cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7774871.v1
title: Additional file 7: of Application of amplicon-based targeted sequencing with the molecular barcoding system to detect uncommon minor EGFR mutations in patients with treatment-naĂŻve lung adenocarcinoma

description: Table S5. Patient characteristics. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.7774895
title: Additional file 10: of Differences in expression rather than methylation at placenta-specific imprinted loci is associated with intrauterine growth restriction

description: Multivariant analysis. Identification of factors/conditions that influence expression levels between IUGR and control placenta samples. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.7774895.v1
title: Additional file 10: of Differences in expression rather than methylation at placenta-specific imprinted loci is associated with intrauterine growth restriction

description: Multivariant analysis. Identification of factors/conditions that influence expression levels between IUGR and control placenta samples. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.7774907
title: Additional file 2: of Differences in expression rather than methylation at placenta-specific imprinted loci is associated with intrauterine growth restriction

description: Details of the primers used for PCR amplifications in this study. (XLSX 27 kb)
DOI: 10.6084/m9.figshare.7774907.v1
title: Additional file 2: of Differences in expression rather than methylation at placenta-specific imprinted loci is associated with intrauterine growth restriction

description: Details of the primers used for PCR amplifications in this study. (XLSX 27 kb)
DOI: 10.6084/m9.figshare.7774913
title: Additional file 3: of Differences in expression rather than methylation at placenta-specific imprinted loci is associated with intrauterine growth restriction

description: HM450k Infinium probe IDs and β values at known imprinted regions. The methylation β values for each of the probes within (A) ubiquitous and (B) known placenta-specific imprinted DMRs. (XLSX 1048 kb)
DOI: 10.6084/m9.figshare.7774913.v1
title: Additional file 3: of Differences in expression rather than methylation at placenta-specific imprinted loci is associated with intrauterine growth restriction

description: HM450k Infinium probe IDs and β values at known imprinted regions. The methylation β values for each of the probes within (A) ubiquitous and (B) known placenta-specific imprinted DMRs. (XLSX 1048 kb)
DOI: 10.6084/m9.figshare.1483471
title: ISL-1 promotes pancreatic islet cell proliferation by forming an ISL-1/Set7/9/PDX-1 complex

description: Islet-1 (ISL-1), a LIM-homeodomain transcription factor, has been recently found to be essential for promoting postnatal pancreatic islet proliferation. However, the detailed mechanism has not yet been elucidated. In the present study, we investigated the mechanism by which ISL-1 promotes β-cell proliferation through regulation of CyclinD1 in HIT-T15 and NIT-1 cells, as well in rat islet mass. Our results provide the evidence that ISL-1 promotes adult pancreatic islet β-cell proliferation by activating CyclinD1 transcription through cooperation with Set7/9 and PDX-1 to form an ISL-1/Set7/9/PDX-1 complex. This complex functions in an ISL-1-dependent manner, with Set7/9 functioning not only as a histone methyltransferase, which increases the histone H3K4 tri-methylation of the CyclinD1 promoter region, but also an adaptor to bridge ISL-1 and PDX-1, while PDX-1 functions as a RNA pol II binding modulator. Furthermore, the formation of the ISL-1/Set7/9/PDX-1 complex is positively associated with insulin-like growth factor-1 treatment in NIT and HIT-T15 cells <i>in vitro</i>, while may be negatively correlated with age <i>in vivo</i>.
DOI: 10.6084/m9.figshare.1483471.v1
title: ISL-1 promotes pancreatic islet cell proliferation by forming an ISL-1/Set7/9/PDX-1 complex

description: Islet-1 (ISL-1), a LIM-homeodomain transcription factor, has been recently found to be essential for promoting postnatal pancreatic islet proliferation. However, the detailed mechanism has not yet been elucidated. In the present study, we investigated the mechanism by which ISL-1 promotes β-cell proliferation through regulation of CyclinD1 in HIT-T15 and NIT-1 cells, as well in rat islet mass. Our results provide the evidence that ISL-1 promotes adult pancreatic islet β-cell proliferation by activating CyclinD1 transcription through cooperation with Set7/9 and PDX-1 to form an ISL-1/Set7/9/PDX-1 complex. This complex functions in an ISL-1-dependent manner, with Set7/9 functioning not only as a histone methyltransferase, which increases the histone H3K4 tri-methylation of the CyclinD1 promoter region, but also an adaptor to bridge ISL-1 and PDX-1, while PDX-1 functions as a RNA pol II binding modulator. Furthermore, the formation of the ISL-1/Set7/9/PDX-1 complex is positively associated with insulin-like growth factor-1 treatment in NIT and HIT-T15 cells <i>in vitro</i>, while may be negatively correlated with age <i>in vivo</i>.
DOI: 10.17632/6hrvcvjs4m.1
title: The effect of turbidity on female mate choice in the guppy

