cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.9838679.v1
title: Additional file 3: of A purely bioinformatic pipeline for the prediction of mammalian odorant receptor gene enhancers

description: Detailed information about locus composition at various threshold distances. Text files (.txt) detailing on locus composition, at a given threshold distance (in Mb), for different gene lists. File names are composed by list type (either: main olfactory epithelium, MOE; olfactome; vomeronasal organ, VNO; T-cell receptor genes, “t_cell_receptor”), species and threshold value (periods in numerical values being replaced by underscores, “_”). A “NO-PSEUDO” at the beginning of the file name indicates that the gene list originating the file is devoid of pseudogene-flagged entries. Clusters are presented from the richest (in terms of number of genes) to miniclusters; for each locus, the average intergenic distance (in Kb) is reported. Solitary genes are listed after clusters. Text files are provided as a single compressed (.zip) file available in the Open Science Framework repository, see paragraph “Availability of data and material”. (ZIP 719 kb)
DOI: 10.6084/m9.figshare.9838646
title: Additional file 5: of Transcriptional regulation of stilbene synthases in grapevine germplasm differentially susceptible to downy mildew

description: Figure S2. Heat maps of the relative expression levels of the whole set of the Vitis vinifera stilbene synthase genes (VvSTS) in the leaves of the nine grapevine genotypes of Fig. 1 collected up to 72â h after inoculation with Plasmopara viticola. The letter denoting the phylogenetic group to which each gene belongs is given in parentheses. For each gene, relative expression levels were calculated by setting a value of 1 for the lowest value among the nine genotypes in each of the five time points considered. Normalization and sample replication as in Fig. 3. For each gene, the differences in the relative expression levels were shown in color according to the scale and statistical evaluation of the differences among the nine grapevine genotypes and among the five sampling times is reported in Table S6. (ZIP 3113 kb)
DOI: 10.6084/m9.figshare.9838646.v1
title: Additional file 5: of Transcriptional regulation of stilbene synthases in grapevine germplasm differentially susceptible to downy mildew

description: Figure S2. Heat maps of the relative expression levels of the whole set of the Vitis vinifera stilbene synthase genes (VvSTS) in the leaves of the nine grapevine genotypes of Fig. 1 collected up to 72â h after inoculation with Plasmopara viticola. The letter denoting the phylogenetic group to which each gene belongs is given in parentheses. For each gene, relative expression levels were calculated by setting a value of 1 for the lowest value among the nine genotypes in each of the five time points considered. Normalization and sample replication as in Fig. 3. For each gene, the differences in the relative expression levels were shown in color according to the scale and statistical evaluation of the differences among the nine grapevine genotypes and among the five sampling times is reported in Table S6. (ZIP 3113 kb)
DOI: 10.6084/m9.figshare.9838625
title: Additional file 3 of A multiscale mathematical model of cell dynamics during neurogenesis in the mouse cerebral cortex

description: Cell counts. Values in columns D, E and H correspond to the dots in Fig. 3g, f and h. Lines labeled with Ctrl correspond to wild type (WT) in blue and Ftm-/- to (KO) mutant in red. Points at a given age correspond to different embryos, from up to two different litters. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.9838625.v1
title: Additional file 3 of A multiscale mathematical model of cell dynamics during neurogenesis in the mouse cerebral cortex

description: Cell counts. Values in columns D, E and H correspond to the dots in Fig. 3g, f and h. Lines labeled with Ctrl correspond to wild type (WT) in blue and Ftm-/- to (KO) mutant in red. Points at a given age correspond to different embryos, from up to two different litters. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.9838601
title: Additional file 3: of A rare case of Colistin-resistant Salmonella Enteritidis meningitis in an HIV-seropositive patient

description: Metadata of isolates used for phylogenetic tree Fig. 2B (XLSX 556 kb)
DOI: 10.6084/m9.figshare.9838601.v1
title: Additional file 3: of A rare case of Colistin-resistant Salmonella Enteritidis meningitis in an HIV-seropositive patient

description: Metadata of isolates used for phylogenetic tree Fig. 2B (XLSX 556 kb)
DOI: 10.6084/m9.figshare.9838589
title: Additional file 2: of A rare case of Colistin-resistant Salmonella Enteritidis meningitis in an HIV-seropositive patient

description: Metadata of isolates used for phylogenetic tree Fig. 2A (XLSX 545 kb)
DOI: 10.6084/m9.figshare.9838589.v1
title: Additional file 2: of A rare case of Colistin-resistant Salmonella Enteritidis meningitis in an HIV-seropositive patient

