cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7377317.v1
title: Additional file 4: of Identification of a SiCL1 gene controlling leaf curling and capsule indehiscence in sesame via cross-population association mapping and genomic variants screening

description: Table S4 Genome information of the six candidate variants for the curly leaf trait. *F refers to forward direction. R refers to reverse direction. - indicates that no genes are found in the 10 Kb flanking region of the variant site. **KEGG refers to Kyoto Encyclopedia of Genes and Genomes. C29.460 is the retained gene linked to the curly leaf trait in the interval C29 in this study. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.14717296.v1
title: the_code_for_ploting_result.m from Study on the file management method of data storage system for airborne radar

description: the code file uses the software of MATLAB to read the four data files and draws their pictures which are as shown in Figure 5 of the manuscript.
DOI: 10.6084/m9.figshare.19959611.v1
title: Additional file 4 of The molecular mechanism of circRHOBTB3 inhibits the proliferation and invasion of epithelial ovarian cancer by serving as the ceRNA of miR-23a-3p

description: Additional file 4.
DOI: 10.6084/m9.figshare.19959602
title: Additional file 1 of The molecular mechanism of circRHOBTB3 inhibits the proliferation and invasion of epithelial ovarian cancer by serving as the ceRNA of miR-23a-3p

description: Additional file 1.
DOI: 10.6084/m9.figshare.7377305.v1
title: Additional file 3: of Identification of a SiCL1 gene controlling leaf curling and capsule indehiscence in sesame via cross-population association mapping and genomic variants screening

description: Table S3. Genomic variants screening for the curly leaf trait in sesame using BSA pool data. (XLSX 50 kb)
DOI: 10.6084/m9.figshare.19959602.v1
title: Additional file 1 of The molecular mechanism of circRHOBTB3 inhibits the proliferation and invasion of epithelial ovarian cancer by serving as the ceRNA of miR-23a-3p

description: Additional file 1.
DOI: 10.6084/m9.figshare.5280070
title: Efficient Estimation of the Nonparametric Mean and Covariance Functions for Longitudinal and Sparse Functional Data

description: We consider the estimation of mean and covariance functions for longitudinal and sparse functional data by using the full quasi-likelihood coupling a modification of the local kernel smoothing method. The proposed estimators are shown to be consistent, asymptotically normal, and semiparametrically <i>efficient</i> in terms of their linear functionals. Their superiority to the competitors is further illustrated numerically through simulation studies. The method is applied to analyze AIDS study and atmospheric study. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.7377350.v1
title: Additional file 7: of Identification of a SiCL1 gene controlling leaf curling and capsule indehiscence in sesame via cross-population association mapping and genomic variants screening

description: Table S6. Information of primer pairs of the cDNA sequences of SiCL1 alleles in sesame. Genome information of the six candidate variants for the curly leaf trait. Note: The italic letters in the sequences are the 5â ˛ and 3â ˛ UTR regions of SiCL1 alleles. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.19959608
title: Additional file 3 of The molecular mechanism of circRHOBTB3 inhibits the proliferation and invasion of epithelial ovarian cancer by serving as the ceRNA of miR-23a-3p

description: Additional file 3.
DOI: 10.6084/m9.figshare.6853103
title: MOESM4 of Integrative visual omics of the white-rot fungus Polyporus brumalis exposes the biotechnological potential of its oxidative enzymes for delignifying raw plant biomass

description: Additional file 4: Dataset S2. Mean transcript read counts and numbers of proteins detected in the secretomes for each node of the Tatami map.
DOI: 10.6084/m9.figshare.7377314.v1
title: Additional file 1: of GSK3β-mediated tau hyperphosphorylation triggers diabetic retinal neurodegeneration by disrupting synaptic and mitochondrial functions

