cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12441896
title: Treatment to target in patients with inflammatory bowel disease. What is the evidence?

description: <b>Background:</b> Inflammatory bowel diseases (IBD) are chronic, progressive diseases of the gastrointestinal tract. Current therapy has not been able to change the long-term course of the disease, but treatment to a specific therapeutic target could be a game-changer. <b>Objectives:</b> To assess the evidence of a treat to target (T2T) algorithm being superior to clinical management in the treatment of IBD, a systematic review of the literature is conducted. <b>Search methods:</b> A comprehensive survey of PubMed and Embase covering the period April 2018 to July 2019 including articles referenced in relevant studies. <b>Selection criteria:</b> Both randomized clinical trials (RCT) and observational studies were included. To be eligible for inclusion, the studies had to describe or analyze the effects of T2T on remission and/or recurrence of disease in patients with IBD. <b>Main results:</b> Twenty-two studies were included in this review, seven RCTs, eight comparative and seven non-comparative observational studies. Large heterogeneity between T2T algorithms applied, type of IBD investigated and outcomes evaluated characterized the studies. <b>Authors’ conclusions:</b> The comprehensive search identified only 22 heterogeneous studies. Out of these, a total of 14 indicated a positive effect of a T2T algorithm. Out of the seven RCT studies, four indicated a positive effect. Thus, T2T algorithms may be superior to the clinical management of IBD. However, the evidence is sparse and inconsistent.
DOI: 10.6084/m9.figshare.12441896.v1
title: Treatment to target in patients with inflammatory bowel disease. What is the evidence?

description: <b>Background:</b> Inflammatory bowel diseases (IBD) are chronic, progressive diseases of the gastrointestinal tract. Current therapy has not been able to change the long-term course of the disease, but treatment to a specific therapeutic target could be a game-changer. <b>Objectives:</b> To assess the evidence of a treat to target (T2T) algorithm being superior to clinical management in the treatment of IBD, a systematic review of the literature is conducted. <b>Search methods:</b> A comprehensive survey of PubMed and Embase covering the period April 2018 to July 2019 including articles referenced in relevant studies. <b>Selection criteria:</b> Both randomized clinical trials (RCT) and observational studies were included. To be eligible for inclusion, the studies had to describe or analyze the effects of T2T on remission and/or recurrence of disease in patients with IBD. <b>Main results:</b> Twenty-two studies were included in this review, seven RCTs, eight comparative and seven non-comparative observational studies. Large heterogeneity between T2T algorithms applied, type of IBD investigated and outcomes evaluated characterized the studies. <b>Authors’ conclusions:</b> The comprehensive search identified only 22 heterogeneous studies. Out of these, a total of 14 indicated a positive effect of a T2T algorithm. Out of the seven RCT studies, four indicated a positive effect. Thus, T2T algorithms may be superior to the clinical management of IBD. However, the evidence is sparse and inconsistent.
DOI: 10.25375/uct.12441899.v1
title: Southern Pied Babbler nestling mass, tarsus length, and survival

description: 15 years of data on southern pied babbler nestling body mass and survival in relation to weather variables and group size.<br>Publication in review process.
DOI: 10.25375/uct.12441899.v2
title: Southern Pied Babbler nestling mass, tarsus length, and survival and nest success data

description: 15 years of data on southern pied babbler nestling body mass and survival and nest success in relation to weather variables and group size.<br>One publication in review process. <br>One published:<b>Bourne AR, </b>Cunningham SJ, Spottiswoode C, Ridley AR. 2020. High temperatures drive offspring mortality in a cooperatively breeding bird. <i>Proceedings of the Royal Society B 287: 20201140</i> https://royalsocietypublishing.org/doi/pdf/10.1098/rspb.2020.1140<br>
DOI: 10.6084/m9.figshare.12441758
title: Data for Wang et al. 2020 JGR (Earth wind as a possible source for lunar surface hydration)

description: Spectral Data from M<sup>3</sup> observations<br>
DOI: 10.6084/m9.figshare.12441707
title: Genotype datasets from ‘Lumai 14’ × ‘Shaanhan 8675’ IL population.xls

description: Extraction of DNA was performed using the CTAB method. Following the principle of uniform distribution on the chromosome, 565 simple sequence repeat (SSR) markers covering the whole genome of wheat were selected based on the high-density microsatellite consensus map. The selected SSR markers were screened for polymorphisms between the two parents, which yielded 187 polymorphic markers. The polymorphic SSR markers were then used to perform a genome-wide screen of the IL population<b>. Marker type: 2 for Shaanhan8675; 0 for Lumai14; -1 for missing markers.</b><br>
DOI: 10.6084/m9.figshare.12441758.v1
title: Data for Wang et al. 2020 JGR (Earth wind as a possible source for lunar surface hydration)