description: Metadata of isolates used for phylogenetic tree Fig. 2A (XLSX 545 kb)
DOI: 10.6084/m9.figshare.9838511
title: Additional file 2: of Effect of play-based family-centered psychomotor/psychosocial stimulation on the development of severely acutely malnourished children under six in a low-income setting: a randomized controlled trial

description: Dataset file. (CSV 466 kb)
DOI: 10.6084/m9.figshare.9838511.v1
title: Additional file 2: of Effect of play-based family-centered psychomotor/psychosocial stimulation on the development of severely acutely malnourished children under six in a low-income setting: a randomized controlled trial

description: Dataset file. (CSV 466 kb)
DOI: 10.6084/m9.figshare.9838469
title: Additional file 3: of Utilization of high-fidelity simulation to address challenges with the basic science immunology education of preclinical medical students

description: Simulation Likert Evaluation Raw Data. Raw data for Likert Post Simulation Evaluation Data is organized in columns corresponding to each of the 4 items assessed and scaled 1â 5. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.9838472
title: Additional file 4: of Utilization of high-fidelity simulation to address challenges with the basic science immunology education of preclinical medical students

description: OSCE Raw Scores for Pre and Post Simulation Cohorts. Raw scores on the OSCE question Data is arranged by pre-simulation and post-simulation cohorts of students. Scores may range from 1 to 12 points. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.9838469.v1
title: Additional file 3: of Utilization of high-fidelity simulation to address challenges with the basic science immunology education of preclinical medical students

description: Simulation Likert Evaluation Raw Data. Raw data for Likert Post Simulation Evaluation Data is organized in columns corresponding to each of the 4 items assessed and scaled 1â 5. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.9838472.v1
title: Additional file 4: of Utilization of high-fidelity simulation to address challenges with the basic science immunology education of preclinical medical students

description: OSCE Raw Scores for Pre and Post Simulation Cohorts. Raw scores on the OSCE question Data is arranged by pre-simulation and post-simulation cohorts of students. Scores may range from 1 to 12 points. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.9838301
title: Diversity score data

description: Clustering data, used for computing diversity score in 'cluster_mouse_tissue_downstream.ipynb'
DOI: 10.6084/m9.figshare.9832523
title: Interviews with Pakistani Journalists.pdf

description: This study utilised Semi-structured qualitative interviews to seek journalists’ opinions, thoughts, ideas, and attitudes about Pakistan’s current media situation. The journalists are selected based on the diversity in their experiences; They agreed for the interview after emails were sent regarding the purpose of research. Since the respondents are knowledgeable about the media system, media policy and the state’s role in the media, they will help provide a better understanding of the media environment in Pakistan. After the respondents were purposively selected, the interviewer travelled to different news offices in Lahore, Pakistan, where face-to-face interviews were carried out on three different days in April 2017. The conducted interviews guaranteed the anonymity of the respondents. To be sure that the information gathered during the interview is accurate, interview protocols were adopted. All the interviews were recorded and transcribed later on to investigate Pakistani media and answer the resrach questions: 1. What is the role of the state in media regulation in Pakistan?2. How the media theories and systems of Western journalism are different when compared to Pakistan?3. Is the universal requirement for freedom of speech being applied in Pakistan?
DOI: 10.6084/m9.figshare.9832010
title: Cloud condensation nuclei and aerosol size distributions data in Nanjing, China, 2019

description: From June 30 to July 4, 2019, 4-day continuous observations to simultaneously measure the number concentration of Cloud condensation nuclei and aerosol size distributions in the range from 10 to 10<sup>4</sup> nm in Nanjing, China. See details in Readme.<br>
DOI: 10.6084/m9.figshare.9832319
title: The role of açaí (Euterpe oleracea Mart. 1824) as a chemoprotective agent in the evaluation of antioxidant defense, oxidative damage and histology of juvenile shrimp Litopenaeus vannamei (BOONE, 1931) exposed to ammoniatled Item

description: Lyophilized pulp of Amazonian fruit "açaí" Euterpe olaracea was included in the feed of shrimp Litopenaeus vannamei to mitigate toxic effects of ammonia
DOI: 10.6084/m9.figshare.9832523.v1
title: Interviews with Pakistani Journalists.pdf

