at three different developmental stages of F. velutipes using Pearson’s correlation coefficient. Excel S2. Network analysis results of metabolites and genome-wide genes at three different developmental stages of F. velutipes by Cytoscape. Table S5. Primer sequences of DEGs related to ergosterol biosynthesis in F. velutipes.
DOI: 10.6084/m9.figshare.11415882.v1
title: MOESM1 of Combining transcriptomics and metabolomics to reveal the underlying molecular mechanism of ergosterol biosynthesis during the fruiting process of Flammulina velutipes

description: Additional file 1: Table S1. The statistics of RNA-Seq data at different developmental stages of F. velutipes. Figure S1. The DEG statistics at different stages of F. velutipes. Figure S2. GO functional annotation and classification of DEGs during T1 of F. velutipes. Figure S3. GO functional annotation and classification of DEGs during T2 of F. velutipes. Figure S4. Differential expression profiles of nine DEGs at different developmental stages of F. velutipes. GAPDH and β-actin were used as internal controls. There were three biological replicates and three technical replicates for each gene. Table S2. The results of differential ions identification at different developmental stages of F. velutipes. Table S3. Identified metabolites in the ergosterol biosynthesis during T1 of F. velutipes. Table S4. Identified metabolites in the ergosterol biosynthesis during T2 of F. velutipes. Figure S5. Verification results of the end product ergosterol in metabolomics. (A) LC-MS spectrum of the ergosterol standard. (B) LC-MS spectrum of ergosterol from F. velutipes. Their corresponding m/z and retention time (RT) are indicated in the figure. Excel S1. The profiles of metabolites and gene expression at three different developmental stages of F. velutipes using Pearson’s correlation coefficient. Excel S2. Network analysis results of metabolites and genome-wide genes at three different developmental stages of F. velutipes by Cytoscape. Table S5. Primer sequences of DEGs related to ergosterol biosynthesis in F. velutipes.
DOI: 10.6084/m9.figshare.24523093
title: Do testosterone and sex hormone-binding globulin affect cancer risk? A Mendelian randomization and bioinformatics study

description: Using Mendelian Randomization (MR) and large-scale Genome-Wide Association Study (GWAS) data, this study aimed to investigate the potential causative relationship between testosterone and sex hormone-binding globulin (SHBG) levels and the onset of several cancers, including pathway enrichment analyses of single nucleotide polymorphisms (SNPs) associated with cancer allowed for a comprehensive bioinformatics approach, which offered a deeper biological understanding of these relationships. The results indicated that increased testosterone levels in women were associated with a higher risk of breast and cervical cancers but a lower risk of ovarian cancer. Conversely, increased testosterone was linked to lower stomach cancer risk for men, whereas high SHBG levels were related to decreased risks of breast and prostate cancers. The corresponding genes of the identified SNPs, as revealed by pathway enrichment analysis, were involved in significant metabolic and proliferative pathways. These findings emphasize the need for further research into the biological mechanisms behind these associations, paving the way for potential targeted interventions in preventing and treating these cancers.
DOI: 10.6084/m9.figshare.24523093.v1
title: Do testosterone and sex hormone-binding globulin affect cancer risk? A Mendelian randomization and bioinformatics study

description: Using Mendelian Randomization (MR) and large-scale Genome-Wide Association Study (GWAS) data, this study aimed to investigate the potential causative relationship between testosterone and sex hormone-binding globulin (SHBG) levels and the onset of several cancers, including pathway enrichment analyses of single nucleotide polymorphisms (SNPs) associated with cancer allowed for a comprehensive bioinformatics approach, which offered a deeper biological understanding of these relationships. The results indicated that increased testosterone levels in women were associated with a higher risk of breast and cervical cancers but a lower risk of ovarian cancer. Conversely, increased testosterone was linked to lower stomach cancer risk for men, whereas high SHBG levels were related to decreased risks of breast and prostate cancers. The corresponding genes of the identified SNPs, as revealed by pathway enrichment analysis, were involved in significant metabolic and proliferative pathways. These findings emphasize the need for further research into the biological mechanisms behind these associations, paving the way for potential targeted interventions in preventing and treating these cancers.
DOI: 10.6084/m9.figshare.14037337
title: Additional file 1 of Genomic profiling of Chinese patients with urothelial carcinoma

description: Additional file 1.
DOI: 10.6084/m9.figshare.14037337.v1
title: Additional file 1 of Genomic profiling of Chinese patients with urothelial carcinoma

description: Additional file 1.
DOI: 10.6084/m9.figshare.14037340
title: Additional file 2 of Genomic profiling of Chinese patients with urothelial carcinoma

description: Additional file 2.
DOI: 10.6084/m9.figshare.14037340.v1
title: Additional file 2 of Genomic profiling of Chinese patients with urothelial carcinoma

description: Additional file 2.
DOI: 10.6084/m9.figshare.14037343
title: Additional file 3 of Genomic profiling of Chinese patients with urothelial carcinoma

description: Additional file 3.
DOI: 10.6084/m9.figshare.14037343.v1
title: Additional file 3 of Genomic profiling of Chinese patients with urothelial carcinoma

description: Additional file 3.
DOI: 10.6084/m9.figshare.11415909
title: MOESM1 of A novel graph theoretical approach for modeling microbiomes and inferring microbial ecological relationships

