cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12519809.v5
title: CBMIstudy1_fulloutcomemesurement.xlsx

description: People with high anxiety tend to interpret ambiguous cues negatively, regardless of whether the cues are negative or positive. Cognitive bias modification for interpretation (CBM-I) may reduce such biases. However, CBM-I sessions for social anxiety in previous studies were held either only once or twice a week in the laboratory and did not test the Japanese population. In this study, we developed a Japanese version of CBM-I. The current study investigated the effects of a short, intensive program using two types of the Japanese version of CBM-I procedures. In Study 1, 74 participants were randomly placed into either a one-week program with online sessions of text-based scenarios training or a control condition. In Study 2, 120 participants were randomized into one-week online sessions of text-based scenarios training (four times) and picture-word cue training (three times) or a control condition. In both Study 1 and 2, participants in the control condition completed the same positive interpretation task after a one-week standby. In Study 1, individuals in the positive condition demonstrated significant improvements in depressive symptoms from pre-intervention to post-intervention compared to those in the control condition. Improvements in depressive symptoms and interpretation bias at a one-month follow-up were significant. In Study 2, in the positive condition, there was a significant reduction in negative affect compared to the control condition. In addition, there were greater reductions in negative affect, social evaluative fear, and negative interpretation bias at a one-month follow-up, irrespective of condition. Results suggest that text-based CBM-I affects depressive symptom and interpretation bias, text, and picture-based CBM-I especially affects these emotional characteristics. Depending on the assessment and treatment policy for patients, we might concurrently use two approaches, one with text stimuli when stimulating depressive symptoms and interpretations, and the other with picture stimuli when stimulating emotions.
DOI: 10.6084/m9.figshare.12519809.v6
title: CBMIstudy1_fulloutcomemesurement.xlsx

description: People with high anxiety tend to interpret ambiguous cues negatively, regardless of whether the cues are negative or positive. Cognitive bias modification for interpretation (CBM-I) may reduce such biases. However, CBM-I sessions for social anxiety in previous studies were held either only once or twice a week in the laboratory and did not test the Japanese population. In this study, we developed a Japanese version of CBM-I. The current study investigated the effects of a short, intensive program using two types of the Japanese version of CBM-I procedures. In Study 1, 74 participants were randomly placed into either a one-week program with online sessions of text-based scenarios training or a control condition. In Study 2, 120 participants were randomized into one-week online sessions of text-based scenarios training (four times) and picture-word cue training (three times) or a control condition. In both Study 1 and 2, participants in the control condition completed the same positive interpretation task after a one-week standby. In Study 1, individuals in the positive condition demonstrated significant improvements in depressive symptoms from pre-intervention to post-intervention compared to those in the control condition. Improvements in depressive symptoms and interpretation bias at a one-month follow-up were significant. In Study 2, in the positive condition, there was a significant reduction in negative affect compared to the control condition. In addition, there were greater reductions in negative affect, social evaluative fear, and negative interpretation bias at a one-month follow-up, irrespective of condition. Results suggest that text-based CBM-I affects depressive symptom and interpretation bias, text, and picture-based CBM-I especially affects these emotional characteristics. Depending on the assessment and treatment policy for patients, we might concurrently use two approaches, one with text stimuli when stimulating depressive symptoms and interpretations, and the other with picture stimuli when stimulating emotions.
DOI: 10.6084/m9.figshare.12519419
title: Additional file 18 of Transcriptional signatures of participant-derived neural progenitor cells and neurons implicate altered Wnt signaling in Phelan-McDermid syndrome and autism

description: Additional file 18: Table S5. Manually curated gene sets used to assess overlap with findings from the current study.
DOI: 10.6084/m9.figshare.12519416
title: Additional file 17 of Transcriptional signatures of participant-derived neural progenitor cells and neurons implicate altered Wnt signaling in Phelan-McDermid syndrome and autism

description: Additional file 17: Table S4. Pathway and functional annotation enrichment results.
DOI: 10.6084/m9.figshare.12519419.v1
title: Additional file 18 of Transcriptional signatures of participant-derived neural progenitor cells and neurons implicate altered Wnt signaling in Phelan-McDermid syndrome and autism

description: Additional file 18: Table S5. Manually curated gene sets used to assess overlap with findings from the current study.
DOI: 10.6084/m9.figshare.12519809.v7
title: CBMIstudy1_full outcome mesurement.xlsx

