cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.7408940
title: The MET-Pottery–Site Report

description: The 'MET-Pottery–Site Report' is part of the PhD thesis submitted by C. Heitz at the University of Bern in 2018 and was coded by M. Hinz. The associated dataset was compiled within the SNSF project No 100011_156205 ‘Mobilities, Entanglements and Transformations in Neolithic Societies of the Swiss Plateau (3900-3500 BC)’, short ‘MET-project’, conducted at the Institute of Archaeological Sciences, University of Bern between 2014 and 2018 (https://data.snf.ch/grants/grant/156205; https://boris.unibe.ch/77649/). It represents the largest and temporally most highly resolved collection of morphological pottery data of the Central European Neolithic. It offers data of 1046 ceramic vessels of different styles that originate out of 44 archaeological features of wetland and dryland sites of the northern Alpine Space and adjacent regions. Most of the archaeological contexts – anthropogenic layers of settlements, pits, and ditches – are typology-independent dated using dendrochronology or C14-dates. The data set includes a spreadsheet of nominal and numeric morphological variables, the collection of the vessels’ semi-profile silhouettes and the typological drawings from which all data was collected. In the scope of the MET-project ‘the data was used to elaborate a new mixed method research (MMR) methodology to investigate social relations beyond problematic concepts of homogeneous ‘archaeological cultures’. It is highly relevant for further methodological morphology-based research on pottery.
DOI: 10.5281/zenodo.7409677
title: The MET-Pottery–Variables_System

description: The variable system was created to compile the 'MET-Pottery–Dataset' within the SNSF project No 100011_156205 ‘Mobilities, Entanglements and Transformations in Neolithic Societies of the Swiss Plateau (3900-3500 BC)’, short ‘MET-project’, conducted at the Institute of Archaeological Sciences, University of Bern between 2014 and 2018 (https://data.snf.ch/grants/grant/156205; https://boris.unibe.ch/77649/). It represents the largest and temporally most highly resolved collection of morphological pottery data of the Central European Neolithic. It offers data of 1046 ceramic vessels of different styles that originate out of 44 archaeological features of wetland and dryland sites of the northern Alpine Space and adjacent regions. Most of the archaeological contexts – anthropogenic layers of settlements, pits, and ditches – are typology-independent dated using dendrochronology or C14-dates. The data set includes a spreadsheet of nominal and numeric morphological variables, the collection of the vessels’ semi-profile silhouettes and the typological drawings from which all data was collected. In the scope of the MET-project ‘the data was used to elaborate a new mixed method research (MMR) methodology to investigate social relations beyond problematic concepts of homogeneous ‘archaeological cultures’. It is highly relevant for further methodological morphology-based research on pottery.
DOI: 10.34740/kaggle/dsv/4777476
title: YouTube Daily
DOI: 10.6084/m9.figshare.21678954
title: Lessons learned from the discovery and development of the sesquiterpene lactones in cancer therapy and prevention

description: Sesquiterpene lactones (SLs) are one of the most diverse bioactive secondary metabolites found in plants and exhibit a broad range of therapeutic properties . SLs have been showing promising potential in cancer clinical trials, and the molecular mechanisms underlying their anticancer potential are being uncovered. Recent evidence also points to a potential utility of SLs in cancer prevention. This work evaluates SLs with promising anticancer potential based on cell, animal, and clinical models: Artemisinin, micheliolide, thapsigargin dehydrocostuslactone, arglabin, parthenolide, costunolide, deoxyelephantopin, alantolactone, isoalantolactone, atractylenolide 1, and xanthatin as well as their synthetic derivatives. We highlight actionable molecular targets and biological mechanisms underlying the anticancer therapeutic properties of SLs. This is complemented by a unique assessment of SL mechanisms of action that can be exploited in cancer prevention. We also provide insights into structure-activity and pharmacokinetic properties of SLs and their potential use in combination therapies. We extract seven major lessons learned and present evidence-based solutions that can circumvent some scientific limitations or logistic impediments in SL anticancer research. SLs continue to be at the forefront of cancer drug discovery and are worth a joint interdisciplinary effort in order to leverage their potential in cancer therapy and prevention.
DOI: 10.6084/m9.figshare.21678954.v1
title: Lessons learned from the discovery and development of the sesquiterpene lactones in cancer therapy and prevention

