cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.4454151
title: Socio World-Social Research & Behavioral Sciences

description: Socio World-Social Research & Behavioral Sciences
DOI: 10.5517/ccdc.csd.cc27qtvn
title: CCDC 2077522: Experimental Crystal Structure Determination

description: Related Article: Heather Buckley, John Arnold|2021|CSD Communication|||
DOI: 10.5517/ccdc.csd.cc27qtwp
title: CCDC 2077523: Experimental Crystal Structure Determination

description: Related Article: Heather Buckley, John Arnold|2021|CSD Communication|||
DOI: 10.6084/m9.figshare.14453094
title: High-grain diet induces cecal microbial and metabolic perturbations and results in mucosal injuries in sheep

description: 435 metagenome-assembled genomes (completeness ≥80% and contamination ≤10%) reconstructed from the metagenomic data.
DOI: 10.6084/m9.figshare.14456559.v2
title: tested_images.mat

description: The up-sampled images in the real-time measurement test.
DOI: 10.6084/m9.figshare.14453094.v1
title: High-grain diet induces cecal microbial and metabolic perturbations and results in mucosal injuries in sheep

description: 435 metagenome-assembled genomes (completeness ≥80% and contamination ≤10%) reconstructed from the metagenomic data.
DOI: 10.5517/ccdc.csd.cc27rykj
title: CCDC 2078598: Experimental Crystal Structure Determination

description: Related Article: Z.A.Starikova, N.M.Loim|2021|CSD Communication|||
DOI: 10.6084/m9.figshare.14456559.v3
title: tested_images in tne real-time measurement test

description: The up-sampled images in the real-time measurement test.
DOI: 10.6084/m9.figshare.14456595
title: gut microbiota and metabolomics data

description: <b>Policosanol attenuates hyperlipidemia, lipid accumulation via modulation of gut microbiota and serum metabolism in C57BL/6 Mice</b>
DOI: 10.25345/c5r51f
title: MassIVE MSV000087251 - Systematic evaluation and modulation of HLA class I downregulation in Merkel cell carcinoma
title: Lee PC, Klaeger S, Le PM, Korthauer K, Cheng J, Wong A, Tarren A, Lemvigh C, Sarkizova S, Li L, Frost TC, Nomburg J, Liu X, Pomerance L, Doherty L, Witten E, Zhang W, Apffel A, Wallace L, Neuberg D, Olsen L, Thakuria M, Clauser K, Starrett G, Doench J, Buhrlage SJ, Carr SA, DeCaprio JA, Wu CJ, Keskin DB. 2021 Viruses avoid immune surveillance through an array of mechanisms, including perturbation of HLA class I (HLA I) antigen presentation. Merkel cell carcinoma (MCC) is a neuroendocrine skin cancer often caused by the Merkel cell polyomavirus (MCPyV) that exhibits low HLA class I surface expression. Through the characterization of 11 newly generated MCC cell lines, we identified multiple class I defects including transcriptional suppression of HLA I genes and NLRC5 alterations. To systematically identify regulators of HLA I loss in MCC, we performed parallel genome-scale gain- and loss-of-function screens in an MCPyV-positive line and identified the noncanonical Polycomb repressive complex PRC1.1 and MYCL as HLA I suppressors. Both hits interact with MCPyV viral antigens, and pharmacologic inhibition of PRC1.1 component USP7 resulted in HLA I upregulation. These findings establish a mechanism for MCPyV-mediated HLA class I suppression and identify therapeutic targets for HLA restoration in MCC.
DOI: 10.6084/m9.figshare.7569659.v2
title: Additional file 1 of Diversity and evolution of the transposable element repertoire in arthropods with particular reference to insects

description: Statistics on the TE content of arthropod genomes. This tab-separated table lists the genome assembly size as well as the genome coverage of DNA, LINE, LTR, SINE, and Unknown transposons. (TXT 8 kB)
DOI: 10.6084/m9.figshare.7569683.v2
title: Additional file 4 of Diversity and evolution of the transposable element repertoire in arthropods with particular reference to insects

