cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3613934_d8.v1
title: Additional file 5: Table S2. of Application of single-cell RNA sequencing in optimizing a combinatorial therapeutic strategy in metastatic renal cell carcinoma

description: Estimated subclonal frequencies of propagated somatic mutations in the evolutionary trajectory. Annotated information corresponding to somatic single-nucleotide variants (SSNVs) was taken from Additional file 3: Table S1. Mean cellular frequencies from a post-burn-in of 50,000 chains of MCMC analysis in PyClone are shown with subclonal information. (XLSX 15.3 kb)
DOI: 10.6084/m9.figshare.c.3613961_d1.v1
title: Additional file 4: of Next-generation sequencing-based detection of germline L1-mediated transductions

description: Contains IGV representations from each experimentally validated source locus (two representations: 5 and 10Â kb surrounding each source locus). (ZIP 46533Â kb)
DOI: 10.6084/m9.figshare.c.3613952_d5.v1
title: MOESM3 of Sugarcane transgenics expressing MYB transcription factors show improved glucose release

description: Additional file 3: Table S2. Normalized lignin biosynthetic genes ΔCt values for MYB-expressing plants. Values normalized against average control ΔCt value for each gene. Values represent initial expression screening of leaf tissue and post-harvest expression results from young internode tissue and maturing internode tissue. NE: Normalized expression with standard error of the mean shown. Samples significantly different to the controls after ANOVA, p = 0.05, are shown in bold. Control n = 3. Plants are listed in ascending total lignin content for each line.
DOI: 10.6084/m9.figshare.c.3613961_d2.v1
title: Additional file 2: of Next-generation sequencing-based detection of germline L1-mediated transductions

description: Is a list of all L1-transductions discovered in this study and their validation status in macaque, orangutan, chimpanzee and human. (XLSX 109Â kb)
DOI: 10.17863/cam.12992
title: Research data supporting “Crystal structure of tripartite-type ABC transporter MacB from Acinetobacter baumannii”

description: The MacA–MacB–TolC tripartite complex is a transmembrane machine that spans both plasma membrane and outer membrane and actively extrudes substrates, including macrolide antibiotics, virulence factors, peptides and cell envelope precursors. These transport activities are driven by the ATPase MacB, a member of the ATP-Binding Cassette (ABC) superfamily. Here, we present the crystal structure of MacB at 3.4 Å resolution. MacB forms a dimer in which each protomer contains a nucleotide binding domain and four transmembrane helices that protrude in the periplasm into a binding domain for interaction with the membrane fusion protein MacA. MacB represents an ABC transporter in pathogenic microorganisms with unique structural features. The data sets included in this repository concern results of cell growth experiments in Fig. 1b and Table 2, and the raw immuno blot data for Supplementary Figure 14.
DOI: 10.6084/m9.figshare.c.3613871_d21.v1
title: Additional file 2: of Systems analysis of non-parenchymal cell modulation of liver repair across multiple regeneration modes

description: Matlab code executing the model used in this study. (M 10Â kb)
DOI: 10.6084/m9.figshare.c.3614081_d3.v1
title: Additional file 1: Table S1. of Novel factors of Anopheles gambiae haemocyte immune response to Plasmodium berghei infection

description: dsRNA haemocyte-specific library. The main features of target genes and dsRNAs used in this study are presented. DsRNA IDs, KD phenotypes in cell-based RNAi screens [5], VectorBase gene IDs, Affymetrix probe codes and previous ENSEMBL IDs are listed in columns A, B, C, D and E, respectively. Circulating haemocyte microarray information from [2] are summarized in columns F (cluster), G (normalized haemocyte value), H (normalized carcass value) and I (normalized head value). Comments (name and/or homology of An. gambiae genes) and InterPro domain data are reported in columns J and K, respectively. Drosophila melanogaster orthologs are shown in column L, and corresponding FlyBase IDs in column M. D. melanogaster KD phenotypes according to the GenomeRNAi database are reported in column N. This table is modified from Lombardo et al. 2013 [5]. (XLS 81 kb)
DOI: 10.17863/cam.4876
title: Research data supporting “ Design, fabrication and testing of sandwich panel decking use in road freight trailers”