description: This data is for Computerized Cognitive Bias Modification for Interpretation (CBM-I) for Japanese university students.This file contains the total scores on all 9 outcomes measures at all time points for the CBM-I and control groups in Study 1.
DOI: 10.6084/m9.figshare.12519404
title: Additional file 14 of Transcriptional signatures of participant-derived neural progenitor cells and neurons implicate altered Wnt signaling in Phelan-McDermid syndrome and autism

description: Additional file 14: Table S1. Summary of the total number of clones and inductions for each sample.
DOI: 10.6084/m9.figshare.12519410
title: Additional file 15 of Transcriptional signatures of participant-derived neural progenitor cells and neurons implicate altered Wnt signaling in Phelan-McDermid syndrome and autism

description: Additional file 15: Table S2. The hiPSC Scorecard assay is a qPCR-based panel of marker genes for pluripotency.
DOI: 10.6084/m9.figshare.12519416.v1
title: Additional file 17 of Transcriptional signatures of participant-derived neural progenitor cells and neurons implicate altered Wnt signaling in Phelan-McDermid syndrome and autism

description: Additional file 17: Table S4. Pathway and functional annotation enrichment results.
DOI: 10.6084/m9.figshare.12519410.v1
title: Additional file 15 of Transcriptional signatures of participant-derived neural progenitor cells and neurons implicate altered Wnt signaling in Phelan-McDermid syndrome and autism

description: Additional file 15: Table S2. The hiPSC Scorecard assay is a qPCR-based panel of marker genes for pluripotency.
DOI: 10.6084/m9.figshare.12519413
title: Additional file 16 of Transcriptional signatures of participant-derived neural progenitor cells and neurons implicate altered Wnt signaling in Phelan-McDermid syndrome and autism

description: Additional file 16: Table S3. Differentially expressed genes between PMS probands and unaffected siblings in hiPSC-NPCs and hiPSC-neurons.
DOI: 10.6084/m9.figshare.12519404.v1
title: Additional file 14 of Transcriptional signatures of participant-derived neural progenitor cells and neurons implicate altered Wnt signaling in Phelan-McDermid syndrome and autism

description: Additional file 14: Table S1. Summary of the total number of clones and inductions for each sample.
DOI: 10.6084/m9.figshare.12519413.v1
title: Additional file 16 of Transcriptional signatures of participant-derived neural progenitor cells and neurons implicate altered Wnt signaling in Phelan-McDermid syndrome and autism

description: Additional file 16: Table S3. Differentially expressed genes between PMS probands and unaffected siblings in hiPSC-NPCs and hiPSC-neurons.
DOI: 10.6084/m9.figshare.12519146
title: Additional file 4 of The rise of diversity in metabolic platforms across the Candidate Phyla Radiation

description: Additional file 4. Trimmed alignments and inferred maximum-likelihood trees for the concatenated rp16 set (rp16_concat.mafft and rp16_concat.treefile), concatenated RNAp set (rpol_concat.mafft and rpol_concat.treefile), and NiFe hydrogenase large subunit (hyd.mafft and hyd.treefile).
DOI: 10.6084/m9.figshare.12519140
title: Additional file 3 of The rise of diversity in metabolic platforms across the Candidate Phyla Radiation

description: Additional file 3: Table S2. Description of metabolic HMMs and thresholds used in this study. (TSV 22 kb)
DOI: 10.6084/m9.figshare.12519146.v1
title: Additional file 4 of The rise of diversity in metabolic platforms across the Candidate Phyla Radiation

description: Additional file 4. Trimmed alignments and inferred maximum-likelihood trees for the concatenated rp16 set (rp16_concat.mafft and rp16_concat.treefile), concatenated RNAp set (rpol_concat.mafft and rpol_concat.treefile), and NiFe hydrogenase large subunit (hyd.mafft and hyd.treefile).
DOI: 10.6084/m9.figshare.12519128
title: Additional file 1 of The rise of diversity in metabolic platforms across the Candidate Phyla Radiation

description: Additional file 1: Table S1. Characteristics of genomes used in this study. (TSV 127 kb)
DOI: 10.6084/m9.figshare.12519140.v1
title: Additional file 3 of The rise of diversity in metabolic platforms across the Candidate Phyla Radiation

description: Additional file 3: Table S2. Description of metabolic HMMs and thresholds used in this study. (TSV 22 kb)
DOI: 10.6084/m9.figshare.12519128.v1
title: Additional file 1 of The rise of diversity in metabolic platforms across the Candidate Phyla Radiation