description: Sesquiterpene lactones (SLs) are one of the most diverse bioactive secondary metabolites found in plants and exhibit a broad range of therapeutic properties . SLs have been showing promising potential in cancer clinical trials, and the molecular mechanisms underlying their anticancer potential are being uncovered. Recent evidence also points to a potential utility of SLs in cancer prevention. This work evaluates SLs with promising anticancer potential based on cell, animal, and clinical models: Artemisinin, micheliolide, thapsigargin dehydrocostuslactone, arglabin, parthenolide, costunolide, deoxyelephantopin, alantolactone, isoalantolactone, atractylenolide 1, and xanthatin as well as their synthetic derivatives. We highlight actionable molecular targets and biological mechanisms underlying the anticancer therapeutic properties of SLs. This is complemented by a unique assessment of SL mechanisms of action that can be exploited in cancer prevention. We also provide insights into structure-activity and pharmacokinetic properties of SLs and their potential use in combination therapies. We extract seven major lessons learned and present evidence-based solutions that can circumvent some scientific limitations or logistic impediments in SL anticancer research. SLs continue to be at the forefront of cancer drug discovery and are worth a joint interdisciplinary effort in order to leverage their potential in cancer therapy and prevention.
DOI: 10.6084/m9.figshare.19204636
title: Development and molecular characterization of doxorubicin-resistant canine mammary gland tumour cells

description: Canine mammary gland tumour (CMT) commonly affects the female dog. The objective of this study was to develop a doxorubicin-resistant CMT cell line and determine its <i>in vitro</i> and <i>in vivo</i> characteristics, including mRNA and microRNA (miRNA) expression profiles. Doxorubicin-resistant CMT-Star cells were developed from CMT-Stylo cells. The cells were characterized, including tumorigenicity in NOD/SCID mouse models. MiRNA and mRNA expression of the two cell lines were profiled and clustered. ATP binding cassette subfamily B member 1 (ABCB1) and subfamily G member 2 (ABCG2) expressions were significantly increased in the CMT-Star cell line. CMT-Star cells also had altered expression of 785 genes and 14 miRNAs. Downregulating plasminogen (PLG) and plasminogen activator urokinase (PLAU) while upregulating transforming growth factor beta receptor 3 (TGFBR3), epidermal growth factor receptor 1 (EGFR1) and ABCB1 rendered CMT-Star cells less proliferative, less invasive and more resistant to chemotherapeutic drugs. The upregulated miRNAs in CMT-Star cells include miRNA-191, -29a, -107, -99b, -874, -93 and -210, while the downregulated miRNAs include miRNAs-106a, -92a, -92b, -155 and -15b. TGFβR, EGF receptor 1 and Wnt signalling are enriched in doxorubicin-resistant CMT-Star cells and could be potential therapeutic targets in dogs with doxorubicin-resistant CMT.
DOI: 10.6084/m9.figshare.19204636.v1
title: Development and molecular characterization of doxorubicin-resistant canine mammary gland tumour cells

