cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6216143
title: Figure_5 from Behavioural elements and sensory cues involved in sexual isolation between <i>Drosophila melanogaster</i> strains

description: Sensory cues exchanged during courtship are crucial for mate choice: if they show intraspecific divergence, this may cause or reinforce sexual isolation between strains, ultimately leading to speciation. There is a strong asymmetric sexual isolation between <i>Drosophila melanogaster</i> females from Zimbabwe (Z) and males from all other populations (M). While M and Z flies of both sexes show different cuticular pheromones, this variation is only partly responsible for the intraspecific isolation effect. Male acoustic signals are also partly involved in sexual isolation. We examined strain-specific courtship behaviour sequences to determine which body parts and sensory appendages may be involved in sexual isolation. Using two strains representative of the Z- and M-types, we manipulated sensory cues and the social context; we then measured the consequence of these manipulations on courtship and copulation. Our data suggest that Z females mated best with males whose sensory characteristics matched those of Z males in both quantity and quality. M females were less choosy and much less influenced by the sensory and social contexts. Differences in emission and reception of sensory signals seen between Z and M flies may lead to the concerted evolution of multiple sensory channel, thereby shaping a population-specific mate recognition system.
DOI: 10.6084/m9.figshare.6216143.v1
title: Figure_5 from Behavioural elements and sensory cues involved in sexual isolation between <i>Drosophila melanogaster</i> strains

description: Sensory cues exchanged during courtship are crucial for mate choice: if they show intraspecific divergence, this may cause or reinforce sexual isolation between strains, ultimately leading to speciation. There is a strong asymmetric sexual isolation between <i>Drosophila melanogaster</i> females from Zimbabwe (Z) and males from all other populations (M). While M and Z flies of both sexes show different cuticular pheromones, this variation is only partly responsible for the intraspecific isolation effect. Male acoustic signals are also partly involved in sexual isolation. We examined strain-specific courtship behaviour sequences to determine which body parts and sensory appendages may be involved in sexual isolation. Using two strains representative of the Z- and M-types, we manipulated sensory cues and the social context; we then measured the consequence of these manipulations on courtship and copulation. Our data suggest that Z females mated best with males whose sensory characteristics matched those of Z males in both quantity and quality. M females were less choosy and much less influenced by the sensory and social contexts. Differences in emission and reception of sensory signals seen between Z and M flies may lead to the concerted evolution of multiple sensory channel, thereby shaping a population-specific mate recognition system.
DOI: 10.6084/m9.figshare.6215552
title: Mask-modulated lensless imaging with multi-angle illuminations

description: Support materials for the paper: Mask-modulated lensless imaging with multi-angle illuminations.
DOI: 10.6084/m9.figshare.6215516
title: Additional file 7: of Characterization of phenotypic variation and genome aberrations observed among Phytophthora ramorum isolates from diverse hosts

description: Details of physical linkage of genome scaffolds and inferred haplotype combinations at each scaffold. Two datasheets are in the file. Datasheet “31 Scaffolds”: CCNVs found in the largest 31 scaffolds are shown. A and B denote homologous haplotypes at each scaffold. Inferred haplotype combinations are shown when those are deviated from a heterozygous disomic haplotype combination, AB. AAB, AA, and A denote trisomy, cnLOH, and monosomy, respectively. AB + XXX indicates a mixture of AB disomy and trisomy with an unknown haplotype combination. HK in CCNV type indicates a heterokaryon. Scaffolds 5, 8, 14, 15, and 20 are likely physically linked, whereas each of scaffolds 9 and 10 do not link to any of the 31 largest scaffolds in the current assembly. Datasheet “Fig. 6 SNPs”: Three representative SNPs located near the left border, center and right border of each scaffold in combination with read coverage were used to infer haplotype combinations presented in Fig. 6. (XLSX 23 kb)
DOI: 10.6084/m9.figshare.6215516.v1
title: Additional file 7: of Characterization of phenotypic variation and genome aberrations observed among Phytophthora ramorum isolates from diverse hosts