description: This study utilised Semi-structured qualitative interviews to seek journalists’ opinions, thoughts, ideas, and attitudes about Pakistan’s current media situation. The journalists are selected based on the diversity in their experiences; They agreed for the interview after emails were sent regarding the purpose of research. Since the respondents are knowledgeable about the media system, media policy and the state’s role in the media, they will help provide a better understanding of the media environment in Pakistan. After the respondents were purposively selected, the interviewer travelled to different news offices in Lahore, Pakistan, where face-to-face interviews were carried out on three different days in April 2017. The conducted interviews guaranteed the anonymity of the respondents. To be sure that the information gathered during the interview is accurate, interview protocols were adopted. All the interviews were recorded and transcribed later on to investigate Pakistani media and answer the resrach questions: 1. What is the role of the state in media regulation in Pakistan?2. How the media theories and systems of Western journalism are different when compared to Pakistan?3. Is the universal requirement for freedom of speech being applied in Pakistan?
DOI: 10.6084/m9.figshare.9832319.v1
title: The role of açaí (Euterpe oleracea Mart. 1824) as a chemoprotective agent in the evaluation of antioxidant defense, oxidative damage and histology of juvenile shrimp Litopenaeus vannamei (BOONE, 1931) exposed to ammoniatled Item

description: Lyophilized pulp of Amazonian fruit "açaí" Euterpe olaracea was included in the feed of shrimp Litopenaeus vannamei to mitigate toxic effects of ammonia
DOI: 10.6084/m9.figshare.9832010.v1
title: Cloud condensation nuclei and aerosol size distributions data in Nanjing, China, 2019

description: From June 30 to July 4, 2019, 4-day continuous observations to simultaneously measure the number concentration of CCN (<i>N<sub>CCN</sub></i>) and aerosol size distributions in the range from 10 to 10<sup>4</sup> nm in Nanjing, China.<br>
DOI: 10.6084/m9.figshare.9832010.v3
title: Cloud condensation nuclei and aerosol size distributions data in Nanjing, China, 2019

description: From June 30 to July 4, 2019, 4-day continuous observations to simultaneously measure the number concentration of Cloud condensation nuclei and aerosol size distributions in the range from 10 to 10<sup>4</sup> nm in Nanjing, China. See details in Readme.<br>
DOI: 10.6084/m9.figshare.9832010.v2
title: Cloud condensation nuclei and aerosol size distributions data in Nanjing, China, 2019

description: From June 30 to July 4, 2019, 4-day continuous observations to simultaneously measure the number concentration of Cloud condensation nuclei and aerosol size distributions in the range from 10 to 10<sup>4</sup> nm in Nanjing, China. See details in Readme.<br>
DOI: 10.17608/k6.auckland.9831071
title: Data Enhanced Tact Acquisition

description: Acquisition data tacts.
DOI: 10.6084/m9.figshare.9831053
title: Aboveground resource allocation in response to root herbivory is enhanced by the arbuscular mycorrhizal symbiosis

description: Data associated with this publication are separated into seven files- Treatments (meta-data)<br>- Plant biomass data- Plant root chemistry- Plant leaf chemistry- Mycorrhizal colonisation- Insect performance- Photosynthesis
DOI: 10.17608/k6.auckland.9831071.v1
title: Data Enhanced Tact Acquisition

description: Acquisition data tacts.
DOI: 10.6084/m9.figshare.9830954
title: Table 3.doc

description: <b>Genome Assembly statistics</b>
DOI: 10.6084/m9.figshare.9830987
title: Data deposit for JGR Biogeosciences: different responses and links of N:P ratio among ecosystem components under nutrient addition in a temperate forest.xlsx

description: Data for N and P concentrations of different components in a temperate forest of Changbai Mountain in China under N and P addtion
DOI: 10.6084/m9.figshare.9830945
title: Appendix 2 R Code from Background noise disrupts host–parasitoid interactions

description: Code for analyses within the paper
DOI: 10.6084/m9.figshare.9830954.v1
title: Table 3.doc

description: <b>Genome Assembly statistics</b>
DOI: 10.6084/m9.figshare.9830945.v1
title: Appendix 2 R Code from Background noise disrupts host–parasitoid interactions

description: Code for analyses within the paper
DOI: 10.6084/m9.figshare.9830942
title: Appendix 1 from Background noise disrupts host–parasitoid interactions

description: Raw data
DOI: 10.6084/m9.figshare.9830942.v1
title: Appendix 1 from Background noise disrupts host–parasitoid interactions

description: Raw data
DOI: 10.6084/m9.figshare.9830987.v1
title: Data deposit for JGR Biogeosciences: different responses and links of N:P ratio among ecosystem components under nutrient addition in a temperate forest.xlsx