description: Genomic datasets. This tab-separated table contains the download URLs for the genome assemblies used in this study. (TXT 10 kB)
DOI: 10.6084/m9.figshare.14456679.v1
title: Additional file 1 of Active behavior of triple-negative breast cancer with adipose tissue invasion: a single center and retrospective review

description: Additional file 1.
DOI: 10.6084/m9.figshare.14456679
title: Additional file 1 of Active behavior of triple-negative breast cancer with adipose tissue invasion: a single center and retrospective review

description: Additional file 1.
DOI: 10.6084/m9.figshare.14456702.v1
title: Additional file 4 of The pregnane X receptor drives sexually dimorphic hepatic changes in lipid and xenobiotic metabolism in response to gut microbiota in mice

description: Additional file 3. List of all genes detected in the microarray experiment, log(fold-changes), raw p-values and corrected p-values for inter-group comparisons.
DOI: 10.6084/m9.figshare.14456702
title: Additional file 4 of The pregnane X receptor drives sexually dimorphic hepatic changes in lipid and xenobiotic metabolism in response to gut microbiota in mice

description: Additional file 3. List of all genes detected in the microarray experiment, log(fold-changes), raw p-values and corrected p-values for inter-group comparisons.
DOI: 10.6084/m9.figshare.14456708
title: Additional file 6 of The pregnane X receptor drives sexually dimorphic hepatic changes in lipid and xenobiotic metabolism in response to gut microbiota in mice

description: Additional file 5 Gene lists and GO enrichment analyses for Pxr-/- vs Pxr+/+ transcriptome comparisons. (A) List of genes significantly up-regulated in males Pxr-/- compared to males Pxr+/+. (B) GO term enrichment analysis using the list of genes significantly up-regulated in males Pxr-/- compared to males Pxr+/+. Metabolic pathways (summary) were considered as significantly enriched when q-value &lt; 0.05. (C) List of genes significantly up-regulated in females Pxr-/- compared to females Pxr+/+. (D) GO term enrichment analysis using the list of genes significantly up-regulated in females Pxr-/- compared to females Pxr+/+. Metabolic pathways (summary) were considered as significantly enriched when q-value &lt; 0.05. (E) List of genes significantly down-regulated in males Pxr-/- compared to males Pxr+/+. (F) GO term enrichment analysis using the list of genes significantly up-regulated in males Pxr-/- compared to males Pxr+/+. No summary metabolic pathways (summary) were considered as significantly enriched with q-value &lt; 0.05. (A) List of genes significantly down-regulated in females Pxr-/- compared to females Pxr+/+. (B) GO term enrichment analysis using the list of genes significantly down-regulated in females Pxr-/- compared to females Pxr+/+. Metabolic pathways (summary) were considered as significantly enriched when q-value &lt; 0.05.
DOI: 10.6084/m9.figshare.14456708.v1
title: Additional file 6 of The pregnane X receptor drives sexually dimorphic hepatic changes in lipid and xenobiotic metabolism in response to gut microbiota in mice

description: Additional file 5 Gene lists and GO enrichment analyses for Pxr-/- vs Pxr+/+ transcriptome comparisons. (A) List of genes significantly up-regulated in males Pxr-/- compared to males Pxr+/+. (B) GO term enrichment analysis using the list of genes significantly up-regulated in males Pxr-/- compared to males Pxr+/+. Metabolic pathways (summary) were considered as significantly enriched when q-value &lt; 0.05. (C) List of genes significantly up-regulated in females Pxr-/- compared to females Pxr+/+. (D) GO term enrichment analysis using the list of genes significantly up-regulated in females Pxr-/- compared to females Pxr+/+. Metabolic pathways (summary) were considered as significantly enriched when q-value &lt; 0.05. (E) List of genes significantly down-regulated in males Pxr-/- compared to males Pxr+/+. (F) GO term enrichment analysis using the list of genes significantly up-regulated in males Pxr-/- compared to males Pxr+/+. No summary metabolic pathways (summary) were considered as significantly enriched with q-value &lt; 0.05. (A) List of genes significantly down-regulated in females Pxr-/- compared to females Pxr+/+. (B) GO term enrichment analysis using the list of genes significantly down-regulated in females Pxr-/- compared to females Pxr+/+. Metabolic pathways (summary) were considered as significantly enriched when q-value &lt; 0.05.
DOI: 10.6084/m9.figshare.14456711
title: Additional file 7 of The pregnane X receptor drives sexually dimorphic hepatic changes in lipid and xenobiotic metabolism in response to gut microbiota in mice