description: Canine mammary gland tumour (CMT) commonly affects the female dog. The objective of this study was to develop a doxorubicin-resistant CMT cell line and determine its <i>in vitro</i> and <i>in vivo</i> characteristics, including mRNA and microRNA (miRNA) expression profiles. Doxorubicin-resistant CMT-Star cells were developed from CMT-Stylo cells. The cells were characterized, including tumorigenicity in NOD/SCID mouse models. MiRNA and mRNA expression of the two cell lines were profiled and clustered. ATP binding cassette subfamily B member 1 (ABCB1) and subfamily G member 2 (ABCG2) expressions were significantly increased in the CMT-Star cell line. CMT-Star cells also had altered expression of 785 genes and 14 miRNAs. Downregulating plasminogen (PLG) and plasminogen activator urokinase (PLAU) while upregulating transforming growth factor beta receptor 3 (TGFBR3), epidermal growth factor receptor 1 (EGFR1) and ABCB1 rendered CMT-Star cells less proliferative, less invasive and more resistant to chemotherapeutic drugs. The upregulated miRNAs in CMT-Star cells include miRNA-191, -29a, -107, -99b, -874, -93 and -210, while the downregulated miRNAs include miRNAs-106a, -92a, -92b, -155 and -15b. TGFβR, EGF receptor 1 and Wnt signalling are enriched in doxorubicin-resistant CMT-Star cells and could be potential therapeutic targets in dogs with doxorubicin-resistant CMT.
DOI: 10.6084/m9.figshare.19706740
title: Breed-specific expression mode of the Wnt signalling pathway is involved in feather follicle morphogenesis between <i>Anser cygnoide</i> and <i>Anser anser</i>

description: Feathers are important economic products. <i>Anser cygnoide</i> (<i>AC</i>) is superior in reproduction, growth and feather quality, while <i>Anser anser</i> (<i>AA</i>) has an advantage in feather yield. Understanding the development of feather follicles facilitates deliberate crossbreeding. Here, we compared feather follicles morphogenesis between <i>AC</i> and <i>AA</i>. Feathers and dorsal skin were sampled at multiple embryonic days to investigate feather phenotypes, feather follicle morphology and the expression of hub molecules (FZD4, β-catenin, LEF1, TCF4 and c-Myc) in the Wnt signalling pathway. We found a marked difference in plumage colour between the two breeds. Feather colour in <i>AA</i> has undergone a ‘black dorsum’ stage and cavity formation in <i>AC</i> was earlier. Furthermore, different trends in molecular hub expression helped explain the phenotypical and morphological differences: the upregulated Wnt signals in <i>AC</i> at E12 and/or E15, as well as in <i>AA</i> at E18, were associated with early epidermal placode formation and cavity formation in <i>AC</i>, also, related to the development of the secondary feather follicles and ‘black dorsum’ in <i>AA</i>. Summarily, breed-specific expression patterns of Wnt signalling pathway between <i>AC</i> and <i>AA</i> might participate in the shaping of breed-specific feather follicles morphogenesis and feather phenotypes. This work provides references for feather follicles development in geese.
DOI: 10.6084/m9.figshare.19706740.v1
title: Breed-specific expression mode of the Wnt signalling pathway is involved in feather follicle morphogenesis between <i>Anser cygnoide</i> and <i>Anser anser</i>

description: Feathers are important economic products. <i>Anser cygnoide</i> (<i>AC</i>) is superior in reproduction, growth and feather quality, while <i>Anser anser</i> (<i>AA</i>) has an advantage in feather yield. Understanding the development of feather follicles facilitates deliberate crossbreeding. Here, we compared feather follicles morphogenesis between <i>AC</i> and <i>AA</i>. Feathers and dorsal skin were sampled at multiple embryonic days to investigate feather phenotypes, feather follicle morphology and the expression of hub molecules (FZD4, β-catenin, LEF1, TCF4 and c-Myc) in the Wnt signalling pathway. We found a marked difference in plumage colour between the two breeds. Feather colour in <i>AA</i> has undergone a ‘black dorsum’ stage and cavity formation in <i>AC</i> was earlier. Furthermore, different trends in molecular hub expression helped explain the phenotypical and morphological differences: the upregulated Wnt signals in <i>AC</i> at E12 and/or E15, as well as in <i>AA</i> at E18, were associated with early epidermal placode formation and cavity formation in <i>AC</i>, also, related to the development of the secondary feather follicles and ‘black dorsum’ in <i>AA</i>. Summarily, breed-specific expression patterns of Wnt signalling pathway between <i>AC</i> and <i>AA</i> might participate in the shaping of breed-specific feather follicles morphogenesis and feather phenotypes. This work provides references for feather follicles development in geese.
DOI: 10.6084/m9.figshare.20352775
title: Candidate genes for tick resistance in cattle: a systematic review combining post-GWAS analyses with sequencing data