description: Data supporting publication
DOI: 10.6084/m9.figshare.c.3614081_d5.v1
title: Additional file 5: Table S4. of Novel factors of Anopheles gambiae haemocyte immune response to Plasmodium berghei infection

description: Oocysts and melanised ookinetes dataset. (XLSX 195 kb)
DOI: 10.6084/m9.figshare.c.3614105_d1.v1
title: Additional file 1: Table S1. of Genetic heterogeneity of actionable genes between primary and metastatic tumor in lung adenocarcinoma

description: Comparion of individual mutations between primary lesion and metastatic L/N. (XLSX 20 kb)
DOI: 10.6084/m9.figshare.c.3614093_d2.v1
title: Additional file 2: of A transcriptome-based model of central memory CD4 T cell death in HIV infection

description: CD4 TCM cell signature in HIV infection. Table that lists the genes that were differentially expressed by TCM cells from patients with HIV, constituting the HIV TCM signature. (XLS 56 kb)
DOI: 10.6084/m9.figshare.c.3614108_d1.v1
title: Additional file 5: of Widespread parainflammation in human cancer

description: Results from a differential expression analysis of organoid cultures from APC-mutated normal gut epithelium (MIN) versus adenomatous polyps of APCmin/+ mice (Adenoma). See â  Methodsâ   for organoid culture. Each set has three biological replicates. Raw reads and counts are available at the GEO under accession GSE81836. The analysis was performed using the RSEM software package. (XLSX 773 kb)
DOI: 10.6084/m9.figshare.c.3614108_d2.v1
title: Additional file 7: of Widespread parainflammation in human cancer

description: Parainflammation (PI) scores for 634 carcinoma cell lines from the CCLE project. The PI score is calculated using ssGSEA for the 40 PI genes. (XLSX 69 kb)
DOI: 10.6084/m9.figshare.c.3614120_d1.v1
title: Additional file 1: of Regulatory complexity revealed by integrated cytological and RNA-seq analyses of meiotic substages in mouse spermatocytes

description: This file contains a mini-website of Tables S1-S10. The same mini-website is available at http://carterdev.jax.org/dtx/a2/index.html. Interactive expression plots. Table S1. Number and proportion of isolated cells for cytological analysis and RNA-seq. Table S2. Gene lists and gene expression values for each of the substages, separated by worksheets. An additional worksheet provides results for X-linked genes. Abbreviations for each substage are as follows: Sp’gonia for spermatogonia, PL for preleptotene, EL for early leptotene, LL + Z for late leptotene and zygotene, LL + Z + EP for those genes found in late leptotene, zygotene, and early pachytene, EP for early pachytene, EP + LP + D for early pachytene, late pachytene, and diplotene, and LP + D for late pachytene and diplotene. Sheet names prefixed with “Anti-“correspond to genes that are negatively concordant with the substage, (e.g., Anti-PL corresponds to genes that are negatively concordant with preleptotene. Genes are ranked by how closely the expression pattern follows the substage pattern (rank = 1 is best). Gene ids and Gene names for piRNA precursors and NONCODE lncRNAs have prefix “pi-” and “NON”, respectively. Expression is given in log2(TPM + 1). Table S3. GO analysis for substage-negatively concordant genes. Abbreviations for each substage are as follows: Sp’gonia for spermatogonia, EL for early leptotene, LL-Z for late leptotene and zygotene, EP for early pachytene, and LP-D for late pachytene and diplotene. Table S4. GO analysis for substage-concordant genes. Abbreviations for each substage are as follows: Sp’gonia for spermatogonia, EL for early leptotene, LL-Z for late leptotene and zygotene, EP for early pachytene, and LP-D for late pachytene and diplotene. Table S5. Analysis of genes annotated to meiosis. Table S6. TFs for substage-concordant genes. The column names are explained as follows: “NES” is short for Normalized Enrichment Score in iRegulon, “ngenes” is the number of substage-concordant genes associated with the TF, “name” used in the arc-diagram (* indicates a family of genes, e.g., Rfx* for Rfx1, Rfx2, Rfx3, Rfx4). Bolded TFs are highly expressed in the testis and those highlighted in red are associated with male reproduction. Table S7. TFs for substage-negatively concordant genes. The column names are explained as follows: “NES” is short for Normalized Enrichment Score in iRegulon, “ngenes” is the number of substage negatively-concordant genes associated with the TF, “name” used in the arc-diagram (* indicates a family of genes, e.g., Rfx* for Rfx1, Rfx2, Rfx3, Rfx4). Table S8. Comparison of substage-concordant gene lists with derived clusters in Margolin, et al. [14]. Table S9. Comparison of substage-concordant gene lists with sets derived from FACS-sorted cells [5, 6]. Table S10. Primers for qRT-PCR. (ZIP 6513 kb)
DOI: 10.6084/m9.figshare.c.3614234_d1.v1
title: Additional file 2: of Identification and expression analysis of genes related to calyx persistence in Korla fragrant pear