description: Spectral Data from M<sup>3</sup> observations<br>
DOI: 10.6084/m9.figshare.12441758.v2
title: Data for Wang et al. 2020 JGR (Earth wind as a possible source for lunar surface hydration)

description: Spectral Data from M<sup>3</sup> observations<br>
DOI: 10.6084/m9.figshare.12441707.v2
title: Genotype datasets from ‘Lumai 14’ × ‘Shaanhan 8675’ IL population.xls

description: Extraction of DNA was performed using the CTAB method. Following the principle of uniform distribution on the chromosome, 565 simple sequence repeat (SSR) markers covering the whole genome of wheat were selected based on the high-density microsatellite consensus map. The selected SSR markers were screened for polymorphisms between the two parents, which yielded 187 polymorphic markers. The polymorphic SSR markers were then used to perform a genome-wide screen of the IL population<b>. Marker type: 2 for Shaanhan8675; 0 for Lumai14; -1 for missing markers.</b><br>
DOI: 10.6084/m9.figshare.12441758.v3
title: Data for Wang et al. 2020 JGR (Earth wind as a possible source for lunar surface hydration)

description: Spectral Data from M<sup>3</sup> observations<br>
DOI: 10.6084/m9.figshare.12441707.v1
title: Genotype datasets from ‘Lumai 14’ × ‘Shaanhan 8675’ IL population.xls

description: Extraction of DNA was performed using the CTAB method. Following the principle of uniform distribution on the chromosome, 565 simple sequence repeat (SSR) markers covering the whole genome of wheat were selected based on the high-density microsatellite consensus map. The selected SSR markers were screened for polymorphisms between the two parents, which yielded 187 polymorphic markers. The polymorphic SSR markers were then used to perform a genome-wide screen of the IL population.
DOI: 10.6084/m9.figshare.12441686
title: Additional file 4 of A new generation of recombinant polypeptides combines multiple protein domains for effective antimicrobial activity

description: Additional file 4. JAMF1 aminoacid sequence.
DOI: 10.6084/m9.figshare.12441758.v4
title: Data for Wang et al. 2020 JGR (Earth wind as a possible source for lunar surface hydration)

description: Spectral Data from M<sup>3</sup> observations<br>
DOI: 10.6084/m9.figshare.12441683
title: Additional file 3 of A new generation of recombinant polypeptides combines multiple protein domains for effective antimicrobial activity

description: Additional file 3. DNA coding sequence of pET22b-JAMF1.
DOI: 10.6084/m9.figshare.12441671
title: Additional file 2 of A new generation of recombinant polypeptides combines multiple protein domains for effective antimicrobial activity

description: Additional file 2. DNA coding sequence of JAMF1.
DOI: 10.6084/m9.figshare.12441683.v1
title: Additional file 3 of A new generation of recombinant polypeptides combines multiple protein domains for effective antimicrobial activity

description: Additional file 3. DNA coding sequence of pET22b-JAMF1.
DOI: 10.6084/m9.figshare.12441686.v1
title: Additional file 4 of A new generation of recombinant polypeptides combines multiple protein domains for effective antimicrobial activity

description: Additional file 4. JAMF1 aminoacid sequence.
DOI: 10.6084/m9.figshare.12441671.v1
title: Additional file 2 of A new generation of recombinant polypeptides combines multiple protein domains for effective antimicrobial activity

description: Additional file 2. DNA coding sequence of JAMF1.
DOI: 10.6084/m9.figshare.12441626
title: Additional file 4 of Influence of quality of intensive care on quality of life/return to work in survivors of the acute respiratory distress syndrome: prospective observational patient cohort study (DACAPO)

description: Additional file 4: Excel File. Table 7. Linear Regression Analyses of Health-related Quality of Life after 6 months on Quality of Care. a adjusted for age, sex, severity of ARDS; b adjusted for age, sex, severity of ARDS, BMI, Education score, SAPS-II score, SOFA score, diagnosis of ARDS (participating vs. other ICU), self-reported physician-diagnosed mental disorder before ARDS diagnosis. Notes: ARDS = acute respiratory distress syndrome; MCS-12 = mental component scale of short-form 12 questionnaire; PCS-12 = physical component scale of short-form 12 questionnaire.
DOI: 10.6084/m9.figshare.12441611
title: Additional file 2 of Influence of quality of intensive care on quality of life/return to work in survivors of the acute respiratory distress syndrome: prospective observational patient cohort study (DACAPO)