description: Figure S1. Synapse loss occurs before apoptosis in RGCs from HFD-induced type 2 diabetic mice. (a-g) HFD-fed mice developed features of type 2 diabetes. (h-i) Western blot. (j) Evans Blue angiography. n = 6 (a-g) or = 4 (h-i) animals per group. *P &lt; 0.05 and **P &lt; 0.01 vs age-match RD controls. Figure S2. HFD promotes hyperphosphorylation of tau in neural retina and optic nerves. Double immunostaining in retina (a) or in RGCs axons (b). Figure S3. Knock-down of tau does not cause disease phenotype under physiological conditions. (a) Knock-down efficiency of a targeted si-Tau. n = 3 eyes per group. *P &lt; 0.05 vs si-sc. (b-c) Immunostaining. Figure S4. Intravitreal delivery of si-Tau prevents RGCs from HFD-induced tau phosphorylation and synapse loss. (a-c) Immunostaining. *P &lt; 0.05 and **P &lt; 0.01 vs si-sc. Figure S5. Intravitreal injection of a GSK3β inhibitor TWS119 reduces retinal tau hyperphosphorylation and synapse loss in HFD-fed mice. (a-c) Immunostaining. *P &lt; 0.05 and **P &lt; 0.01 vs contralateral eye injected with vehicle. Figure S6. Intravitreal delivery of si-GSK3β protects RGCs from HFD-induced vision and synapse loss. (a) Representative VEP. (b) Knock-down efficiency of targeted si-GSK3β. (c-e) Representative immunostaining. n = 4 eyes per group. **P &lt; 0.01 vs si-sc. Figure S7. Inhibition of GSK3β by TWS119 does not trigger disease phenotype under physiological conditions. (a) VEP. (b-c) Immunostaining. Figure S8. Glucolipotoxicity induces dysregulation of Akt/GSK3β signaling and tau hyperphosphorylation in primary RGCs. (a-b) Western blot. (c) Immunostaining. *P &lt; 0.05 and **P &lt; 0.01 vs control; #P &lt; 0.05 and ##P &lt; 0.01 vs HG + PA. Figure S9. Selected tau depletion by siRNA prevents RGCs from glucolipotoxicity-induced mitochondria dysfunction. (a) Western blot. (b) Immunostaining. *P &lt; 0.05 and **P &lt; 0.01 vs si-sc. Figure S10. Tau depletion or GSK3β inhibition restores HFD-impaired mitochondrail activity. (a) Western blot. (b-d) Retinal double immunostaining. n = 4 (a), = 6 (b), or = 5 (c-d) mice per group. **P &lt; 0.01 vs age-match RD controls. (ZIP 7945 kb)
DOI: 10.6084/m9.figshare.19959982
title: Additional file 7 of Evolution and functional diversification of catalase genes in the green lineage

description: Additional file 7: Table S2. The detail information of reannotated CAT proteins.
DOI: 10.6084/m9.figshare.6853184.v1
title: MOESM9 of Integrative visual omics of the white-rot fungus Polyporus brumalis exposes the biotechnological potential of its oxidative enzymes for delignifying raw plant biomass

description: Additional file 9: Dataset S1. Uni-copy genes selected for the construction of the phylogenetic species tree including 16 Polyporales species; Artolenzites elegans, Fomitopsis pinicola (Floudas et al. [58]), Irpex lacteus, Leiotrametes sp., Phanerochaete chrysosporium (Ohm et al. [57]), Polyporus brumalis, Pycnoporus cinnabarinus (Levasseur et al. [56]), P. coccineus, P. puniceus, P. sanguineus, Trametopsis cervina, Trametes cingulata, T. gibbosa, T. ljubarskyi, T. versicolor (Floudas et al. [58]), Wolfiporia cocos (Floudas et al. [58]) and two Russulales species: Heterobasidion annosum (Olson et al. [59]), Stereum hirsutum (Floudas et al.[58]). For each gene, the Mycocosm genome name, the putative yeast ortholog, and the protID in Mycocosm ( https://genome.jgi.doe.gov/programs/fungi/index.jsf ) are provided.
DOI: 10.6084/m9.figshare.6853073.v1
title: Additional file 1: of Comparative iTRAQ proteomics revealed proteins associated with horn development in yak

description: Total proteins identified in the iTRAQ-based experiment. (XLS 657 kb)
DOI: 10.6084/m9.figshare.6853085
title: Additional file 2: of Comparative iTRAQ proteomics revealed proteins associated with horn development in yak

description: Total number of differentially abundant proteins determined by iTRAQ. (XLS 73 kb)
DOI: 10.6084/m9.figshare.6853085.v1
title: Additional file 2: of Comparative iTRAQ proteomics revealed proteins associated with horn development in yak

description: Total number of differentially abundant proteins determined by iTRAQ. (XLS 73 kb)
DOI: 10.6084/m9.figshare.6853184
title: MOESM9 of Integrative visual omics of the white-rot fungus Polyporus brumalis exposes the biotechnological potential of its oxidative enzymes for delignifying raw plant biomass