description: Additional file 6 Gene lists for sex-biased genes. (A) List of genes significantly higher in males Pxr+/+ compared to females Pxr+/+ (male-biased genes). (B) List of genes significantly higher in males Pxr-/- compared to females Pxr-/-. (C) List of genes significantly higher in males Pxr+/+ ATB compared to females Pxr+/+ ATB. (D) List of genes significantly higher in females Pxr+/+ compared to males Pxr+/+ (female-biased genes). (E) List of genes significantly higher in females Pxr-/- compared to males Pxr-/-. (F) List of genes significantly higher in females Pxr+/+ ATB compared to males Pxr+/+ ATB.
DOI: 10.6084/m9.figshare.14456711.v1
title: Additional file 7 of The pregnane X receptor drives sexually dimorphic hepatic changes in lipid and xenobiotic metabolism in response to gut microbiota in mice

description: Additional file 6 Gene lists for sex-biased genes. (A) List of genes significantly higher in males Pxr+/+ compared to females Pxr+/+ (male-biased genes). (B) List of genes significantly higher in males Pxr-/- compared to females Pxr-/-. (C) List of genes significantly higher in males Pxr+/+ ATB compared to females Pxr+/+ ATB. (D) List of genes significantly higher in females Pxr+/+ compared to males Pxr+/+ (female-biased genes). (E) List of genes significantly higher in females Pxr-/- compared to males Pxr-/-. (F) List of genes significantly higher in females Pxr+/+ ATB compared to males Pxr+/+ ATB.
DOI: 10.6084/m9.figshare.14456717.v1
title: Additional file 9 of The pregnane X receptor drives sexually dimorphic hepatic changes in lipid and xenobiotic metabolism in response to gut microbiota in mice

description: Additional file 8 Gene lists and GO enrichment analyses for ATB- vs. Cont. transcriptome comparisons. (A) List of genes significantly up-regulated in males Pxr+/+ ATB compared to males Pxr+/+ Cont. (B) GO term enrichment analysis using the list of genes significantly up-regulated in males Pxr+/+ ATB compared to males Pxr+/+ Cont. Metabolic pathways were considered as significantly enriched when adjusted P-value &lt; 0.05. (C) List of genes significantly down-regulated in males Pxr+/+ ATB compared to males Pxr+/+ Cont. (D) GO term enrichment analysis using the list of genes significantly down-regulated in males Pxr+/+ ATB compared to males Pxr+/+ Cont. Metabolic pathways were considered as significantly enriched when adjusted P-value &lt; 0.05. (E) List of genes significantly up-regulated in males Pxr-/- ATB compared to males Pxr-/- Cont. (F) List of genes significantly down-regulated in males Pxr-/- ATB compared to males Pxr-/- Cont. (G) List of genes significantly up-regulated in females Pxr+/+ ATB compared to females Pxr+/+ Cont. (H) List of genes significantly down-regulated in females Pxr+/+ ATB compared to females Pxr+/+ Cont. (I) List of genes significantly up-regulated in females Pxr-/- ATB compared to females Pxr-/- Cont. (J) GO term enrichment analysis using the list of genes significantly down-regulated in females Pxr-/- ATB compared to males Pxr-/- Cont. No metabolic pathways was found significantly enriched at adjusted P-value &lt; 0.05. (K) List of genes significantly down-regulated in females Pxr-/- ATB compared to females Pxr-/- Cont.
DOI: 10.6084/m9.figshare.14456717
title: Additional file 9 of The pregnane X receptor drives sexually dimorphic hepatic changes in lipid and xenobiotic metabolism in response to gut microbiota in mice