description: Additional file 2: Excel File. Table 5. Linear Regression Analyses of Health-related Quality of Life after 12 months on Quality of Care. a adjusted for age, sex, severity of ARDS; b adjusted for age, sex, severity of ARDS, BMI, Education score, SAPS-II score, SOFA score, diagnosis of ARDS (participating vs. other ICU), self-reported physician-diagnosed mental disorder before ARDS diagnosis; Notes: ARDS = acute respiratory distress syndrome; MCS-12 = mental component scale of short-form 12 questionnaire; PCS-12 = physical component scale of short-form 12 questionnaire.
DOI: 10.6084/m9.figshare.12441620
title: Additional file 3 of Influence of quality of intensive care on quality of life/return to work in survivors of the acute respiratory distress syndrome: prospective observational patient cohort study (DACAPO)

description: Additional file 3: Excel File. Table 6. Linear Regression Analyses of Health-related Quality of Life after 3 months on Quality of Care. a adjusted for age, sex, severity of ARDS; b adjusted for age, sex, severity of ARDS, BMI, Education score, SAPS-II score, SOFA score, diagnosis of ARDS (participating vs. other ICU), self-reported physician-diagnosed mental disorder before ARDS diagnosis Notes: ARDS = acute respiratory distress syndrome; MCS-12 = mental component scale of short-form 12 questionnaire; PCS-12 = physical component scale of short-form 12 questionnaire.
DOI: 10.6084/m9.figshare.12441626.v1
title: Additional file 4 of Influence of quality of intensive care on quality of life/return to work in survivors of the acute respiratory distress syndrome: prospective observational patient cohort study (DACAPO)

description: Additional file 4: Excel File. Table 7. Linear Regression Analyses of Health-related Quality of Life after 6 months on Quality of Care. a adjusted for age, sex, severity of ARDS; b adjusted for age, sex, severity of ARDS, BMI, Education score, SAPS-II score, SOFA score, diagnosis of ARDS (participating vs. other ICU), self-reported physician-diagnosed mental disorder before ARDS diagnosis. Notes: ARDS = acute respiratory distress syndrome; MCS-12 = mental component scale of short-form 12 questionnaire; PCS-12 = physical component scale of short-form 12 questionnaire.
DOI: 10.6084/m9.figshare.12441611.v1
title: Additional file 2 of Influence of quality of intensive care on quality of life/return to work in survivors of the acute respiratory distress syndrome: prospective observational patient cohort study (DACAPO)

description: Additional file 2: Excel File. Table 5. Linear Regression Analyses of Health-related Quality of Life after 12 months on Quality of Care. a adjusted for age, sex, severity of ARDS; b adjusted for age, sex, severity of ARDS, BMI, Education score, SAPS-II score, SOFA score, diagnosis of ARDS (participating vs. other ICU), self-reported physician-diagnosed mental disorder before ARDS diagnosis; Notes: ARDS = acute respiratory distress syndrome; MCS-12 = mental component scale of short-form 12 questionnaire; PCS-12 = physical component scale of short-form 12 questionnaire.
DOI: 10.6084/m9.figshare.12441620.v1
title: Additional file 3 of Influence of quality of intensive care on quality of life/return to work in survivors of the acute respiratory distress syndrome: prospective observational patient cohort study (DACAPO)

description: Additional file 3: Excel File. Table 6. Linear Regression Analyses of Health-related Quality of Life after 3 months on Quality of Care. a adjusted for age, sex, severity of ARDS; b adjusted for age, sex, severity of ARDS, BMI, Education score, SAPS-II score, SOFA score, diagnosis of ARDS (participating vs. other ICU), self-reported physician-diagnosed mental disorder before ARDS diagnosis Notes: ARDS = acute respiratory distress syndrome; MCS-12 = mental component scale of short-form 12 questionnaire; PCS-12 = physical component scale of short-form 12 questionnaire.
DOI: 10.6084/m9.figshare.12441605
title: Additional file 1 of Influence of quality of intensive care on quality of life/return to work in survivors of the acute respiratory distress syndrome: prospective observational patient cohort study (DACAPO)

description: Additional file 1: Excel File. Table 4. Socio-demographic and general medical characteristics of 12 months respondents. a derived from educational and professional level22, considered for regression analyses. SAPS-II score: Simplified Acute Physiology Score II without Glasgow Coma Scale; SOFA score: Sequential Organ Failure Assessment; BMI: Body Mass Index. bas assessed at admission at the DACAPO ICU, c without consideration of Glasgow Coma Scale.
DOI: 10.6084/m9.figshare.12441605.v1
title: Additional file 1 of Influence of quality of intensive care on quality of life/return to work in survivors of the acute respiratory distress syndrome: prospective observational patient cohort study (DACAPO)