description: Additional file 9: Dataset S1. Uni-copy genes selected for the construction of the phylogenetic species tree including 16 Polyporales species; Artolenzites elegans, Fomitopsis pinicola (Floudas et al. [58]), Irpex lacteus, Leiotrametes sp., Phanerochaete chrysosporium (Ohm et al. [57]), Polyporus brumalis, Pycnoporus cinnabarinus (Levasseur et al. [56]), P. coccineus, P. puniceus, P. sanguineus, Trametopsis cervina, Trametes cingulata, T. gibbosa, T. ljubarskyi, T. versicolor (Floudas et al. [58]), Wolfiporia cocos (Floudas et al. [58]) and two Russulales species: Heterobasidion annosum (Olson et al. [59]), Stereum hirsutum (Floudas et al.[58]). For each gene, the Mycocosm genome name, the putative yeast ortholog, and the protID in Mycocosm ( https://genome.jgi.doe.gov/programs/fungi/index.jsf ) are provided.
DOI: 10.6084/m9.figshare.6853073
title: Additional file 1: of Comparative iTRAQ proteomics revealed proteins associated with horn development in yak

description: Total proteins identified in the iTRAQ-based experiment. (XLS 657 kb)
DOI: 10.6084/m9.figshare.6853109
title: Additional file 3: of Comparative iTRAQ proteomics revealed proteins associated with horn development in yak

description: The data on Western blot analysis. (XLS 9 kb)
DOI: 10.6084/m9.figshare.6853109.v1
title: Additional file 3: of Comparative iTRAQ proteomics revealed proteins associated with horn development in yak

description: The data on Western blot analysis. (XLS 9 kb)
DOI: 10.6084/m9.figshare.19959622.v1
title: Additional file 1 of Degradome sequencing reveals an integrative miRNA-mediated gene interaction network regulating rice seed vigor

description: Additional file 1: Table S1. List of primers used in this study. Table S2. List of miRNAs and target transcripts identified by degradome sequencing, along with the TPB value of the degradome transcript in the six libraries. Table S3. Statistics of the number of target genes in the degradome dataset or transcript database annotated by the GO terms and KEGG pathways. Table S4. Subcellular localization of different types of degradome transcripts. Table S5. A STRING-based network showing the interactions among nodes (i.e., genes or proteins).
DOI: 10.6084/m9.figshare.8426081.v1
title: Additional file 1: of MicroRNA-374a, -4680, and -133b suppress cell proliferation through the regulation of genes associated with human cleft palate in cultured human palate cells

description: Table S1. PCR primer sets used in this study. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.8426099.v1
title: Additional file 3: of MicroRNA-374a, -4680, and -133b suppress cell proliferation through the regulation of genes associated with human cleft palate in cultured human palate cells

description: Table S3. Genes with significant contribution to human cleft palate. (XLSX 89 kb)
DOI: 10.6084/m9.figshare.19959622
title: Additional file 1 of Degradome sequencing reveals an integrative miRNA-mediated gene interaction network regulating rice seed vigor

description: Additional file 1: Table S1. List of primers used in this study. Table S2. List of miRNAs and target transcripts identified by degradome sequencing, along with the TPB value of the degradome transcript in the six libraries. Table S3. Statistics of the number of target genes in the degradome dataset or transcript database annotated by the GO terms and KEGG pathways. Table S4. Subcellular localization of different types of degradome transcripts. Table S5. A STRING-based network showing the interactions among nodes (i.e., genes or proteins).
DOI: 10.6084/m9.figshare.19959625
title: Additional file 2 of Degradome sequencing reveals an integrative miRNA-mediated gene interaction network regulating rice seed vigor

description: Additional file 2: Figure S1. Category “Biological process” of Gene Ontology (GO) enrichments of target genes corresponding to the unique to unaged and artificially aged WT, MIM164c, and OE164c seeds. The darker the color, the more the number of target genes enriched. A1, A2, and A3 indicate unaged WT, MIM164c and OE164c seeds, respectively; B1, B2, and B3 represent artificially aged WT, MIM164c, and OE164c seeds, respectively. Figure S2. Category “Molecular function” of Gene Ontology (GO) enrichments of target genes corresponding to the unique to unaged and artificially aged WT, MIM164c, and OE164c seeds. The darker the color, the more the number of target genes enriched. A1, A2, and A3 indicate unaged WT, MIM164c and OE164c seeds, respectively; B1, B2, and B3 represent artificially aged WT, MIM164c, and OE164c seeds, respectively. Figure S3. Category “Cellular component” of Gene Ontology (GO) enrichments of target genes corresponding to the unique to unaged and artificially aged WT, MIM164c, and OE164c seeds. The darker the color, the more the number of target genes enriched. A1, A2, and A3 indicate unaged WT, MIM164c and OE164c seeds, respectively; B1, B2, and B3 represent artificially aged WT, MIM164c, and OE164c seeds, respectively.
DOI: 10.6084/m9.figshare.8426099
title: Additional file 3: of MicroRNA-374a, -4680, and -133b suppress cell proliferation through the regulation of genes associated with human cleft palate in cultured human palate cells