description: Additional file 8 Gene lists and GO enrichment analyses for ATB- vs. Cont. transcriptome comparisons. (A) List of genes significantly up-regulated in males Pxr+/+ ATB compared to males Pxr+/+ Cont. (B) GO term enrichment analysis using the list of genes significantly up-regulated in males Pxr+/+ ATB compared to males Pxr+/+ Cont. Metabolic pathways were considered as significantly enriched when adjusted P-value &lt; 0.05. (C) List of genes significantly down-regulated in males Pxr+/+ ATB compared to males Pxr+/+ Cont. (D) GO term enrichment analysis using the list of genes significantly down-regulated in males Pxr+/+ ATB compared to males Pxr+/+ Cont. Metabolic pathways were considered as significantly enriched when adjusted P-value &lt; 0.05. (E) List of genes significantly up-regulated in males Pxr-/- ATB compared to males Pxr-/- Cont. (F) List of genes significantly down-regulated in males Pxr-/- ATB compared to males Pxr-/- Cont. (G) List of genes significantly up-regulated in females Pxr+/+ ATB compared to females Pxr+/+ Cont. (H) List of genes significantly down-regulated in females Pxr+/+ ATB compared to females Pxr+/+ Cont. (I) List of genes significantly up-regulated in females Pxr-/- ATB compared to females Pxr-/- Cont. (J) GO term enrichment analysis using the list of genes significantly down-regulated in females Pxr-/- ATB compared to males Pxr-/- Cont. No metabolic pathways was found significantly enriched at adjusted P-value &lt; 0.05. (K) List of genes significantly down-regulated in females Pxr-/- ATB compared to females Pxr-/- Cont.
DOI: 10.6084/m9.figshare.14456744
title: Additional file 1 of SCD leads to the development and progression of acute myocardial infarction through the AMPK signaling pathway

description: Additional file 1: Table S1. Differentially expressed genes.
DOI: 10.6084/m9.figshare.14456747
title: Additional file 2 of SCD leads to the development and progression of acute myocardial infarction through the AMPK signaling pathway

description: Additional file 2: Table S2. Functions and signaling pathways of modular gene involvement.
DOI: 10.6084/m9.figshare.14456747.v1
title: Additional file 2 of SCD leads to the development and progression of acute myocardial infarction through the AMPK signaling pathway

description: Additional file 2: Table S2. Functions and signaling pathways of modular gene involvement.
DOI: 10.6084/m9.figshare.14456750
title: Additional file 3 of SCD leads to the development and progression of acute myocardial infarction through the AMPK signaling pathway

description: Additional file 3: Table S3. NcRNA pivot that regulates module genes.
DOI: 10.6084/m9.figshare.14456750.v1
title: Additional file 3 of SCD leads to the development and progression of acute myocardial infarction through the AMPK signaling pathway

description: Additional file 3: Table S3. NcRNA pivot that regulates module genes.
DOI: 10.6084/m9.figshare.14456753
title: Additional file 4 of SCD leads to the development and progression of acute myocardial infarction through the AMPK signaling pathway

description: Additional file 4: Table S4. TF pivot that regulates module genes.
DOI: 10.6084/m9.figshare.14456753.v1
title: Additional file 4 of SCD leads to the development and progression of acute myocardial infarction through the AMPK signaling pathway

description: Additional file 4: Table S4. TF pivot that regulates module genes.
DOI: 10.6084/m9.figshare.14456744.v1
title: Additional file 1 of SCD leads to the development and progression of acute myocardial infarction through the AMPK signaling pathway

description: Additional file 1: Table S1. Differentially expressed genes.
DOI: 10.6084/m9.figshare.14456763
title: Additional file 10 of Variation of microRNA expression in the human placenta driven by population identity and sex of the newborn