description: Environmental pollutants can increase communication costs and distort the accuracy of received information, leading to negative effects on the outcome of behavioural adjustments. In aquatic ecosystems, water turbidity shows high levels of natural variation, but human activities amplify its magnitude and extent by increasing algae and suspended solids in the water and algal growth. Here we investigated how elevated levels of water turbidity affected mating decisions made by female guppies (Poecilia reticulata). We manipulated turbidity by varying the amount of suspended solids and tested for whether female guppies modify their preference for males with more orange coloration. We found that females spent more time near males with a greater area of orange colouration in clear water, but that this preference disappeared in both the low and high turbid water treatments. Moreover, we found that female preferences were highly repeatable in clear water and high turbid water but not in low turbid water. Together, our results suggest that water turbidity impairs the ability of females to discern male colouration and affects the consistency of mate preferences. This could have consequences for the evolution of male colouration in turbid waters.
DOI: 10.17632/6hrvcvjs4m.2
title: The effect of turbidity on female mate choice in the guppy

description: Animals often moderate behaviours based on environmental and social cues to enhance their chances of survival and reproductive success. This requires reliable cues that reflect changes in ambient conditions. Environmental pollutants can increase communication costs and distort the accuracy of received information, leading to negative effects on the outcome of behavioural adjustments. Consequently, selection may reduce behavioural plasticity to avoid errors or promote more prudent decision-making when certain cues become unreliable. In aquatic ecosystems, water turbidity shows high levels of natural variation, but human activities amplify its magnitude and extent by increasing algae and suspended solids in the water. Here, we investigated how elevated levels of water turbidity affected mating decisions made by female guppies (Poecilia reticulata) in a laboratory setting. Guppies are a widespread species with a broad tolerance of polluted environments, and females rely heavily on visual cues when making mate choice decisions. We manipulated turbidity by adding suspended solids to water and tested how this affected female preference for males with more orange coloration. We found that females spent more time near males with a greater area of orange colouration in low turbidity water, but that this preference disappeared in both the mid and high turbid water treatments. Moreover, female preferences were highly repeatable in low turbidity water and high turbidity water but not in mid turbidity water. Together, our results suggest that water turbidity impairs the ability of females to discern male colouration and affects the consistency of mate preferences. This could have consequences for the evolution of male colouration in turbid waters.
DOI: 10.25402/epi.17212127
title: Supplementary Tables – Comprehensive analysis of epigenetic modifications and immune-cell infiltration in tissues from SLE patients

description: Supplementary
Table 1 Primers for RT-qPCR 

Supplementary
Table 2 The number of patients in GEO datasets 

Supplementary
Table 3 Marker genes of cells 

Supplementary
Table 4 Analysis of key genes expressions in GSE185047
DOI: 10.25402/epi.17212127.v1
title: Supplementary Tables – Comprehensive analysis of epigenetic modifications and immune-cell infiltration in tissues from SLE patients

description: Supplementary
Table 1 Primers for RT-qPCR 

Supplementary
Table 2 The number of patients in GEO datasets 

Supplementary
Table 3 Marker genes of cells 

Supplementary
Table 4 Analysis of key genes expressions in GSE185047
DOI: 10.17632/9cz3tdy4t9.1
title: Drivers of Bricolage Behaviour in Internationalising SMEs: The Role of Sensemaking and Institutions - Appendix

description: Includes the factor loadings, measurement model and validity analysis, and scale items for the scales used in the empirical analysis in this study.
DOI: 10.6084/m9.figshare.7774943
title: Additional file 6: of Differences in expression rather than methylation at placenta-specific imprinted loci is associated with intrauterine growth restriction

description: Catalogue of outliers. Outliers identified using 1.5 IQR for placenta-specific imprinted DMRs using HM450k array dataset. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.7774943.v1
title: Additional file 6: of Differences in expression rather than methylation at placenta-specific imprinted loci is associated with intrauterine growth restriction

description: Catalogue of outliers. Outliers identified using 1.5 IQR for placenta-specific imprinted DMRs using HM450k array dataset. (XLSX 12 kb)
DOI: 10.17632/48k6vvyj6b.1
title: COVID-19 WAVE2