description: GO enrichment of up-regulated DEGs in SC_hua vs TL_hua. GO_accession: The ID of nodal point. Description: GO description. Term_type: The category of GO. Over_represented_pValue: The pValue of enrichment. Corrected_pValue: The pValue is after correction. DEG_item: The DEGs related to this GO. DEG_list: All the DEGs annotated in GO. Bg_item: The background genes related to this GO. Bg_list: The background genes annoted in this GO. Gene_names: The DEGsâ   ID related to this GO. (XLS 82Â kb)
DOI: 10.6084/m9.figshare.c.3614234_d2.v1
title: Additional file 3: of Identification and expression analysis of genes related to calyx persistence in Korla fragrant pear

description: The top 20 KEGG pathways enrichment of DEGs in SC_hua vs TL_hua. (XLS 1Â kb)
DOI: 10.6084/m9.figshare.c.3614207_d4.v1
title: Additional file 3 of Improving cell mixture deconvolution by identifying optimal DNA methylation libraries (IDOL)

description: Table S2. CpG-specific annotations for the candidate L-DMR library used in the IDOL algorithm. (XLSX 241 kb)
DOI: 10.6084/m9.figshare.c.3614234_d3.v1
title: Additional file 7: of Identification and expression analysis of genes related to calyx persistence in Korla fragrant pear

description: The top 20 KEGG pathways enrichment of DEGs in SC_zf vs TL_zf. (XLS 1Â kb)
DOI: 10.6084/m9.figshare.c.3614207_d5.v1
title: Additional file 1 of Improving cell mixture deconvolution by identifying optimal DNA methylation libraries (IDOL)

description: Table S1. Summary of cell distribution measurements/cell mixture adjustment, among random sample of EWAS published in 2015. (XLSX 11 kb)
DOI: 10.25420/britishmuseum.27969060
title: Second step of pan's modeling procedure, creating the handles

description: Second step of modeling the pan, camera 1
DOI: 10.25420/britishmuseum.27969060.v1
title: Second step of pan's modeling procedure, creating the handles

description: Second step of modeling the pan, camera 1
DOI: 10.25420/britishmuseum.27969081
title: Third step of pan's modeling procedure, creating the Top of the Pan

description: Third step, modeling the top of the pan, camera 1
DOI: 10.25420/britishmuseum.27969081.v1
title: Third step of pan's modeling procedure, creating the Top of the Pan