description: Table S3. Genes with significant contribution to human cleft palate. (XLSX 89 kb)
DOI: 10.6084/m9.figshare.19959625.v1
title: Additional file 2 of Degradome sequencing reveals an integrative miRNA-mediated gene interaction network regulating rice seed vigor

description: Additional file 2: Figure S1. Category “Biological process” of Gene Ontology (GO) enrichments of target genes corresponding to the unique to unaged and artificially aged WT, MIM164c, and OE164c seeds. The darker the color, the more the number of target genes enriched. A1, A2, and A3 indicate unaged WT, MIM164c and OE164c seeds, respectively; B1, B2, and B3 represent artificially aged WT, MIM164c, and OE164c seeds, respectively. Figure S2. Category “Molecular function” of Gene Ontology (GO) enrichments of target genes corresponding to the unique to unaged and artificially aged WT, MIM164c, and OE164c seeds. The darker the color, the more the number of target genes enriched. A1, A2, and A3 indicate unaged WT, MIM164c and OE164c seeds, respectively; B1, B2, and B3 represent artificially aged WT, MIM164c, and OE164c seeds, respectively. Figure S3. Category “Cellular component” of Gene Ontology (GO) enrichments of target genes corresponding to the unique to unaged and artificially aged WT, MIM164c, and OE164c seeds. The darker the color, the more the number of target genes enriched. A1, A2, and A3 indicate unaged WT, MIM164c and OE164c seeds, respectively; B1, B2, and B3 represent artificially aged WT, MIM164c, and OE164c seeds, respectively.
DOI: 10.6084/m9.figshare.25051373
title: Raw Data.zip

description: The raw data of twofold Rigidity Activates Ultralong Organic High-Temperature Phosphorescence
DOI: 10.7910/dvn/0knoku
title: Replication data for: Inferring Expectations from Observables: Evidence from the Housing Market

description: Review of Economics and Statistics: Forthcoming
DOI: 10.5281/zenodo.10030865
title: Dynamic Construction of Refractive Index-Dependent Vibrations Using Surface Plasmon-Phonon Polaritons

description: MATLAB codes for simulation and theoretical calculation.
DOI: 10.5281/zenodo.10030866
title: Dynamic Construction of Refractive Index-Dependent Vibrations Using Surface Plasmon-Phonon Polaritons

description: MATLAB codes for simulation and theoretical calculation.
DOI: 10.5281/zenodo.7847852
title: DNA-guided transcription factor cooperativity shapes face and limb mesenchyme

description: Code and processed data for "DNA-guided transcription factor cooperativity shapes face and limb mesenchyme," Kim et al, Cell 2024.
DOI: 10.5281/zenodo.7847853
title: DNA-guided transcription factor cooperativity shapes face and limb mesenchyme

description: Code and processed data for "DNA-guided transcription factor cooperativity shapes face and limb mesenchyme," Kim et al, Cell 2024.
DOI: 10.25919/9nzf-pm47
title: Impacts of the loss of environmental enrichment on grazing beef cattle

description: To investigate the effects of enrichment loss (specifically a grooming brush) on the behaviour and stress response of cattle when housed at pasture. Specifically, grooming behaviours were observed, lying and stepping data collected, and ADG, coat cleanliness, faecal cortisol metabolites were measured.
DOI: 10.5281/zenodo.10558808
title: Raman time-delay in attosecond transient absorption of  strong-field created krypton vacancy

description: The data from experimental measurements and theoretical calculations, which supports the paper "Raman time-delay in attosecond transient absorption of  strong-field created krypton vacancy".
DOI: 10.5281/zenodo.10558809
title: Raman time-delay in attosecond transient absorption of  strong-field created krypton vacancy

description: The data from experimental measurements and theoretical calculations, which supports the paper "Raman time-delay in attosecond transient absorption of  strong-field created krypton vacancy".
DOI: 10.21947/2229843
title: DOE Buoy 130 Lidar / Raw Data

description: This dataset contains raw data from DOE Buoy 130 deployed during WFIP3.
DOI: 10.25919/jdwa-aw81
title: Enrichment preferences of pasture-raised beef cattle