description: Additional file 1: Table S1. Characteristics of genomes used in this study. (TSV 127 kb)
DOI: 10.6084/m9.figshare.12519056
title: Additional file 5 of CRISPR/Cas9-targeted mutagenesis of the tomato susceptibility gene PMR4 for resistance against powdery mildew

description: Additional file 5: Supplementary Table 1. Characteristics of four selected sgRNAs for SlPMR4. sgRNAs were selected using CCTop program. PAM, protospacer adjacent motif.
DOI: 10.6084/m9.figshare.12519062
title: Additional file 6 of CRISPR/Cas9-targeted mutagenesis of the tomato susceptibility gene PMR4 for resistance against powdery mildew

description: Additional file 6: Supplementary Table 2.SlPMR4 sgRNAs off-targets. Off-targets with a maximum of three mismatches were found for sgRNA8 and sgRNA7 with Cas-OFFinder [34]. crRNA, sgRNA sequences. DNA, off-target sequences. Mismatches are indicated in red.
DOI: 10.6084/m9.figshare.12519056.v1
title: Additional file 5 of CRISPR/Cas9-targeted mutagenesis of the tomato susceptibility gene PMR4 for resistance against powdery mildew

description: Additional file 5: Supplementary Table 1. Characteristics of four selected sgRNAs for SlPMR4. sgRNAs were selected using CCTop program. PAM, protospacer adjacent motif.
DOI: 10.6084/m9.figshare.12519062.v1
title: Additional file 6 of CRISPR/Cas9-targeted mutagenesis of the tomato susceptibility gene PMR4 for resistance against powdery mildew

description: Additional file 6: Supplementary Table 2.SlPMR4 sgRNAs off-targets. Off-targets with a maximum of three mismatches were found for sgRNA8 and sgRNA7 with Cas-OFFinder [34]. crRNA, sgRNA sequences. DNA, off-target sequences. Mismatches are indicated in red.
DOI: 10.6084/m9.figshare.12518996
title: Additional file 3 of Broad-coverage biomedical relation extraction with SemRep

description: Additional file 3 SemRep indicator rules. A text file that includes all SemRep indicator rules, which are used to map textua expressions to semantic predicates.
DOI: 10.6084/m9.figshare.12518990
title: Additional file 2 of Broad-coverage biomedical relation extraction with SemRep

description: Additional file 2 SemRep ontology. A text file that includes all SemanticType-predicate-SemanticType triples (ontological predications) used by SemRep.
DOI: 10.6084/m9.figshare.12518993
title: Additional file 8 of A chromosome-level assembly of the cat flea genome uncovers rampant gene duplication and genome size plasticity

description: Additional file 8: Table S5. Coverage of corrected PacBio reads against all 16,622 polished assembly contigs.
DOI: 10.6084/m9.figshare.12518984
title: Additional file 7 of A chromosome-level assembly of the cat flea genome uncovers rampant gene duplication and genome size plasticity

description: Additional file 7: Table S4. Elements of the C. felis microbiome and associated Wolbachia phylogeny estimation.
DOI: 10.6084/m9.figshare.12518993.v1
title: Additional file 8 of A chromosome-level assembly of the cat flea genome uncovers rampant gene duplication and genome size plasticity

description: Additional file 8: Table S5. Coverage of corrected PacBio reads against all 16,622 polished assembly contigs.
DOI: 10.6084/m9.figshare.12518996.v1
title: Additional file 3 of Broad-coverage biomedical relation extraction with SemRep

description: Additional file 3 SemRep indicator rules. A text file that includes all SemRep indicator rules, which are used to map textua expressions to semantic predicates.
DOI: 10.6084/m9.figshare.12518978
title: Additional file 6 of A chromosome-level assembly of the cat flea genome uncovers rampant gene duplication and genome size plasticity

description: Additional file 6: Table S3. Analysis of C. felis proteins that did not cluster with other Holometabola.
DOI: 10.6084/m9.figshare.12518984.v1
title: Additional file 7 of A chromosome-level assembly of the cat flea genome uncovers rampant gene duplication and genome size plasticity

description: Additional file 7: Table S4. Elements of the C. felis microbiome and associated Wolbachia phylogeny estimation.
DOI: 10.6084/m9.figshare.12518990.v1
title: Additional file 2 of Broad-coverage biomedical relation extraction with SemRep