description: Details of physical linkage of genome scaffolds and inferred haplotype combinations at each scaffold. Two datasheets are in the file. Datasheet “31 Scaffolds”: CCNVs found in the largest 31 scaffolds are shown. A and B denote homologous haplotypes at each scaffold. Inferred haplotype combinations are shown when those are deviated from a heterozygous disomic haplotype combination, AB. AAB, AA, and A denote trisomy, cnLOH, and monosomy, respectively. AB + XXX indicates a mixture of AB disomy and trisomy with an unknown haplotype combination. HK in CCNV type indicates a heterokaryon. Scaffolds 5, 8, 14, 15, and 20 are likely physically linked, whereas each of scaffolds 9 and 10 do not link to any of the 31 largest scaffolds in the current assembly. Datasheet “Fig. 6 SNPs”: Three representative SNPs located near the left border, center and right border of each scaffold in combination with read coverage were used to infer haplotype combinations presented in Fig. 6. (XLSX 23 kb)
DOI: 10.6084/m9.figshare.6215465
title: Additional file 5: of Human serum and platelet lysate are appropriate xeno-free alternatives for clinical-grade production of human MuStem cell batches

description: Table S5. The UMI counts for each gene in each sample normalized by dividing by the sum of UMI counts across all genes in the same sample. Normalized UMI counts expressed in UPM (UMI counts for one gene per 1,000,000 UMI counts for all genes) (XLSX 8238 kb)
DOI: 10.6084/m9.figshare.6215465.v1
title: Additional file 5: of Human serum and platelet lysate are appropriate xeno-free alternatives for clinical-grade production of human MuStem cell batches

description: Table S5. The UMI counts for each gene in each sample normalized by dividing by the sum of UMI counts across all genes in the same sample. Normalized UMI counts expressed in UPM (UMI counts for one gene per 1,000,000 UMI counts for all genes) (XLSX 8238 kb)
DOI: 10.6084/m9.figshare.6215459
title: Additional file 1: of Characterization of phenotypic variation and genome aberrations observed among Phytophthora ramorum isolates from diverse hosts

description: Details of NA1 P. ramorum isolates used in this study. Other names, source, geographical location, year of isolation, SSR multilocus genotypes, colony phenotype, relative radial growth rate, relative lesion size, irregularity index, K-means cluster, CCNV type and contact scientists for isolates are shown. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.6215459.v1
title: Additional file 1: of Characterization of phenotypic variation and genome aberrations observed among Phytophthora ramorum isolates from diverse hosts

description: Details of NA1 P. ramorum isolates used in this study. Other names, source, geographical location, year of isolation, SSR multilocus genotypes, colony phenotype, relative radial growth rate, relative lesion size, irregularity index, K-means cluster, CCNV type and contact scientists for isolates are shown. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.6215384
title: Additional file 1: of The effect of implementation strength of basic emergency obstetric and newborn care (BEmONC) on facility deliveries and the met need for BEmONC at the primary health care level in Ethiopia

description: Survey dataset. This is survey data and data dictionary we used for the analysis. The first sheet contains the data variables and values and the second sheet contains variable definitions (data dictionary). (XLSX 289Â kb)
DOI: 10.6084/m9.figshare.6215384.v1
title: Additional file 1: of The effect of implementation strength of basic emergency obstetric and newborn care (BEmONC) on facility deliveries and the met need for BEmONC at the primary health care level in Ethiopia

description: Survey dataset. This is survey data and data dictionary we used for the analysis. The first sheet contains the data variables and values and the second sheet contains variable definitions (data dictionary). (XLSX 289Â kb)
DOI: 10.6084/m9.figshare.6215297
title: Additional file 1: of Phylogeography of Aegean green toads (Bufo viridis subgroup): continental hybrid swarm vs. insular diversification with discovery of a new island endemic

description: Table S1. Information on the localities sampled in this study (A) and details on the microsatellite multiplexes (B). (XLSX 20 kb)
DOI: 10.6084/m9.figshare.6215297.v1
title: Additional file 1: of Phylogeography of Aegean green toads (Bufo viridis subgroup): continental hybrid swarm vs. insular diversification with discovery of a new island endemic

description: Table S1. Information on the localities sampled in this study (A) and details on the microsatellite multiplexes (B). (XLSX 20 kb)
DOI: 10.6084/m9.figshare.6215285
title: Additional file 1: of microRNA-451a regulates colorectal cancer proliferation in response to radiation