description: This data collection contains behavioural and weather data for 56 Angus steers housed at pasture, with four enrichments presented simultaneously (grooming brush, tree stump, hanging rope, woodchip pile). The work aimed to determine the preferences of cattle for these enrichments.
DOI: 10.6084/m9.figshare.25051454
title: Data of Combustion degradation of 18 amino acids in air: Part 2. Kinetic nitrogen isotope effects

description: Data of combustion degradation of 18 amino acids in air: Part 2. Kinetic nitrogen isotope effects
DOI: 10.6084/m9.figshare.25051454.v1
title: Data of Combustion degradation of 18 amino acids in air: Part 2. Kinetic nitrogen isotope effects

description: Data of combustion degradation of 18 amino acids in air: Part 2. Kinetic nitrogen isotope effects
DOI: 10.5281/zenodo.7816671
title: Diversity is Definitely Needed: Improving Model-Agnostic Zero-shot Classification via Stable Diffusion

description: In this work, we investigate the problem of Model-Agnostic Zero-Shot Classification (MA-ZSC), which refers to training non-specific classification architectures (downstream models) to classify real images without using any real images during training. Recent research has demonstrated that generating synthetic training images using diffusion models provides a potential solution to address MA-ZSC. However, the performance of this approach currently falls short of that achieved by large-scale vision-language models. One possible explanation is a potential significant domain gap between synthetic and real images. Our work offers a fresh perspective on the problem by providing initial insights that MA-ZSC performance can be improved by improving the diversity of images in the generated dataset. We propose a set of modifications to the text-to-image generation process using a pre-trained diffusion model to enhance diversity, which we refer to as our <strong>bag of tricks</strong>. Our approach shows notable improvements in various classification architectures, with results comparable to state-of-the-art models such as CLIP. To validate our approach, we conduct experiments on CIFAR10, CIFAR100, and EuroSAT, which is particularly difficult for zero-shot classification due to its satellite image domain. We evaluate our approach with five classification architectures, including ResNet and ViT. Our findings provide initial insights into the problem of MA-ZSC using diffusion models.
DOI: 10.5281/zenodo.10558823
title: Diversity is Definitely Needed: Improving Model-Agnostic Zero-shot Classification via Stable Diffusion

description: In this work, we investigate the problem of Model-Agnostic Zero-Shot Classification (MA-ZSC), which refers to training non-specific classification architectures (downstream models) to classify real images without using any real images during training. Recent research has demonstrated that generating synthetic training images using diffusion models provides a potential solution to address MA-ZSC. However, the performance of this approach currently falls short of that achieved by large-scale vision-language models. One possible explanation is a potential significant domain gap between synthetic and real images. Our work offers a fresh perspective on the problem by providing initial insights that MA-ZSC performance can be improved by improving the diversity of images in the generated dataset. We propose a set of modifications to the text-to-image generation process using a pre-trained diffusion model to enhance diversity, which we refer to as our bag of tricks. Our approach shows notable improvements in various classification architectures, with results comparable to state-of-the-art models such as CLIP. To validate our approach, we conduct experiments on CIFAR10, CIFAR100, and EuroSAT, which is particularly difficult for zero-shot classification due to its satellite image domain. We evaluate our approach with five classification architectures, including ResNet and ViT. Our findings provide initial insights into the problem of MA-ZSC using diffusion models.
DOI: 10.5281/zenodo.7816670
title: Diversity is Definitely Needed: Improving Model-Agnostic Zero-shot Classification via Stable Diffusion

description: In this work, we investigate the problem of Model-Agnostic Zero-Shot Classification (MA-ZSC), which refers to training non-specific classification architectures (downstream models) to classify real images without using any real images during training. Recent research has demonstrated that generating synthetic training images using diffusion models provides a potential solution to address MA-ZSC. However, the performance of this approach currently falls short of that achieved by large-scale vision-language models. One possible explanation is a potential significant domain gap between synthetic and real images. Our work offers a fresh perspective on the problem by providing initial insights that MA-ZSC performance can be improved by improving the diversity of images in the generated dataset. We propose a set of modifications to the text-to-image generation process using a pre-trained diffusion model to enhance diversity, which we refer to as our bag of tricks. Our approach shows notable improvements in various classification architectures, with results comparable to state-of-the-art models such as CLIP. To validate our approach, we conduct experiments on CIFAR10, CIFAR100, and EuroSAT, which is particularly difficult for zero-shot classification due to its satellite image domain. We evaluate our approach with five classification architectures, including ResNet and ViT. Our findings provide initial insights into the problem of MA-ZSC using diffusion models.