description: WAVE 2 national survey data, wave 2
DOI: 10.17632/48k6vvyj6b.2
title: COVID-19 WAVE2

description: WAVE 2 national survey data, wave 2
DOI: 10.6084/m9.figshare.20882150
title: Additional file 3 of Strategies for understanding the role of cellular heterogeneity in the pathogenesis of lung cancer: a cell model for chronic exposure to cigarette smoke extract

description: Additional file 3. Mitochondrial DNA copy number for each generation of 16HBE-B cells.
DOI: 10.6084/m9.figshare.20882150.v1
title: Additional file 3 of Strategies for understanding the role of cellular heterogeneity in the pathogenesis of lung cancer: a cell model for chronic exposure to cigarette smoke extract

description: Additional file 3. Mitochondrial DNA copy number for each generation of 16HBE-B cells.
DOI: 10.17632/vn3bvngtc2.1
title: LC-MS/MS data of bioengineering modification of the glycome using Salmonella (Ying Sheng)

description: We established a metabolic-engineered host cell model that generates controlled glycan structure phenotypes on the cell surface. Specifically, we produced host cell surfaces that were primarily fucosylated, sialylated, undecorated complex type structures, and high mannose-type structures. The manipulated host cell N-glycomes were characterized and confirmed by liquid chromatography-tandem mass spectrometry (LC-MS/MS) 
analysis. Furthermore, glycoproteomic analysis yielded site-specific N-glycosylation information. Glycopeptides were identified and quantified using a standard glycoproteomic workflow. Collectively, our results suggested the importance of glycans in host-microbe interactions and provided a novel insight into the significance of host glycome during pathogenesis.
DOI: 10.17632/jn3dcyddrg.1
title: Supplementary Table 1 for "Understanding Predictors of Patient No-Shows in Adult Outpatient Dermatology"

description: Supplementary Table 1: Matched Multivariable Analysis of Patient Characteristics with No-Shows. To validate our multivariable regression analysis, we performed a 1:5 age and gender matched analysis using the nearest neighbor method. The results were consistent and showed that non-White, Hispanic, Non-English speaking, and public insurance patients were all associated with significantly higher odds of no-show.
DOI: 10.17632/jn3dcyddrg.2
title: Supplementary Table 3 for "Understanding Predictors of Patient No-Shows in Adult Outpatient Dermatology"

description: Supplementary Table 3: Matched Multivariable Analysis of Patient Characteristics with No-Shows. To validate our multivariable regression analysis, we performed a 1:5 age and gender matched analysis using the nearest neighbor method. The results were consistent and showed that non-White, Hispanic, Non-English speaking, and public insurance patients were all associated with significantly higher odds of no-show.
DOI: 10.6084/m9.figshare.20882153
title: Additional file 4 of Strategies for understanding the role of cellular heterogeneity in the pathogenesis of lung cancer: a cell model for chronic exposure to cigarette smoke extract

description: Additional file 4. Mitochondrial DNA copy number for each generation of 16HBE-S cells.
DOI: 10.6084/m9.figshare.20882153.v1
title: Additional file 4 of Strategies for understanding the role of cellular heterogeneity in the pathogenesis of lung cancer: a cell model for chronic exposure to cigarette smoke extract

description: Additional file 4. Mitochondrial DNA copy number for each generation of 16HBE-S cells.
DOI: 10.17632/rcx3mcssnx.1
title: Gene Targets and Pre-validation results for CRISPR Cas-9 editng of hydrogenase genes in Rhodobacter johrii isolate MAY2

description: This dataset contain gene sequences for the small and large sub-unit of uptake hydrogenase found in Rhodobacter johrii obtained through whoke genome sequencing. Moreover, it contains gRNA and primer sequences to target these genes for manipulation. Additionally, this contains in-vitro cleavage assay results pre-validating the gRNA sequence as effective in cleaving the target genes as well as the ability of the primers to amplify the genes.
DOI: 10.17632/rcx3mcssnx.2
title: Gene Targets and Pre-validation results for CRISPR Cas-9 editng of hydrogenase genes in Rhodobacter johrii isolate MAY2