description: <i>Rhipicephalus microplus</i> causes huge losses in cattle. Host genetic background greatly affects the immune efficiency in resistance or susceptibility to tick infestation, which is one of the many factors that play a role on that trait. We performed a systematic review of genome-wide association studies (GWAS) for tick resistance in cattle resulting in 1353 candidate genes for post-GWAS analyses. From those, genes showing possible structural variants from the bovine genome were classified by the Variant Effect Predictor from Ensembl. Ninety-two candidate genes showed potential structural variants in 5′ UTR and coding region and were used for functional annotation. Enriched biological processes (e.g. regulation of eosinophil chemotaxis, RIG-I signalling pathway and monocyte differentiation) and candidate genes (e.g. <i>DAPK2, PUM1, ACIN1, INPP5D</i>) linked with immune system function were identified and thus associated with tick resistance. Besides, gene-transcription factors (TFs) networks were obtained from TFs associated with immune system (<i>FOXO3, PPARG, STAT3, NFKB1, GATA3 and ARNT</i>) and the candidate genes associated with tick resistance in cattle highlighted (e.g. <i>OR4L1, PNP, LRRIQ1, GIMAP8, MYO6, MEP1A and LRFN2</i>). Thus, promising candidate genes with a possible functional role for tick resistance in cattle are presented for further <i>in vitro</i> and/or <i>in vivo</i> analyses.
DOI: 10.6084/m9.figshare.20352775.v1
title: Candidate genes for tick resistance in cattle: a systematic review combining post-GWAS analyses with sequencing data

description: <i>Rhipicephalus microplus</i> causes huge losses in cattle. Host genetic background greatly affects the immune efficiency in resistance or susceptibility to tick infestation, which is one of the many factors that play a role on that trait. We performed a systematic review of genome-wide association studies (GWAS) for tick resistance in cattle resulting in 1353 candidate genes for post-GWAS analyses. From those, genes showing possible structural variants from the bovine genome were classified by the Variant Effect Predictor from Ensembl. Ninety-two candidate genes showed potential structural variants in 5′ UTR and coding region and were used for functional annotation. Enriched biological processes (e.g. regulation of eosinophil chemotaxis, RIG-I signalling pathway and monocyte differentiation) and candidate genes (e.g. <i>DAPK2, PUM1, ACIN1, INPP5D</i>) linked with immune system function were identified and thus associated with tick resistance. Besides, gene-transcription factors (TFs) networks were obtained from TFs associated with immune system (<i>FOXO3, PPARG, STAT3, NFKB1, GATA3 and ARNT</i>) and the candidate genes associated with tick resistance in cattle highlighted (e.g. <i>OR4L1, PNP, LRRIQ1, GIMAP8, MYO6, MEP1A and LRFN2</i>). Thus, promising candidate genes with a possible functional role for tick resistance in cattle are presented for further <i>in vitro</i> and/or <i>in vivo</i> analyses.
DOI: 10.6084/m9.figshare.21781703.v2
title: Young Hoon Soong & Eun Sung Chung Monthly potential evapotranspiration dataset based on CMIP6 GCM (MRI-ESM2-0-Future period)

description: Regridding Global CMIP6 GCMs datasets(0.5 degree) case of MRI-ESM2-0 <br> Composition of datasets: Average temperature, Maximum temperature, Minimum temperature, Windspeed, Relative humidity, Solar radiation <br> SSP scenarios: SSP1-2.6; SSP2-4.5; SSP3-7.0; SSP5-8.5
DOI: 10.5281/zenodo.5032321
title: Dataset related to article "In-depth genetic and molecular characterization of DIAPH2 as a novel candidate gene for hearing loss"