description: Additional file 10: Table S6. miRNA associated disease and functions from TAM2.0.
DOI: 10.6084/m9.figshare.14456763.v1
title: Additional file 10 of Variation of microRNA expression in the human placenta driven by population identity and sex of the newborn

description: Additional file 10: Table S6. miRNA associated disease and functions from TAM2.0.
DOI: 10.6084/m9.figshare.14456766.v1
title: Additional file 11 of Variation of microRNA expression in the human placenta driven by population identity and sex of the newborn

description: Additional file 11: Table S7. Enriched functions tested on miRNA targets from Metascape.
DOI: 10.6084/m9.figshare.14456766
title: Additional file 11 of Variation of microRNA expression in the human placenta driven by population identity and sex of the newborn

description: Additional file 11: Table S7. Enriched functions tested on miRNA targets from Metascape.
DOI: 10.6084/m9.figshare.14456772
title: Additional file 13 of Variation of microRNA expression in the human placenta driven by population identity and sex of the newborn

description: Additional file 13: Table S8. Variance proportion of 12 demographic factors.
DOI: 10.6084/m9.figshare.14456772.v1
title: Additional file 13 of Variation of microRNA expression in the human placenta driven by population identity and sex of the newborn

description: Additional file 13: Table S8. Variance proportion of 12 demographic factors.
DOI: 10.6084/m9.figshare.14456775.v1
title: Additional file 14 of Variation of microRNA expression in the human placenta driven by population identity and sex of the newborn

description: Additional file 14: Table S9. List of species and age groups used in dating the evolutionary age of miRNAs.
DOI: 10.6084/m9.figshare.14456778
title: Additional file 1 of Variation of microRNA expression in the human placenta driven by population identity and sex of the newborn

description: Additional file 1: Table S1. Sample list.
DOI: 10.6084/m9.figshare.14456775
title: Additional file 14 of Variation of microRNA expression in the human placenta driven by population identity and sex of the newborn

description: Additional file 14: Table S9. List of species and age groups used in dating the evolutionary age of miRNAs.
DOI: 10.6084/m9.figshare.14456778.v1
title: Additional file 1 of Variation of microRNA expression in the human placenta driven by population identity and sex of the newborn

description: Additional file 1: Table S1. Sample list.
DOI: 10.6084/m9.figshare.14456781.v1
title: Additional file 2 of Variation of microRNA expression in the human placenta driven by population identity and sex of the newborn

description: Additional file 2: Table S2. List of miRNA sequencing files and statistics of mapping.
DOI: 10.6084/m9.figshare.14456784
title: Additional file 3 of Variation of microRNA expression in the human placenta driven by population identity and sex of the newborn

description: Additional file 3: Table S3. Quantified miRNAs’ expression by counts.
DOI: 10.6084/m9.figshare.14456784.v1
title: Additional file 3 of Variation of microRNA expression in the human placenta driven by population identity and sex of the newborn

description: Additional file 3: Table S3. Quantified miRNAs’ expression by counts.
DOI: 10.6084/m9.figshare.14456787
title: Additional file 4 of Variation of microRNA expression in the human placenta driven by population identity and sex of the newborn

description: Additional file 4: Table S4. Quantile normalized miRNA expression after remove batch effect.
DOI: 10.6084/m9.figshare.14456781
title: Additional file 2 of Variation of microRNA expression in the human placenta driven by population identity and sex of the newborn

description: Additional file 2: Table S2. List of miRNA sequencing files and statistics of mapping.
DOI: 10.6084/m9.figshare.14456787.v1
title: Additional file 4 of Variation of microRNA expression in the human placenta driven by population identity and sex of the newborn

description: Additional file 4: Table S4. Quantile normalized miRNA expression after remove batch effect.
DOI: 10.6084/m9.figshare.14456799
title: Additional file 8 of Variation of microRNA expression in the human placenta driven by population identity and sex of the newborn