description: This dataset contain gene sequences for the small and large sub-unit of uptake hydrogenase found in Rhodobacter johrii obtained through whoke genome sequencing. Moreover, it contains gRNA and primer sequences to target these genes for manipulation. Additionally, this contains in-vitro cleavage assay results pre-validating the gRNA sequence as effective in cleaving the target genes as well as the ability of the primers to amplify the genes.
DOI: 10.5279/dk-sa-dda-1606
title: Det danske Tvillingregister
title: Danish Twin Register

description: Det danske tvillingeregister, som blev oprettet i 1954, rummer oplysninger om alle tvillinger i Danmark født imellem 1870 og 1930 samt fra 1967 og til i dag - det drejer sig om ca. 50.000 personer. Formålet med oprettelsen af registret var at tilvejebringe et forskningsmateriale, som kunne sige noget om sammenhængen mellem sygdom og arvelighed. Fra første færd var det studiet af kræft, der var registrets hovedemne. Sidenhen er det fx brugt til undersøgelser om sukkersyge, skizofreni og maniodepression.     #  Registret, som endnu ikke i fuldt omfang foreligger på maskinlæsbar form, omfatter oplysninger om bl.a. fødsels- og dødsdatoer, eventuelle sygdomme og hospitalsindlæggelser. Oplysningerne er indsamlet dels via afskrifter fra kirkebøger, korrespondancer med folkeregistre, skifteretter etc., kopier af dødsattester, journaluddrag samt udtræk fra Det centrale Personregister og dels via besvarede spørgeskemaer fra tvillingerne eller deres nærmeste pårørende.     #  Registret er under stadig udvidelse; par, som endnu ikke er sporet (ca. 5% af tvillingerne født i de indtil nu af registret omfattede perioder), bliver stadig eftersøgt og inkluderes i aktuelle undersøgelser, når de bliver fundet, ligesom nye fødselsårgange (herunder tvillinger født i perioden mellem 1930 og 1967) gradvist bliver inkluderet i registret
description: The Danish register of twins was established in 1954. It contains basic information on all twins in Denmark born between 1870 and 1930 as well as from 1967 up to the present - i.e. registrations of approx. 50,000 persons. The purpose of the register is to obtain a research material which may reveal something about the correlation between disease and heredity. From the start the main purpose of the register was to study the incidence of cancer. Later on the register has been used as the basis of the selection of pairs of twins for surveys on diabetes, schizophrenia and manic-depression.     #  The register, which is not yet fully machine-readable, contains information on, among other things, dates of birth and death, diseases, if any, and hospital admission. The information was collected by means of copies of church registers, correspondence with national registration offices, probate courts, etc., copies of death certificates, extracts from medical records, extracts from the Central Population Register, as well as questionnaires completed by a number of selected twins or their nearest relations.     #  The register is currently updated; pairs of twins which have not yet been traced (approx. 5% of the twins born in the time periods so far covered by the register) are still searched for and will be included in the material when they are found. Likewise, new age groups (including twins born between 1930 and 1967) are currently added to the register
description: Se abstract
description: See abstract
DOI: 10.17632/nmb8csghjc.1
title: Dramatic responses to high dose ipilimumab plus temozolomide

description: Background: Despite advancements in checkpoint inhibitor-based immunotherapy, patients with advanced melanoma who have progressed on standard dose ipilimumab (Ipi) + nivolumab continue to have poor prognosis. Several studies support a dose-response activity of Ipi, and one promising combination is Ipi 10mg/kg (Ipi10) + temozolomide (TMZ).

Methods: We performed a retrospective cohort analysis of patients with advanced melanoma treated with Ipi10+TMZ in the immunotherapy refractory/resistant setting (n = 6), using similar patients treated with Ipi3+TMZ (n = 6) as comparison. Molecular profiling by whole exome sequencing (WES) and RNA-seq of tumors harvested through one responder’s treatment was performed.

Results: With a median follow up of 119 days, patients treated with Ipi10+TMZ had statistically significant longer median progression free survival of 144.5 days (range 27–219) vs 44 (26–75) in Ipi3+TMZ, p=0.04, and a trend for longer median overall survival of 154.5 days (27–537) vs 89.5 (26–548). All patients in the Ipi10 cohort had progressed on prior Ipi+Nivo. WES revealed only 12 shared somatic mutations including BRAF V600E. RNA-seq showed enrichment of inflammatory signatures, including interferon responses in metastatic lesions after standard dose Ipi + nivo and Ipi10 + TMZ compared to the primary tumor, and downregulated negative immune regulators including Wnt and TGFb signaling.