description: Additional file 1: Excel File. Table 4. Socio-demographic and general medical characteristics of 12 months respondents. a derived from educational and professional level22, considered for regression analyses. SAPS-II score: Simplified Acute Physiology Score II without Glasgow Coma Scale; SOFA score: Sequential Organ Failure Assessment; BMI: Body Mass Index. bas assessed at admission at the DACAPO ICU, c without consideration of Glasgow Coma Scale.
DOI: 10.6084/m9.figshare.12441545
title: Additional file 5 of A comprehensive systematic review of CSF proteins and peptides that define Alzheimer’s disease

description: Additional file 5: Table S5. Peptide sequences showing inconsistent changes in CSF studies. Peptide sequences with different pattern of expression across independent studies or inconsistent direction change to that observed by proteomics in relation to AD pathology. *Peptide sequences with changes supported by statistical analysis between AD and control samples.
DOI: 10.6084/m9.figshare.12441536
title: Additional file 4 of A comprehensive systematic review of CSF proteins and peptides that define Alzheimer’s disease

description: Additional file 4: Table S4. Information regarding all peptides extracted from the proteomic studies. M.W. [Da]: Molecular weight obtained from each article. Theo. M.W. [Da]: theoretical molecular weight obtained from Compute pI/Mw tool (https://web.expasy.org/compute_pi/).
DOI: 10.6084/m9.figshare.12441545.v1
title: Additional file 5 of A comprehensive systematic review of CSF proteins and peptides that define Alzheimer’s disease

description: Additional file 5: Table S5. Peptide sequences showing inconsistent changes in CSF studies. Peptide sequences with different pattern of expression across independent studies or inconsistent direction change to that observed by proteomics in relation to AD pathology. *Peptide sequences with changes supported by statistical analysis between AD and control samples.
DOI: 10.6084/m9.figshare.12441530
title: Additional file 3 of A comprehensive systematic review of CSF proteins and peptides that define Alzheimer’s disease

description: Additional file 3: Table S3. Proteins showing inconsistent changes in AD samples. $ proteins which are abundant in the CSF of healthy individuals [18]. Component CO4A and CO4B are indicated as A and B respectively.
DOI: 10.6084/m9.figshare.12441527
title: Additional file 2 of A comprehensive systematic review of CSF proteins and peptides that define Alzheimer’s disease

description: Additional file 2: Table S2. Proteins identified with significant changes between AD and control samples. The number of studies that describe these changes are shown.
DOI: 10.6084/m9.figshare.12441536.v1
title: Additional file 4 of A comprehensive systematic review of CSF proteins and peptides that define Alzheimer’s disease

description: Additional file 4: Table S4. Information regarding all peptides extracted from the proteomic studies. M.W. [Da]: Molecular weight obtained from each article. Theo. M.W. [Da]: theoretical molecular weight obtained from Compute pI/Mw tool (https://web.expasy.org/compute_pi/).
DOI: 10.6084/m9.figshare.12441527.v1
title: Additional file 2 of A comprehensive systematic review of CSF proteins and peptides that define Alzheimer’s disease

description: Additional file 2: Table S2. Proteins identified with significant changes between AD and control samples. The number of studies that describe these changes are shown.
DOI: 10.6084/m9.figshare.12441521
title: Additional file 1 of A comprehensive systematic review of CSF proteins and peptides that define Alzheimer’s disease

description: Additional file 1: Table S1. Information regarding all the proteins extracted from the proteomic studies. The proteins identified in each article and their abbreviations are shown. Δ, proteins not recognized by DAVID bioinformatics resources, Π qualitative but no quantitative data.
DOI: 10.6084/m9.figshare.12441521.v1
title: Additional file 1 of A comprehensive systematic review of CSF proteins and peptides that define Alzheimer’s disease

description: Additional file 1: Table S1. Information regarding all the proteins extracted from the proteomic studies. The proteins identified in each article and their abbreviations are shown. Δ, proteins not recognized by DAVID bioinformatics resources, Π qualitative but no quantitative data.
DOI: 10.6084/m9.figshare.12441428
title: Additional file 4 of New haplochromine cichlid from the upper Miocene (9–10 MYA) of Central Kenya