description: Third step, modeling the top of the pan, camera 1
DOI: 10.25420/britishmuseum.27969099
title: Interview and practice, the first step of how to modeling a ceramic piece

description: First step of vase's modeling procedure. Raising the vase with the "pull-up" technique.
DOI: 10.25420/britishmuseum.27969099.v1
title: Interview and practice, the first step of how to modeling a ceramic piece

description: First step of vase's modeling procedure. Raising the vase with the "pull-up" technique.
DOI: 10.6084/m9.figshare.c.3614234_d4.v1
title: Additional file 1: of Identification and expression analysis of genes related to calyx persistence in Korla fragrant pear

description: GO enrichment of DEGs in SC_hua vs TL_hua. GO_accession: The ID of nodal point. Description: GO description. Term_type: The category of GO. Over_represented_pValue: The pValue of enrichment. Corrected_pValue: The pValue is after correction. DEG_item: The DEGs related to this GO. DEG_list: All the DEGs annotated in GO. Bg_item: The background genes related to this GO. Bg_list: The background genes annoted in this GO. Gene_names: The DEGsâ   ID related to this GO. (XLS 130Â kb)
DOI: 10.25420/britishmuseum.27980066
title: Interview and practice, the second step of how to modeling a ceramic piece

description: Second step of vase's modeling procedure, creating the body, with the technique called roulette or chordal, camera 1
DOI: 10.25420/britishmuseum.27980066.v1
title: Interview and practice, the second step of how to modeling a ceramic piece

description: Second step of vase's modeling procedure, creating the body, with the technique called roulette or chordal, camera 1
DOI: 10.25420/britishmuseum.27980075
title: Interview and practice, the first step of how to modeling a ceramic piece

description: First step of bowl's modeling procedure, creating the body, with the technique pull up, camera 1
DOI: 10.25420/britishmuseum.27980075.v1
title: Interview and practice, the first step of how to modeling a ceramic piece

description: First step of bowl's modeling procedure, creating the body, with the technique pull up, camera 1
DOI: 10.25420/britishmuseum.27980087
title: Interview and practice, the second of how to modeling a ceramic piece

description: Second step of bowl's modeling procedure, creating the body, with the technique called roulette or chordal, camera 2
DOI: 10.25420/britishmuseum.27980087.v1
title: Interview and practice, the second of how to modeling a ceramic piece

description: Second step of bowl's modeling procedure, creating the body, with the technique called roulette or chordal, camera 2
DOI: 10.6084/m9.figshare.c.3614234_d5.v1
title: Additional file 6: of Identification and expression analysis of genes related to calyx persistence in Korla fragrant pear

description: The top 20 KEGG pathways enrichment of DEGs in SC_ep vs TL_ep. (XLS 1Â kb)
DOI: 10.25574/14276
title: Chandra X-ray Observatory ObsId 14276

description: AO-13 Calibration Observations of the ACIS charged particle background
DOI: 10.25574/17377
title: Chandra X-ray Observatory ObsId 17377

description: AO-16 Calibration Observations of the ACIS charged particle background
DOI: 10.25574/19788
title: Chandra X-ray Observatory ObsId 19788

description: Proxima Cen's Stellar Cycle
DOI: 10.25574/19789
title: Chandra X-ray Observatory ObsId 19789

description: Proxima Cen's Stellar Cycle
DOI: 10.25574/19790
title: Chandra X-ray Observatory ObsId 19790

description: Proxima Cen's Stellar Cycle
DOI: 10.25574/19793
title: Chandra X-ray Observatory ObsId 19793

description: Proxima Cen's Stellar Cycle
DOI: 10.25574/cdc.306
title: Chandra X-ray Observatory Chandra Data Collection for request #306

description: Chandra Data Collection for request #306
description: DOI updated to include the publication's DOI on 2024-12-17-11:00:00
DOI: 10.6084/m9.figshare.c.3614234_d6.v1
title: Additional file 4: of Identification and expression analysis of genes related to calyx persistence in Korla fragrant pear