description: Data for N and P concentrations of different components in a temperate forest of Changbai Mountain in China
DOI: 10.6084/m9.figshare.9830987.v2
title: Data deposit for JGR Biogeosciences: different responses and links of N:P ratio among ecosystem components under nutrient addition in a temperate forest.xlsx

description: Data for N and P concentrations of different components in a temperate forest of Changbai Mountain in China under N and P addtion
DOI: 10.6084/m9.figshare.9830867
title: Identification and Characterization of Two New S-Adenosylmethionine-Dependent Methyltransferase Encoding Genes Suggested Their Involvement in Stipe Elongation of <i>Flammulina velutipes</i>

description: Two new SAM-dependent methyltransferase encoding genes (<i>fvsmt1</i> and <i>fvsmt2</i>) were identified from the genome of <i>Flammulina velutipes</i>. In order to make a comprehensive characterization of both genes, we performed <i>in silico</i> analysis of both genes and used qRT-PCR to reveal their expression patterns during the development of <i>F. velutipes</i>. There are 4 and 6 exons with total length of 693 and 978 bp in <i>fvsmt2</i> and <i>fvsmt1</i>, respectively. The deduced proteins, i.e., FVSMT1 and FVSMT2 contained 325 and 230 amino acids with molecular weight 36297 and 24894 Da, respectively. Both proteins contained a SAM-dependent catalytic domain with signature motifs (I, p-I, II, and III) defining the SAM fold. SAM-dependent catalytic domain is located either in the middle or at the N-terminal of FVSMT2 and FVSMT1, respectively. Alignment and phylogenic analysis showed that FVSMT1 is a homolog to a protein–arginine omega-<i>N</i>-methyltransferase, while FVSMT2 is of cinnamoyl CoA <i>O</i>-methyltransferase type and predicted subcellular locations of these proteins are mitochondria and cytoplasm, respectively. qRT-PCR showed that <i>fvsmt1</i> and <i>fvsmt2</i> expression was regulated in different developmental stages. The maximum expression levels of <i>fvsmt1</i> and <i>fvsmt2</i> were observed in stipe elongation, while no difference was found in mycelium and pileus. These results positively demonstrate that both the methyltransferase encoding genes are involved in the stipe elongation of <i>F. velutipes</i>.
DOI: 10.6084/m9.figshare.9830987.v4
title: Data deposit for JGR Biogeosciences: different responses and links of N:P ratio among ecosystem components under nutrient addition in a temperate forest.xlsx

description: Data for N and P concentrations of different components in a temperate forest of Changbai Mountain in China under N and P addtion
DOI: 10.6084/m9.figshare.9830867.v1
title: Identification and Characterization of Two New S-Adenosylmethionine-Dependent Methyltransferase Encoding Genes Suggested Their Involvement in Stipe Elongation of <i>Flammulina velutipes</i>

description: Two new SAM-dependent methyltransferase encoding genes (<i>fvsmt1</i> and <i>fvsmt2</i>) were identified from the genome of <i>Flammulina velutipes</i>. In order to make a comprehensive characterization of both genes, we performed <i>in silico</i> analysis of both genes and used qRT-PCR to reveal their expression patterns during the development of <i>F. velutipes</i>. There are 4 and 6 exons with total length of 693 and 978 bp in <i>fvsmt2</i> and <i>fvsmt1</i>, respectively. The deduced proteins, i.e., FVSMT1 and FVSMT2 contained 325 and 230 amino acids with molecular weight 36297 and 24894 Da, respectively. Both proteins contained a SAM-dependent catalytic domain with signature motifs (I, p-I, II, and III) defining the SAM fold. SAM-dependent catalytic domain is located either in the middle or at the N-terminal of FVSMT2 and FVSMT1, respectively. Alignment and phylogenic analysis showed that FVSMT1 is a homolog to a protein–arginine omega-<i>N</i>-methyltransferase, while FVSMT2 is of cinnamoyl CoA <i>O</i>-methyltransferase type and predicted subcellular locations of these proteins are mitochondria and cytoplasm, respectively. qRT-PCR showed that <i>fvsmt1</i> and <i>fvsmt2</i> expression was regulated in different developmental stages. The maximum expression levels of <i>fvsmt1</i> and <i>fvsmt2</i> were observed in stipe elongation, while no difference was found in mycelium and pileus. These results positively demonstrate that both the methyltransferase encoding genes are involved in the stipe elongation of <i>F. velutipes</i>.
DOI: 10.6084/m9.figshare.9830987.v3
title: Data deposit for JGR Biogeosciences: different responses and links of N:P ratio among ecosystem components under nutrient addition in a temperate forest.xlsx