description: Additional file 2 SemRep ontology. A text file that includes all SemanticType-predicate-SemanticType triples (ontological predications) used by SemRep.
DOI: 10.6084/m9.figshare.12518972
title: Additional file 5 of A chromosome-level assembly of the cat flea genome uncovers rampant gene duplication and genome size plasticity

description: Additional file 5: Table S2. Pan-genomes across sequenced Holometabola.
DOI: 10.6084/m9.figshare.12518978.v1
title: Additional file 6 of A chromosome-level assembly of the cat flea genome uncovers rampant gene duplication and genome size plasticity

description: Additional file 6: Table S3. Analysis of C. felis proteins that did not cluster with other Holometabola.
DOI: 10.6084/m9.figshare.12518972.v1
title: Additional file 5 of A chromosome-level assembly of the cat flea genome uncovers rampant gene duplication and genome size plasticity

description: Additional file 5: Table S2. Pan-genomes across sequenced Holometabola.
DOI: 10.6084/m9.figshare.12518945
title: Additional file 2 of A chromosome-level assembly of the cat flea genome uncovers rampant gene duplication and genome size plasticity

description: Additional file 2: Table S1. Functional predictions and enrichment analysis of C. felis proteins.
DOI: 10.6084/m9.figshare.12518948
title: Additional file 6 of Characterization of exosome-like vesicles derived from Taenia pisiformis cysticercus and their immunoregulatory role on macrophages

description: Additional file 6: Table S10. Results of statistical analyses of ELISA.
DOI: 10.6084/m9.figshare.12518945.v1
title: Additional file 2 of A chromosome-level assembly of the cat flea genome uncovers rampant gene duplication and genome size plasticity

description: Additional file 2: Table S1. Functional predictions and enrichment analysis of C. felis proteins.
DOI: 10.6084/m9.figshare.12518930
title: Additional file 4 of Characterization of exosome-like vesicles derived from Taenia pisiformis cysticercus and their immunoregulatory role on macrophages

description: Additional file 4: Table S8. The potential targets of T. pisiformis cysticercus exosomal miRNAs.
DOI: 10.6084/m9.figshare.12518936
title: Additional file 5 of Characterization of exosome-like vesicles derived from Taenia pisiformis cysticercus and their immunoregulatory role on macrophages

description: Additional file 5: Table S9. Results of statistical analyses of qPCR.
DOI: 10.6084/m9.figshare.12518948.v1
title: Additional file 6 of Characterization of exosome-like vesicles derived from Taenia pisiformis cysticercus and their immunoregulatory role on macrophages

description: Additional file 6: Table S10. Results of statistical analyses of ELISA.
DOI: 10.6084/m9.figshare.12518927
title: Additional file 3 of Characterization of exosome-like vesicles derived from Taenia pisiformis cysticercus and their immunoregulatory role on macrophages

description: Additional file 3: Table S5. miRNAs identified in exosome-like vesicles from T. pisiformis cysticercus. Table S6. miRNAs identified in T. pisiformis cysticercus. Table S7. Newly discovered miRNAs in exosome-like vesicles and T. pisiformis cysticercus.
DOI: 10.6084/m9.figshare.12518930.v1
title: Additional file 4 of Characterization of exosome-like vesicles derived from Taenia pisiformis cysticercus and their immunoregulatory role on macrophages

description: Additional file 4: Table S8. The potential targets of T. pisiformis cysticercus exosomal miRNAs.
DOI: 10.6084/m9.figshare.12518921
title: Additional file 2 of Characterization of exosome-like vesicles derived from Taenia pisiformis cysticercus and their immunoregulatory role on macrophages

description: Additional file 2: Table S3. Protein identification of exosome-like vesicles from T. pisiformis cysticercus. Table S4. GO analysis of exosomal proteins from T. pisiformis cysticercus.
DOI: 10.6084/m9.figshare.12518936.v1
title: Additional file 5 of Characterization of exosome-like vesicles derived from Taenia pisiformis cysticercus and their immunoregulatory role on macrophages

description: Additional file 5: Table S9. Results of statistical analyses of qPCR.
DOI: 10.6084/m9.figshare.12518915
title: Additional file 1 of Characterization of exosome-like vesicles derived from Taenia pisiformis cysticercus and their immunoregulatory role on macrophages