description: Additional file 1 This file contains Inter-bacteria correlations in all sample groups at genus level.
DOI: 10.6084/m9.figshare.11415909.v1
title: MOESM1 of A novel graph theoretical approach for modeling microbiomes and inferring microbial ecological relationships

description: Additional file 1 This file contains Inter-bacteria correlations in all sample groups at genus level.
DOI: 10.6084/m9.figshare.11415915
title: MOESM2 of A novel graph theoretical approach for modeling microbiomes and inferring microbial ecological relationships

description: Additional file 2 This file contains associations between bacterial genera and their microbial pathways with KO density in Crohnâ€™s disease tissue.
DOI: 10.6084/m9.figshare.11415915.v1
title: MOESM2 of A novel graph theoretical approach for modeling microbiomes and inferring microbial ecological relationships

description: Additional file 2 This file contains associations between bacterial genera and their microbial pathways with KO density in Crohnâ€™s disease tissue.
DOI: 10.6084/m9.figshare.15085927
title: Additional file 1 of The 30-days hospital readmission risk in diabetic patients: predictive modeling with machine learning classifiers

description: Additional file 1: The 23 risk factors included in the proposed readmission risk prediction models.
DOI: 10.6084/m9.figshare.15085927.v1
title: Additional file 1 of The 30-days hospital readmission risk in diabetic patients: predictive modeling with machine learning classifiers

description: Additional file 1: The 23 risk factors included in the proposed readmission risk prediction models.
DOI: 10.6084/m9.figshare.11415924
title: MOESM3 of A novel graph theoretical approach for modeling microbiomes and inferring microbial ecological relationships

description: Additional file 3 This file contains list of split graphs for Crohnâ€™s disease patients from tissue group.
DOI: 10.6084/m9.figshare.11415924.v1
title: MOESM3 of A novel graph theoretical approach for modeling microbiomes and inferring microbial ecological relationships

description: Additional file 3 This file contains list of split graphs for Crohnâ€™s disease patients from tissue group.
DOI: 10.6084/m9.figshare.14561655
title: CREG1 promotes lysosomal biogenesis and function

description: CREG1 is a small glycoprotein which has been proposed as a transcription repressor, a secretory ligand, a lysosomal, or a mitochondrial protein. This is largely because of lack of antibodies for immunolocalization validated through gain- and loss-of-function studies. In the present study, we demonstrate, using antibodies validated for immunofluorescence microscopy, that CREG1 is mainly localized to the endosomal-lysosomal compartment. Gain- and loss-of-function analyses reveal an important role for CREG1 in both macropinocytosis and clathrin-dependent endocytosis. CREG1 also promotes acidification of the endosomal-lysosomal compartment and increases lysosomal biogenesis. Functionally, overexpression of CREG1 enhances macroautophagy/autophagy and lysosome-mediated degradation, whereas knockdown or knockout of CREG1 has opposite effects. The function of CREG1 in lysosomal biogenesis is likely attributable to enhanced endocytic trafficking. Our results demonstrate that CREG1 is an endosomal-lysosomal protein implicated in endocytic trafficking and lysosomal biogenesis. <b>Abbreviations:</b> AIFM1/AIF: apoptosis inducing factor mitochondria associated 1; AO: acridine orange; ATP6V1H: ATPase H+ transporting V1 subunit H; CALR: calreticulin; CREG: cellular repressor of E1A stimulated genes; CTSC: cathepsin C; CTSD: cathepsin D; EBAG9/RCAS1: estrogen receptor binding site associated antigen 9; EIPA: 5-(N-ethyl-N-isopropyl)amiloride; ER: endoplasmic reticulum; GFP: green fluorescent protein; HEXA: hexosaminidase subunit alpha; IGF2R: insulin like growth factor 2 receptor; LAMP1: lysosomal associated membrane protein 1; M6PR: mannose-6-phosphate receptor, cation dependent; MAPK1/ERK2: mitogen-activated protein kinase 1; MTORC1: mechanistic target of rapamycin kinase complex 1; PDIA2: protein disulfide isomerase family A member 2; SQSTM1/p62: sequestosome 1; TF: transferrin; TFEB: transcription factor EB
DOI: 10.20381/ruor-22067
title: Sharpening the other side of the dual edged systematic review sword: Expecting more from our users - Dataset

description: Introduction: Librarians are often well prepared before meeting with researchers to discuss their knowledge syntheses needs, specifically systematic reviews (SRs). However, what are the expectations we place on our users to come prepared? Methods: We completed an environmental scan of select medical library websites in the United States, Canada, the United Kingdom, and Australia, examining academic, government and hospital libraries. We searched for information about systematic reviews including guides, services, forms and documents that were required to be filled by users before meeting with a librarian. Results: Preliminary results indicated that there are few institutions that have clearly delineated their expectations of the user before meeting with a librarian for planning a systematic review. Libraries that had more comprehensive systematic review information available to users were more likely to require users to complete a form prior to meeting with a librarian. Most Canadian academic libraries had a consultation form requirement. Australian academic libraries had more interdisciplinary guides on systematic reviews. Discussion: A similar level of preparedness expected from librarians when planning a systematic review should also be extended to users. By delineating what is expected from users ahead of time, both members can properly plan. We have created a set of best practices for SR services, bringing together all relevant information found on forms, documents, and websites from our scan, in the hope of providing the health librarianship community with guidelines they can adapt and implement within their institution or organization.