description: Data for N and P concentrations of different components in a temperate forest of Changbai Mountain in China under N and P addtion
DOI: 10.6084/m9.figshare.9830816
title: palette_final.R from Distinct colours in the ‘synesthetic colour palette’

description: code to generate all statistics and all Figures (R)
DOI: 10.6084/m9.figshare.9830819
title: dat_palette.RDs from Distinct colours in the ‘synesthetic colour palette’

description: syn and non-syn data (R datafile)
DOI: 10.6084/m9.figshare.9830819.v1
title: dat_palette.RDs from Distinct colours in the ‘synesthetic colour palette’

description: syn and non-syn data (R datafile)
DOI: 10.6084/m9.figshare.9830810
title: dat_palette_bwg_instr.RDs from Distinct colours in the ‘synesthetic colour palette’

description: In grapheme-colour synesthesia, particular linguistic elements evoke particular colour sensations. Interestingly, when asked, non-synesthetes can also associate colours to letters, and previous studies show that specific letter-to-colour associations have similar biases to those of synesthetes. However, it is an open question whether the colours reported by synesthetes and non-synesthetes differ <i>overall</i>: is there a ‘synesthetic colour palette’? In this study, we visualize the overall distribution in colour space of colour concurrents in grapheme-colour synesthetes, and colour associations in non-synesthetic controls. We confirm the existence of a synesthetic colour palette: colour concurrents in synesthetes are different from colour associations in non-synesthetes. We quantify three factors that distinguish the colour palette of synesthetes and non-synesthetes: synesthetes have an increased over-representation of ‘pure’ (unmixed) hues, an increased presence of ‘warm’ (yellow-orange-brown) colours, and an increased presence of achromatic (grey, white, black) colours. Furthermore, we demonstrate that differences in the synesthetic colour palette can be used to train a machine learning algorithm to reliably classify single subjects as synesthetes versus non-synesthetes without using test–retest consistency. As far as we know, this is the first time an individual could be ‘diagnosed’ as synesthete, based only on his or her colours evoked by letters.This article is part of the discussion meeting issue ‘Bridging senses: new developments in synaesthesia’.
DOI: 10.6084/m9.figshare.9830807
title: dat_random_CIELuv.RDs from Distinct colours in the ‘synesthetic colour palette’

description: uniform sample in CIELuv (R datafile)
DOI: 10.6084/m9.figshare.9830813
title: dat_random...anSim.RDs from Distinct colours in the ‘synesthetic colour palette’

description: Simulation of random Eagleman color picking (R)
DOI: 10.6084/m9.figshare.9830810.v1
title: dat_palette_bwg_instr.RDs from Distinct colours in the ‘synesthetic colour palette’

description: In grapheme-colour synesthesia, particular linguistic elements evoke particular colour sensations. Interestingly, when asked, non-synesthetes can also associate colours to letters, and previous studies show that specific letter-to-colour associations have similar biases to those of synesthetes. However, it is an open question whether the colours reported by synesthetes and non-synesthetes differ <i>overall</i>: is there a ‘synesthetic colour palette’? In this study, we visualize the overall distribution in colour space of colour concurrents in grapheme-colour synesthetes, and colour associations in non-synesthetic controls. We confirm the existence of a synesthetic colour palette: colour concurrents in synesthetes are different from colour associations in non-synesthetes. We quantify three factors that distinguish the colour palette of synesthetes and non-synesthetes: synesthetes have an increased over-representation of ‘pure’ (unmixed) hues, an increased presence of ‘warm’ (yellow-orange-brown) colours, and an increased presence of achromatic (grey, white, black) colours. Furthermore, we demonstrate that differences in the synesthetic colour palette can be used to train a machine learning algorithm to reliably classify single subjects as synesthetes versus non-synesthetes without using test–retest consistency. As far as we know, this is the first time an individual could be ‘diagnosed’ as synesthete, based only on his or her colours evoked by letters.This article is part of the discussion meeting issue ‘Bridging senses: new developments in synaesthesia’.
DOI: 10.6084/m9.figshare.9830807.v1
title: dat_random_CIELuv.RDs from Distinct colours in the ‘synesthetic colour palette’

description: uniform sample in CIELuv (R datafile)