description: Additional file 4. Supplementary Data S4. Text file used for the phylogenetic analysis on the basis of the matrix of Stiassny [85].
DOI: 10.6084/m9.figshare.12441428.v1
title: Additional file 4 of New haplochromine cichlid from the upper Miocene (9–10 MYA) of Central Kenya

description: Additional file 4. Supplementary Data S4. Text file used for the phylogenetic analysis on the basis of the matrix of Stiassny [85].
DOI: 10.6084/m9.figshare.12441416
title: Additional file 2 of New haplochromine cichlid from the upper Miocene (9–10 MYA) of Central Kenya

description: Additional file 2. Supplementary Data S2. Meristic counts from x-rays.
DOI: 10.6084/m9.figshare.12441416.v1
title: Additional file 2 of New haplochromine cichlid from the upper Miocene (9–10 MYA) of Central Kenya

description: Additional file 2. Supplementary Data S2. Meristic counts from x-rays.
DOI: 10.6084/m9.figshare.12441392
title: Additional file 2 of Transcriptional consequences of MBD5 disruption in mouse brain and CRISPR-derived neurons

description: Additional file 2: Figure S1. Enrichments of differentially expressed genes in gene sets with relevance to neurodevelopment and neuronal function. The description of gene lists and corresponding publications is provided in Supplementary Tables 5 & 6. The color represents -log10(p-value). Figure S2. Enrichments of co-expression modules with evidence of Mbd5 knock-down relevance in gene sets with relevance to neurodevelopment and neuronal function. Only sets with significant enrichments are shown. The description of gene lists and corresponding publications is provided in Supplementary Tables 5 & 6. The color represents -log10(p-value). Figure S3. Protein-protein interaction network of genes from co-expression module Cx15 from String-db database. The nodes filled with red represent the genes that belong to GO “cilium”. Nodes circled in red are differentially expressed in cortex at nominal p-value &lt;0.05. The boxplot shows the mean expression of the genes in module Cx15 as normalized log10-transformed counts. Figure S4. Heatmap of gene expression of cell-type specific markers as normalized log-transformed scaled counts. The values are scaled by row. Figure S5. Differential expression analysis of cell lines and overlaps with mouse brain regions. A-B - Volcano plots of differential expression tests for NPCs (A) and Neurons (B). X-axis shows estimated log2 fold change and y-axis shows -log10(FDR). Horizontal grey dashed line shows -log10(0.05), marking the significance cut-off for FDR. Vertical grey dashed line shows the log2 fold change = 0. Red points show the genes that have FDR &lt; 0.05 and absolute log2 fold change less or equal to 1, green points show the genes with FDR &lt; 0.05 and absolute log2 fold change greater than 1. C - Table of number of differentially expressed genes in NPCs and Neurons at FDR &lt; 0.05 and nominal p &lt; 0.05. D - Overlap of nominal differentially expressed genes in cell lines and mice. Genes that are expressed in all 5 comparisons (NPCs, neurons, mouse cerebellum, mouse cortex, mouse striatum) were considered as background for enrichment tests. The number inside the cell shows number of background genes in corresponding overlap, and the color of the cell shows the -log10(p) from Fisher's test for overrepresentation. Figure S6. Meta analysis of cell lines using Fisher’s method and comparison of nDEGs with Gigek et al. A - Genes with FDR &lt; 0.05 in meta-analysis on all mouse regions and cell lines. The heatmap shows the direction and significance of each gene in the corresponding cell type/brain region. B –Enrichment of DEGs identified in Gigek et al. among nDEGs from mouse brain regions, and human NPCs and neurons. The color indicates -log10(p) of Fisher’s enrichment test between two sets, and the number shows the number of genes in common. Figure S7. Principal Component Analysis of mouse brain regions. This shows that the primary component of the variability in gene expression is brain region, contributing as much as 79% to overall variation.
DOI: 10.6084/m9.figshare.12441386
title: Additional file 1 of Transcriptional consequences of MBD5 disruption in mouse brain and CRISPR-derived neurons

description: Additional file 1: Table S1. Information of mouse samples collected. Table S2. Guide RNAs used for MBD5 gene editing. Table S3. Complete list of all expressed genes tested for differential expression in each mouse brain region, corresponding statistics and co-expression module assignment. Table S4. Genes that showed regulation in the same direction at nominal significance in at least one mouse brain region and at least one cell line. Table S5. Description of the gene lists with relevance to neuronal development and function and corresponding publications. Table S6. Complete delineation of genes comprising the gene lists in Supplementary Table 5. Table S7. Complete list of all expressed genes tested for differential expression in NPCs and neurons and corresponding statistics.