Conclusion: Ipi10+TMZ demonstrated efficacy including dramatic responses in patients with advanced melanoma refractory to prior Ipi + anti-PD1, even with CNS metastases. Molecular data suggest a potential threshold of Ipi dose for activation of sufficient anti-tumor immune response, and higher dose Ipi is required for some patients.
DOI: 10.6084/m9.figshare.20882159
title: Additional file 5 of Strategies for understanding the role of cellular heterogeneity in the pathogenesis of lung cancer: a cell model for chronic exposure to cigarette smoke extract

description: Additional file 5. Relative telomere length change value for 16HBE-B in each generation.
DOI: 10.17632/5xzr4dv9s9.1
title: Supplementary Table 2 for "Understanding Predictors of Patient No-Shows in Adult Outpatient Dermatology"

description: Supplementary Table 2: Multivariable Analysis of Specialty Clinics and Association with No-Shows. These separate multivariable regression analyses split the patient appointments into specialty clinics such as alopecia, melanoma, patch testing, high risk skin cancer, etc. When stratified by specialty clinics, most patient characteristics were not significantly associated with no-shows, though being of Black race was significantly associated with no-shows in virtual, high-risk skin cancer (HRSC), injection, and urgent visits (P&lt;.01). Having public insurance was significantly associated with higher odds of no-show in HRSC, patch testing, and urgent visits (P&lt;.02).
DOI: 10.6084/m9.figshare.20882159.v1
title: Additional file 5 of Strategies for understanding the role of cellular heterogeneity in the pathogenesis of lung cancer: a cell model for chronic exposure to cigarette smoke extract

description: Additional file 5. Relative telomere length change value for 16HBE-B in each generation.
DOI: 10.17632/5xzr4dv9s9.2
title: Supplementary Table 4 for "Understanding Predictors of Patient No-Shows in Adult Outpatient Dermatology"

description: Supplementary Table 4: Multivariable Analysis of Specialty Clinics and Association with No-Shows. These separate multivariable regression analyses split the patient appointments into specialty clinics such as alopecia, melanoma, patch testing, high risk skin cancer, etc. When stratified by specialty clinics, most patient characteristics were not significantly associated with no-shows, though being of Black race was significantly associated with no-shows in virtual, high-risk skin cancer (HRSC), injection, and urgent visits (P&lt;.01). Having public insurance was significantly associated with higher odds of no-show in HRSC, patch testing, and urgent visits (P&lt;.02).
DOI: 10.17632/whgfwf35j5.1
title: Long COVID across SARS-CoV-2 variants, lineages, and sublineages

description: COVID Hospital General Universitary de Elche Cohort
DOI: 10.6084/m9.figshare.20882165
title: Additional file 6 of Strategies for understanding the role of cellular heterogeneity in the pathogenesis of lung cancer: a cell model for chronic exposure to cigarette smoke extract

description: Additional file 6. Relative telomere length change value for 16HBE-S in each generation.
DOI: 10.6084/m9.figshare.20882165.v1
title: Additional file 6 of Strategies for understanding the role of cellular heterogeneity in the pathogenesis of lung cancer: a cell model for chronic exposure to cigarette smoke extract

description: Additional file 6. Relative telomere length change value for 16HBE-S in each generation.
DOI: 10.6084/m9.figshare.20882168
title: Additional file 7 of Strategies for understanding the role of cellular heterogeneity in the pathogenesis of lung cancer: a cell model for chronic exposure to cigarette smoke extract

description: Additional file 7. The stemness gene expression levels of 16HBE-B and 16HBE-S cells of different generations.
DOI: 10.6084/m9.figshare.20882168.v1
title: Additional file 7 of Strategies for understanding the role of cellular heterogeneity in the pathogenesis of lung cancer: a cell model for chronic exposure to cigarette smoke extract

description: Additional file 7. The stemness gene expression levels of 16HBE-B and 16HBE-S cells of different generations.
DOI: 10.6084/m9.figshare.20882171
title: Additional file 8 of Strategies for understanding the role of cellular heterogeneity in the pathogenesis of lung cancer: a cell model for chronic exposure to cigarette smoke extract

description: Additional file 8. Original Image for checking-16HBE-B CSE and Control group.
DOI: 10.6084/m9.figshare.20882171.v1
title: Additional file 8 of Strategies for understanding the role of cellular heterogeneity in the pathogenesis of lung cancer: a cell model for chronic exposure to cigarette smoke extract

description: Additional file 8. Original Image for checking-16HBE-B CSE and Control group.