description: Figure S1 Affymetrix .cel files were uploaded to Partek Genomics Suite 6.6 and normalized using the default parameters of the RMA subroutine (background correction, quantile normalization, median polish summarization) as a single set. All probesets on each array were included in normalization. Following normalization, the log2 transformed signal data set was filtered to exclude all non-human probesets and control probesets. These miRNAs are qualitatively identified as being differentially expressed in both tumor types within a time point in the same direction. (XLSX 1528 kb)
DOI: 10.6084/m9.figshare.6215285.v1
title: Additional file 1: of microRNA-451a regulates colorectal cancer proliferation in response to radiation

description: Figure S1 Affymetrix .cel files were uploaded to Partek Genomics Suite 6.6 and normalized using the default parameters of the RMA subroutine (background correction, quantile normalization, median polish summarization) as a single set. All probesets on each array were included in normalization. Following normalization, the log2 transformed signal data set was filtered to exclude all non-human probesets and control probesets. These miRNAs are qualitatively identified as being differentially expressed in both tumor types within a time point in the same direction. (XLSX 1528 kb)
DOI: 10.5281/zenodo.4008042
title: Table S1: Data extraction table. A summary of the 166 candidate biomarkers that met the inclusion/exclusion criteria.

description: Supplementary material to Translating Biomarkers of Cholangiocarcinoma for Theranosis: A Systematic Review. Version 2.
DOI: 10.5281/zenodo.3901774
title: Table S1: Data extraction table. A summary of the 166 candidate biomarkers that met the inclusion/exclusion criteria.

description: Supplementary material to Translating Biomarkers of Cholangiocarcinoma for Theranosis: A Systematic Review. Version 2.
DOI: 10.6084/m9.figshare.6215096
title: Additional file 18: of CLICK: one-step generation of conditional knockout mice

description: Table S4. Primer sets used for PCR and sequencing analysis in this study. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.6215096.v1
title: Additional file 18: of CLICK: one-step generation of conditional knockout mice

description: Table S4. Primer sets used for PCR and sequencing analysis in this study. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.6215084
title: of Prediction of plant lncRNA by ensemble machine learning classifiers

description: of Prediction of plant lncRNA by ensemble machine learning classifiers
DOI: 10.6084/m9.figshare.6215084.v2
title: of Prediction of plant lncRNA by ensemble machine learning classifiers

description: of Prediction of plant lncRNA by ensemble machine learning classifiers
DOI: 10.6084/m9.figshare.6215084.v1
title: Additional file 2 of Prediction of plant lncRNA by ensemble machine learning classifiers

description: Non-coding RNA search terms. Terms used to search for organism specific non-coding sequences on RNA central. (ZIP 16500 kb)
DOI: 10.6084/m9.figshare.6215075
title: Additional file 17: of CLICK: one-step generation of conditional knockout mice

description: Table S3. Crossing floxed founders with Cre-driver mice. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.6215069
title: of Prediction of plant lncRNA by ensemble machine learning classifiers

description: of Prediction of plant lncRNA by ensemble machine learning classifiers
DOI: 10.6084/m9.figshare.6215075.v1
title: Additional file 17: of CLICK: one-step generation of conditional knockout mice

description: Table S3. Crossing floxed founders with Cre-driver mice. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.6215069.v1
title: Additional file 1 of Prediction of plant lncRNA by ensemble machine learning classifiers

description: Random protein training data sets, lncRNA data sets. Fasta files of protein coding and lncRNA sequences in data sets used for training machine learning classifiers. (TXT 0.07725 kb)
DOI: 10.6084/m9.figshare.6215069.v2
title: of Prediction of plant lncRNA by ensemble machine learning classifiers

description: of Prediction of plant lncRNA by ensemble machine learning classifiers
DOI: 10.6084/m9.figshare.6215051
title: Additional file 16: of CLICK: one-step generation of conditional knockout mice

description: Table S2. Potential off-target sites for CRISPR/Cas targeting on the mouse genome. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.6215051.v1
title: Additional file 16: of CLICK: one-step generation of conditional knockout mice

description: Table S2. Potential off-target sites for CRISPR/Cas targeting on the mouse genome. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.6215039
title: Additional file 15: of CLICK: one-step generation of conditional knockout mice