description: The top 20 KEGG pathways enrichment of up DEGs in SC_hua vs TL_hua. (XLS 512 bytes)
DOI: 10.6084/m9.figshare.c.3614360_d3.v1
title: Additional file 3: Figure S3. of T cells in multiple myeloma display features of exhaustion and senescence at the tumor site

description: Differential expression of exhaustion and senescent markers in T cells in myeloma BM and PB of newly diagnosed and treated patients. Expression on CD4+ T cells in the bone marrow (Figure S3a), CD4+ T cells in PB (Figure S3b), and CD8+ T cells in PB (Figure S3c). (ZIP 192 kb)
DOI: 10.17863/cam.9169
title: Research data supporting 'Pattern formation of a nonlocal, anisotropic interaction model'

description: This data contains the code and data necessary to reproduce the computational results published in 'Pattern formation of a nonlocal, anisotropic interaction model'.
DOI: 10.6084/m9.figshare.c.3614318_d8.v1
title: Additional file 6: of Nested coevolutionary networks shape the ecological relationships of ticks, hosts, and the Lyme disease bacteria of the Borrelia burgdorferi (s.l.) complex

description: Complete information for the Borrelia species in the B. burgdorferi (BBG) epidemiological network. The table includes values of centrality (betweenness centrality, eigenvector centrality and PageRank), the clustering coefficient, the cluster in which the ticks circulate, the phylogenetic diversity (PD) of the hosts, the richness of the genera of hosts (GR), the mean pairwise distances of hosts in the phylogenetic tree of the genera of hosts (MPD) and the significance of the MPD index (MPD-P). Negative MPD values and values of MPD-P near 0.01 indicate strong phylogenetic clustering of the hosts of the tick; positive MPD values and higher MPD-P values indicate weak phylogenetic clustering of the hosts of the tick. (CSV 7 kb)
DOI: 10.6084/m9.figshare.c.3614384_d1.v1
title: Additional file 1: of Building a glaucoma interaction network using a text mining approach

description: Filtered Extracted Relations. (XLSX 58 kb)
DOI: 10.6084/m9.figshare.c.3614384_d2.v1
title: Additional file 3: of Building a glaucoma interaction network using a text mining approach

description: Glaucoma Benchmark Genes (XLSX 38 kb)
DOI: 10.6084/m9.figshare.c.3614384_d3.v1
title: Additional file 2: of Building a glaucoma interaction network using a text mining approach

description: Unique Extracted Relations. (XLSX 32 kb)
DOI: 10.17863/cam.46040
title: Dataset: Characterisation of the mechanical failure and fracture mechanisms of single grain Y-Ba-Cu-O bulk superconductors

description: Dataset accompanying the named paper. Please refer to the associated paper for full details of the experimental methods and parameters used to collect this data. Images are of the whole central cross section taken using an optical microscope. The excel spreadsheet contains both the data from three-point bend testing, and a range of data collected from optical microscope images analysed using thresholding analysis using ImageJ software. In all cases, the sample names beginning JS correspond to YBCO-Ag samples, those with JM-odd correspond to YBCO samples grown without additional liquid-rich powder and JM-even correspond to YBCO samples grown with the stated quantity of liquid-rich powder (growth processes are as referenced in the associated paper). The images in the powerpoint labelled 'fracture surfaces' are images of the fracture surfaces when tested in 3 point bending, as described in the paper.
DOI: 10.4228/zalf.dk.149
title: Datasets from a Germany-wide business survey on voluntary nature conservation commitments

description: The data stems from a Germany-wide business survey about voluntary corporate commitments for the protection of biodiversity and natural ecosystems. The main purpose of the survey was to analyse in how far businesses are engaged for nature conservation as well as the factors that influence their actions in this regard. Moreover, the survey investigated business perceptions regarding the concept of an online-marketplace for nature conservation credits. The datasets include information about company characteristics. The complete dataset (i.e. “dataset_complete”) contains information from 747 respondents that logged into the online survey system. Out of those, the first subset (i.e. “subset_1”) comprises the responses from 618 companies that provided sufficiently complete questionnaires, suitable for an analysis of drivers for corporate conservation commitments.