description: This record contains data (Table S1 to S3, Figure S1 to S12, File S1) related to article “In-depth genetic and molecular characterization of DIAPH2 as a novel candidate gene for hearing loss” . Specifically, the record contains the following supplementary information to the article: Table S1. Coding sequence coverage of known autosomal recessive and X-linked NSHL-causing genes in exome data. Table S2. Rare variants shared between III1 and III3 and absent in III2. Table S3. Primers used for genetic screening of candidate genes/variants. Figure S1. Analysis of auditory brainstem evoked potentials in proband III3. Figure S2. Expression of mouse <em>Diaph2 </em>mRNA in P4 organ of Corti by RT-PCR. Figure S3. Diaph2 expression in E14.5 and E16.5 wild-type mouse cochlea. Figure S4. Evaluation of Diaph2 expression in whole-mount mouse cochleas. Figure S5. Diaph2 expression in P7 and P14 wild-type mouse cochlea. Figure S6. <em>In-silico</em> analysis of the impact of c.868A&gt;G variant on <em>DIAPH2</em> pre-mRNA splicing. Figure S7. <em>In-vitro</em> analysis of the impact of c.868A&gt;G variant on <em>DIAPH2</em> pre-mRNA splicing. Figure S8. <em>In-vitro</em> characterization of the effect of the c.868A&gt;G variation on splicing using a <em>DIAPH2</em>minigene spanning exons 6 to 9. Figure S9. Analysis of <em>DIAPH2</em> exon 8 splicing in blood from NSHL3 family subjects. Figure S10. <em>In-vivo</em> analysis of <em>Diaph2</em> exon 8 splicing in the mouse cochlea. Figure S11. Pathogenicity prediction of the p.I290V missense variant with 8 commonly used software. Figure S12. DIAPH2 immunolocalization studies in basal conditions. File S1. Supplementary Methods
DOI: 10.5281/zenodo.5032320
title: Dataset related to article "In-depth genetic and molecular characterization of Diaphanous Related Formin 2 (DIAPH2) and its role in the inner ear"

description: This record contains data (Table S1 to S4, Figure S1 to S12, File S1) related to article “In-depth genetic and molecular characterization of Diaphanous Related Formin 2 (<em>DIAPH2</em>) and its role in the inner ear” . Specifically, the record contains the following supplementary information to the article: Table S1. Coding sequence coverage of known autosomal recessive and X-linked NSHL-causing genes in exome data. Table S2. Prioritized variants shared between affected siblings III1 and III3. Table S3. CNVs shared between affected siblings III1 and III3. Table S4. Primers used for genetic screening of candidate genes/variants. Figure S1. Analysis of auditory brainstem evoked potentials in proband III3. Figure S2. Expression of mouse <em>Diaph2 </em>mRNA in P4 organ of Corti by RT-PCR. Figure S3. Diaph2 expression in E14.5 and E16.5 wild-type mouse cochlea. Figure S4. Evaluation of Diaph2 expression in whole-mount mouse cochleas. Figure S5. Diaph2 expression in P7 and P14 wild-type mouse cochlea. Figure S6. <em>In-silico</em> analysis of the impact of c.868A&gt;G variant on <em>DIAPH2</em> pre-mRNA splicing. Figure S7. <em>In-vitro</em> analysis of the impact of c.868A&gt;G variant on <em>DIAPH2</em> pre-mRNA splicing. Figure S8. <em>In-vitro</em> characterization of the effect of the c.868A&gt;G variation on splicing using a <em>DIAPH2</em>minigene spanning exons 6 to 9. Figure S9. Analysis of <em>DIAPH2</em> exon 8 splicing in blood from NSHL3 family subjects. Figure S10. <em>In-vivo</em> analysis of <em>Diaph2</em> exon 8 splicing in the mouse cochlea. Figure S11. Pathogenicity prediction of the p.I290V missense variant with 8 commonly used software. Figure S12. DIAPH2 immunolocalization studies in basal conditions. File S1. Supplementary Methods
DOI: 10.5281/zenodo.6973681
title: Dataset related to article "In-depth genetic and molecular characterization of Diaphanous Related Formin 2 (DIAPH2) as a novel candidate gene for hearing loss"