description: Table S1. Germline transmission of CLICK-mediated mutations in F1 offspring. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.6215039.v1
title: Additional file 15: of CLICK: one-step generation of conditional knockout mice

description: Table S1. Germline transmission of CLICK-mediated mutations in F1 offspring. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.6214964
title: Additional file 3: of Brazilian propolis ethanol extract and its component kaempferol induce myeloid-derived suppressor cells from macrophages of mice in vivo and in vitro

description: Raw data of FACS and qRT-PCR analyses. Statistical analysis data are also included. (XLSX 5920Â kb)
DOI: 10.6084/m9.figshare.6214964.v1
title: Additional file 3: of Brazilian propolis ethanol extract and its component kaempferol induce myeloid-derived suppressor cells from macrophages of mice in vivo and in vitro

description: Raw data of FACS and qRT-PCR analyses. Statistical analysis data are also included. (XLSX 5920Â kb)
DOI: 10.6084/m9.figshare.6214943
title: Additional file 2: of Brazilian propolis ethanol extract and its component kaempferol induce myeloid-derived suppressor cells from macrophages of mice in vivo and in vitro

description: Blood test data of animals for this study after treatments. (XLSX 12Â kb)
DOI: 10.6084/m9.figshare.6214943.v1
title: Additional file 2: of Brazilian propolis ethanol extract and its component kaempferol induce myeloid-derived suppressor cells from macrophages of mice in vivo and in vitro

description: Blood test data of animals for this study after treatments. (XLSX 12Â kb)
DOI: 10.6084/m9.figshare.6214916
title: Additional file 1: of Brazilian propolis ethanol extract and its component kaempferol induce myeloid-derived suppressor cells from macrophages of mice in vivo and in vitro

description: Mean body weight of animals for this study before and after treatments. (XLSX 18Â kb)
DOI: 10.6084/m9.figshare.6214916.v1
title: Additional file 1: of Brazilian propolis ethanol extract and its component kaempferol induce myeloid-derived suppressor cells from macrophages of mice in vivo and in vitro

description: Mean body weight of animals for this study before and after treatments. (XLSX 18Â kb)
DOI: 10.6084/m9.figshare.6214895
title: MOESM6 of Concurrent interactome and metabolome analysis reveals role of AKT1 in central carbon metabolism

description: Additional file 6: Table S4. Consumption of 12C isotopomeric form in the targeted metabolites and incorporation of 13C in the targeted metabolites.
DOI: 10.6084/m9.figshare.6214895.v1
title: MOESM6 of Concurrent interactome and metabolome analysis reveals role of AKT1 in central carbon metabolism

description: Additional file 6: Table S4. Consumption of 12C isotopomeric form in the targeted metabolites and incorporation of 13C in the targeted metabolites.
DOI: 10.6084/m9.figshare.6214880
title: MOESM5 of Concurrent interactome and metabolome analysis reveals role of AKT1 in central carbon metabolism

description: Additional file 5: Table S3. Sheet 1: Consolidated list of proteins identified as AKT1 interactors from AKT1 pull down samples after targeting HA and Strep tags. Interacting partners of AKT1 were analyzed by LC-MS/MS in duplicate and proteins identified in both replicate sets were only included to generate a union file at 1% global FDR (from fit); 95% confidence. Sheet 2: Represents the list of interacting partners showing perturbed association with AKT1 after inhibiting its kinase activity. Any protein with a heavy: light ratio of SILAC labels greater than 2and less than 0.5 was considered perturbed.
DOI: 10.6084/m9.figshare.6214880.v1
title: MOESM5 of Concurrent interactome and metabolome analysis reveals role of AKT1 in central carbon metabolism

description: Additional file 5: Table S3. Sheet 1: Consolidated list of proteins identified as AKT1 interactors from AKT1 pull down samples after targeting HA and Strep tags. Interacting partners of AKT1 were analyzed by LC-MS/MS in duplicate and proteins identified in both replicate sets were only included to generate a union file at 1% global FDR (from fit); 95% confidence. Sheet 2: Represents the list of interacting partners showing perturbed association with AKT1 after inhibiting its kinase activity. Any protein with a heavy: light ratio of SILAC labels greater than 2and less than 0.5 was considered perturbed.
DOI: 10.6084/m9.figshare.6214865
title: Additional file 2: of Phylogenomics provides a robust topology of the major cnidarian lineages and insights on the origins of key organismal traits