The dataset was migrated from the ZALF Open Research Data Portal to the BonaRes Repository. Content of the dataset was not changed.
description: The survey was conducted in 2019. It was realised through postal invitation letters and a self-administered online-survey. The survey targeted large and medium sized companies of the secondary and tertiary sectors in Germany,which were sampled through proportional stratified random sampling. The strata were based on company size (i.e. number of employees) and location(i.e. federal state).
DOI: 10.6084/m9.figshare.c.3614438_d10.v1
title: Additional file 6: of Distinct transcriptome responses to water limitation in isohydric and anisohydric grapevine cultivars

description: List of the 1236 genes differentially modulated between WS and WW conditions regardless of the genotype. (XLSX 198 kb)
DOI: 10.17863/cam.44361
title: Data supporting "How to guard against fixation? Demonstrating individual vulnerability is more effective than warning of general risk"

description: This excel file contains: i) the numerical data resulting from the participants’ performance in each of the administered tasks, and ii) the participants’ responses to the post-experimental questions. In the excel file, the column headings are self-explanatory, provided you also have the corresponding publication given above as a reference (How to guard against fixation? Demonstrating individual vulnerability is more effective than warning of general risk). The data were collected from April to June 2019 from 109 participants recruited through the online platform Amazon Mechanical Turk. Participants’ age range between 18 and 30 years. They had different levels of education and were studying various disciplines. Participants completed the study individually and received $5 in return of their participation. The study was approved by the local Ethical Committee. Participants gave their consent electronically before starting with the study.
DOI: 10.6084/m9.figshare.c.3614438_d11.v1
title: Additional file 3: of Distinct transcriptome responses to water limitation in isohydric and anisohydric grapevine cultivars

description: The 1034 annotated genes significantly modulated in leaves with a FC value &gt;2 in at least one cultivar under WS. The data set indicates whether a gene was retrieved by the 12-class approach (12C), by the 6-class approach (6C) or if it was shared (S) between the two approaches. (XLSX 160 kb)
DOI: 10.6084/m9.figshare.c.3614474_d1.v1
title: Additional file 11: Table S6. of A systematic comparison of copy number alterations in four types of female cancer

description: GISTIC focal peaks for joint regions of CBS and PCF gains and losses. This table shows the GISTIC focal peaks of the overlapping regions between CBS and PCF. (XLSX 15 kb)
DOI: 10.6084/m9.figshare.c.3614474_d2.v1
title: Additional file 16: Table S10. of A systematic comparison of copy number alterations in four types of female cancer

description: Top bio functions and top canonical pathways of the Venn diagram. Table S10 exhibits the list of top bio functions or pathways of the Venn diagram for four different cancer types. Grey cells show the most significant functions/pathways at 5% FDR. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.c.3614474_d5.v1
title: Additional file 3: Table S2. of A systematic comparison of copy number alterations in four types of female cancer

description: GISTIC focal peaks for simulated data – gains and losses. Table S2A exemplifies the number of focal peaks of simulation data for PCF-segmented input data to GISTIC and variable γ from 10 to 90. Table S2B represents GISTIC focal peaks of simulated data for CBS-segmented input data to GISTIC and α varied from 0.00001 to 0.1. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3614474_d6.v1
title: Additional file 14: Figure S5. of A systematic comparison of copy number alterations in four types of female cancer

description: A schematic view of two common genes among female cancers. This schematic view shows the genomic positions of two genes that were found common among female cancers. The figure further suggests an explanation about the lack of any common genes for the focal aberrations at 8q24.3. (XLSX 493 kb)