description: Additional file 8: Table S5. List of miRNAs on the cluster of C1-C6, SON, and C19MC.
DOI: 10.6084/m9.figshare.14456799.v1
title: Additional file 8 of Variation of microRNA expression in the human placenta driven by population identity and sex of the newborn

description: Additional file 8: Table S5. List of miRNAs on the cluster of C1-C6, SON, and C19MC.
DOI: 10.6084/m9.figshare.14456933
title: Additional file 2 of The P450 multigene family of Fontainea and insights into diterpenoid synthesis

description: Additional file 2. Full-length sequences P450 genes of Fontainea picrosperma, F. venosa and other plants (Arabidopsis thaliana, Ricinus communis, Manihot esculenta, Solanum lycopersicum).
DOI: 10.6084/m9.figshare.14456936
title: Additional file 3 of The P450 multigene family of Fontainea and insights into diterpenoid synthesis

description: Additional file 3. Relative gene expression of full-length P450 genes of Fontainea picropserma and Fontainea venosa across 3 different plants (leaf and root) and raw TPM values for diterpenoid biosynthesis genes across 12 different plant (leaf and root) samples and their P-value. Yellow color shows the 3 original samples in 3 different plants (leaf and root).
DOI: 10.6084/m9.figshare.14456936.v1
title: Additional file 3 of The P450 multigene family of Fontainea and insights into diterpenoid synthesis

description: Additional file 3. Relative gene expression of full-length P450 genes of Fontainea picropserma and Fontainea venosa across 3 different plants (leaf and root) and raw TPM values for diterpenoid biosynthesis genes across 12 different plant (leaf and root) samples and their P-value. Yellow color shows the 3 original samples in 3 different plants (leaf and root).
DOI: 10.6084/m9.figshare.14456933.v1
title: Additional file 2 of The P450 multigene family of Fontainea and insights into diterpenoid synthesis

description: Additional file 2. Full-length sequences P450 genes of Fontainea picrosperma, F. venosa and other plants (Arabidopsis thaliana, Ricinus communis, Manihot esculenta, Solanum lycopersicum).
DOI: 10.6084/m9.figshare.14456937
title: Additional file 2 of FINDER: an automated software package to annotate eukaryotic genes from RNA-Seq data and associated protein sequences

description: Additional file 2. Input to finder.
DOI: 10.6084/m9.figshare.14456940
title: Additional file 3 of FINDER: an automated software package to annotate eukaryotic genes from RNA-Seq data and associated protein sequences

description: Additional file 3. Annotation edit distance of reference transcripts as reported by each gene annotation pipeline.
DOI: 10.6084/m9.figshare.14456943
title: Additional file 4 of FINDER: an automated software package to annotate eukaryotic genes from RNA-Seq data and associated protein sequences

description: Additional file 4. Performance of gene annotation pipelines on coding regions of transcripts.
DOI: 10.6084/m9.figshare.14456946
title: Additional file 5 of FINDER: an automated software package to annotate eukaryotic genes from RNA-Seq data and associated protein sequences

description: Additional file 5. Comparison of FINDER's performance with other gene annotation pipelines on a variety of different species.
DOI: 10.6084/m9.figshare.14456940.v1
title: Additional file 3 of FINDER: an automated software package to annotate eukaryotic genes from RNA-Seq data and associated protein sequences

description: Additional file 3. Annotation edit distance of reference transcripts as reported by each gene annotation pipeline.
DOI: 10.6084/m9.figshare.14456946.v1
title: Additional file 5 of FINDER: an automated software package to annotate eukaryotic genes from RNA-Seq data and associated protein sequences

description: Additional file 5. Comparison of FINDER's performance with other gene annotation pipelines on a variety of different species.
DOI: 10.6084/m9.figshare.14456949
title: Additional file 6 of FINDER: an automated software package to annotate eukaryotic genes from RNA-Seq data and associated protein sequences

description: Additional file 6. Comparison of different transcriptome assembly softwares on a variety of species.