description: Table of geographic localities sampled in the present study. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.6214865.v1
title: Additional file 2: of Phylogenomics provides a robust topology of the major cnidarian lineages and insights on the origins of key organismal traits

description: Table of geographic localities sampled in the present study. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.6214862
title: MOESM4 of Concurrent interactome and metabolome analysis reveals role of AKT1 in central carbon metabolism

description: Additional file 4: Table S2. Sheet1: Consolidated union file generated by integrating replicate data sets from the eGFPpull-down samples after LCâ MS/MS analysis. Sheet2: Represent the common interacting partners between AKT1 and eGFP.
DOI: 10.6084/m9.figshare.6214862.v1
title: MOESM4 of Concurrent interactome and metabolome analysis reveals role of AKT1 in central carbon metabolism

description: Additional file 4: Table S2. Sheet1: Consolidated union file generated by integrating replicate data sets from the eGFPpull-down samples after LCâ MS/MS analysis. Sheet2: Represent the common interacting partners between AKT1 and eGFP.
DOI: 10.6084/m9.figshare.6214853
title: MOESM11 of Structural patterns of selection and diversity for Plasmodium vivax antigens DBP and AMA1

description: Additional file 11. Table of highly polymorphic residues within PvAMA1.
DOI: 10.6084/m9.figshare.6214853.v1
title: MOESM11 of Structural patterns of selection and diversity for Plasmodium vivax antigens DBP and AMA1

description: Additional file 11. Table of highly polymorphic residues within PvAMA1.
DOI: 10.6084/m9.figshare.6214841
title: MOESM3 of Concurrent interactome and metabolome analysis reveals role of AKT1 in central carbon metabolism

description: Additional file 3: Table S1. Gradient profile for LC–MSMS method on Agilent Polaris 5NH2 2 * 150 mm.
DOI: 10.6084/m9.figshare.6214841.v1
title: MOESM3 of Concurrent interactome and metabolome analysis reveals role of AKT1 in central carbon metabolism

description: Additional file 3: Table S1. Gradient profile for LC–MSMS method on Agilent Polaris 5NH2 2 * 150 mm.
DOI: 10.6084/m9.figshare.6214838
title: Additional file 1: of Phylogenomics provides a robust topology of the major cnidarian lineages and insights on the origins of key organismal traits

description: Table of taxa and data sources used in the present study including information on pre- and post-filtering dataset sizes. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.6214838.v1
title: Additional file 1: of Phylogenomics provides a robust topology of the major cnidarian lineages and insights on the origins of key organismal traits

description: Table of taxa and data sources used in the present study including information on pre- and post-filtering dataset sizes. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.6214835
title: Additional file 1: of Two independent proteomic approaches provide a comprehensive analysis of the synovial fluid proteome response to Autologous Chondrocyte Implantation

description: Table S1. Canonical pathways altered in the synovial fluid of clinical nonresponders at stage I compared with stage II of ACI, identified using Ingenuity Pathway Analysis based on proteins that were identified using iTRAQ proteomics (≥ 1.2-fold change). Significance was assessed using a right-sided Fisher’s exact test; therefore, the most significant canonical pathways represent those that are the least likely to have been identified because of molecules being in the canonical pathway by random chance. The z-score represents canonical pathways that are likely activated or inhibited (based on the pattern of differentially abundant proteins); NaN means no prediction could be made based on the number of differentially abundant proteins in the pathway. Table S2. Canonical pathways altered in the synovial fluid of clinical responders at stage I compared with stage II of ACI, identified using Ingenuity Pathway Analysis, based on proteins which were identified using iTRAQ proteomics (≥ 1.2-fold change). Significance was assessed using a right-sided Fisher’s exact test; therefore, the most significant canonical pathways represent those that are the least likely to have been identified because of molecules being in the canonical pathway by random chance. The z-score represents canonical pathways that are likely activated or inhibited (based on the pattern of differentially abundant proteins); NaN means no prediction could be made based on the number of differentially abundant proteins in the pathway. (XLSX 19 kb)