description: Additional file 1: Table S1. Primers for miRNAs qPCR validation. Table S2. Primers for qPCR of Th1/Th2 associated molecules.
DOI: 10.6084/m9.figshare.12518927.v1
title: Additional file 3 of Characterization of exosome-like vesicles derived from Taenia pisiformis cysticercus and their immunoregulatory role on macrophages

description: Additional file 3: Table S5. miRNAs identified in exosome-like vesicles from T. pisiformis cysticercus. Table S6. miRNAs identified in T. pisiformis cysticercus. Table S7. Newly discovered miRNAs in exosome-like vesicles and T. pisiformis cysticercus.
DOI: 10.6084/m9.figshare.12518915.v1
title: Additional file 1 of Characterization of exosome-like vesicles derived from Taenia pisiformis cysticercus and their immunoregulatory role on macrophages

description: Additional file 1: Table S1. Primers for miRNAs qPCR validation. Table S2. Primers for qPCR of Th1/Th2 associated molecules.
DOI: 10.6084/m9.figshare.12518921.v1
title: Additional file 2 of Characterization of exosome-like vesicles derived from Taenia pisiformis cysticercus and their immunoregulatory role on macrophages

description: Additional file 2: Table S3. Protein identification of exosome-like vesicles from T. pisiformis cysticercus. Table S4. GO analysis of exosomal proteins from T. pisiformis cysticercus.
DOI: 10.6084/m9.figshare.12518855
title: Additional file 3 of Identification and characterization of differentially expressed genes in Caenorhabditis elegans in response to pathogenic and nonpathogenic Stenotrophomonas maltophilia

description: Additional file 3. CPSR and VSR genes ordered based on gene network rank. WormNet v2 was queried with the 145 CPSR genes or 225 VSR genes. Connected genes are ordered based on WormNet score, which is based on the number of connections that gene has and the strength of the evidence for those connections (Score). C = number of connected CPSR genes to the listed gene. Up/down-regulated = direction of differential expression in response to pathogenic compared to nonpathogenic strains. Asterisk indicates different direction of regulation depending on the comparison considered.
DOI: 10.6084/m9.figshare.12518852
title: Additional file 2 of Identification and characterization of differentially expressed genes in Caenorhabditis elegans in response to pathogenic and nonpathogenic Stenotrophomonas maltophilia

description: Additional file 2. GO analysis of upregulated CPSR and downregulated VSR genes. Gene ontology (GO) enrichment analysis was performed on the upregulated CPSR genes or the downregulated VSR genes using DAVID Bioinformatics Resources 6.8. GO analysis identifies terms relating to the biological process, molecular function, or cellular component that are significantly enriched among a list of genes. Indented terms indicate child terms, or subcategories, of the term listed above, with the parent term left-aligned. Note that the degree of indention of each term does not reflect absolute GO term level within each category. Count is the number of genes corresponding to each GO term. Percent is the count / total considered in analysis. FDR is the false discovery rate-corrected EASE enrichment score to account for multiple testing. Only terms with FDR
DOI: 10.6084/m9.figshare.12518849
title: Additional file 1 of Identification and characterization of differentially expressed genes in Caenorhabditis elegans in response to pathogenic and nonpathogenic Stenotrophomonas maltophilia

description: Additional file 1 Differentially expressed genes between treatment comparisons. List of all differentially expressed genes between comparisons. Genes were considered differentially expressed if fold-change &gt; 2 and FDR-adjusted p-value
DOI: 10.6084/m9.figshare.12518855.v1
title: Additional file 3 of Identification and characterization of differentially expressed genes in Caenorhabditis elegans in response to pathogenic and nonpathogenic Stenotrophomonas maltophilia

description: Additional file 3. CPSR and VSR genes ordered based on gene network rank. WormNet v2 was queried with the 145 CPSR genes or 225 VSR genes. Connected genes are ordered based on WormNet score, which is based on the number of connections that gene has and the strength of the evidence for those connections (Score). C = number of connected CPSR genes to the listed gene. Up/down-regulated = direction of differential expression in response to pathogenic compared to nonpathogenic strains. Asterisk indicates different direction of regulation depending on the comparison considered.
DOI: 10.6084/m9.figshare.12518849.v1
title: Additional file 1 of Identification and characterization of differentially expressed genes in Caenorhabditis elegans in response to pathogenic and nonpathogenic Stenotrophomonas maltophilia

description: Additional file 1 Differentially expressed genes between treatment comparisons. List of all differentially expressed genes between comparisons. Genes were considered differentially expressed if fold-change &gt; 2 and FDR-adjusted p-value