description: This record contains data (Table S1 to S3, Figure S1 to S12, File S1) related to article “In-depth genetic and molecular characterization of Diaphanous Related Formin 2 (<em>DIAPH2</em>) as a novel candidate gene for hearing loss” . Specifically, the record contains the following supplementary information to the article: Table S1. Coding sequence coverage of known autosomal recessive and X-linked NSHL-causing genes in exome data. Table S2. Prioritized variants shared between affected siblings III1 and III3. Table S3. Primers used for genetic screening of candidate genes/variants. Figure S1. Analysis of auditory brainstem evoked potentials in proband III3. Figure S2. Expression of mouse <em>Diaph2 </em>mRNA in P4 organ of Corti by RT-PCR. Figure S3. Diaph2 expression in E14.5 and E16.5 wild-type mouse cochlea. Figure S4. Evaluation of Diaph2 expression in whole-mount mouse cochleas. Figure S5. Diaph2 expression in P7 and P14 wild-type mouse cochlea. Figure S6. <em>In-silico</em> analysis of the impact of c.868A&gt;G variant on <em>DIAPH2</em> pre-mRNA splicing. Figure S7. <em>In-vitro</em> analysis of the impact of c.868A&gt;G variant on <em>DIAPH2</em> pre-mRNA splicing. Figure S8. <em>In-vitro</em> characterization of the effect of the c.868A&gt;G variation on splicing using a <em>DIAPH2</em>minigene spanning exons 6 to 9. Figure S9. Analysis of <em>DIAPH2</em> exon 8 splicing in blood from NSHL3 family subjects. Figure S10. <em>In-vivo</em> analysis of <em>Diaph2</em> exon 8 splicing in the mouse cochlea. Figure S11. Pathogenicity prediction of the p.I290V missense variant with 8 commonly used software. Figure S12. DIAPH2 immunolocalization studies in basal conditions. File S1. Supplementary Methods
DOI: 10.5281/zenodo.7286415
title: Dataset related to article "In-depth genetic and molecular characterization of Diaphanous Related Formin 2 (DIAPH2) and its role in the inner ear"

description: This record contains data (Table S1 to S4, Figure S1 to S12, File S1) related to article “In-depth genetic and molecular characterization of Diaphanous Related Formin 2 (<em>DIAPH2</em>) and its role in the inner ear” . Specifically, the record contains the following supplementary information to the article: Table S1. Coding sequence coverage of known autosomal recessive and X-linked NSHL-causing genes in exome data. Table S2. Prioritized variants shared between affected siblings III1 and III3. Table S3. CNVs shared between affected siblings III1 and III3. Table S4. Primers used for genetic screening of candidate genes/variants. Figure S1. Analysis of auditory brainstem evoked potentials in proband III3. Figure S2. Expression of mouse <em>Diaph2 </em>mRNA in P4 organ of Corti by RT-PCR. Figure S3. Diaph2 expression in E14.5 and E16.5 wild-type mouse cochlea. Figure S4. Evaluation of Diaph2 expression in whole-mount mouse cochleas. Figure S5. Diaph2 expression in P7 and P14 wild-type mouse cochlea. Figure S6. <em>In-silico</em> analysis of the impact of c.868A&gt;G variant on <em>DIAPH2</em> pre-mRNA splicing. Figure S7. <em>In-vitro</em> analysis of the impact of c.868A&gt;G variant on <em>DIAPH2</em> pre-mRNA splicing. Figure S8. <em>In-vitro</em> characterization of the effect of the c.868A&gt;G variation on splicing using a <em>DIAPH2</em>minigene spanning exons 6 to 9. Figure S9. Analysis of <em>DIAPH2</em> exon 8 splicing in blood from NSHL3 family subjects. Figure S10. <em>In-vivo</em> analysis of <em>Diaph2</em> exon 8 splicing in the mouse cochlea. Figure S11. Pathogenicity prediction of the p.I290V missense variant with 8 commonly used software. Figure S12. DIAPH2 immunolocalization studies in basal conditions. File S1. Supplementary Methods