cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5755698
title: Additional file 3: Table S3. of De novo transcriptome sequencing and analysis of male and female swimming crab (Portunus trituberculatus) reproductive systems during mating embrace (stage II)

description: Different up-regulated and down-regulated genes in reproductive system. (XLS 13119Â kb)
DOI: 10.6084/m9.figshare.5755698.v1
title: Additional file 3: Table S3. of De novo transcriptome sequencing and analysis of male and female swimming crab (Portunus trituberculatus) reproductive systems during mating embrace (stage II)

description: Different up-regulated and down-regulated genes in reproductive system. (XLS 13119Â kb)
DOI: 10.6084/m9.figshare.5755689
title: Additional file 6: of A multi-omics approach reveals function of Secretory Carrier-Associated Membrane Proteins in wood formation of​ ​​Populus​​ ​trees

description: GC-MS metabolomic analysis of wild type and PttSCAMP3 RNAi plants. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.5755689.v1
title: Additional file 6: of A multi-omics approach reveals function of Secretory Carrier-Associated Membrane Proteins in wood formation of​ ​​Populus​​ ​trees

description: GC-MS metabolomic analysis of wild type and PttSCAMP3 RNAi plants. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.5755686
title: Additional file 2: Table S2. of De novo transcriptome sequencing and analysis of male and female swimming crab (Portunus trituberculatus) reproductive systems during mating embrace (stage II)

description: Differentially expressed genes (DEGs) between the ovary and testis. (XLS 1611Â kb)
DOI: 10.6084/m9.figshare.5755686.v1
title: Additional file 2: Table S2. of De novo transcriptome sequencing and analysis of male and female swimming crab (Portunus trituberculatus) reproductive systems during mating embrace (stage II)

description: Differentially expressed genes (DEGs) between the ovary and testis. (XLS 1611Â kb)
DOI: 10.6084/m9.figshare.5755680
title: Additional file 6 of Analysis of the hybrid genomes of two field isolates of the soil-borne fungal species Verticillium longisporum

description: Sequence homology and Pfam domain predictions for genes illustrated in Fig. 1. (XLSX 48 kb)
DOI: 10.6084/m9.figshare.5755680.v1
title: Additional file 6 of Analysis of the hybrid genomes of two field isolates of the soil-borne fungal species Verticillium longisporum

description: Sequence homology and Pfam domain predictions for genes illustrated in Fig. 1. (XLSX 48 kb)
DOI: 10.6084/m9.figshare.5755677
title: Additional file 1: Table S1. of De novo transcriptome sequencing and analysis of male and female swimming crab (Portunus trituberculatus) reproductive systems during mating embrace (stage II)

description: Unigenes were mapped to the reference canonical pathways in KEGG. (XLS 1156Â kb)
DOI: 10.6084/m9.figshare.5755677.v1
title: Additional file 1: Table S1. of De novo transcriptome sequencing and analysis of male and female swimming crab (Portunus trituberculatus) reproductive systems during mating embrace (stage II)

description: Unigenes were mapped to the reference canonical pathways in KEGG. (XLS 1156Â kb)
DOI: 10.6084/m9.figshare.5755668
title: Additional file 5: of A multi-omics approach reveals function of Secretory Carrier-Associated Membrane Proteins in wood formation of​ ​​Populus​​ ​trees

description: LC-MS metabolomic analysis of wild type and PttSCAMP3 RNAi plants. (XLSX 64 kb)
DOI: 10.6084/m9.figshare.5755668.v1
title: Additional file 5: of A multi-omics approach reveals function of Secretory Carrier-Associated Membrane Proteins in wood formation of​ ​​Populus​​ ​trees

description: LC-MS metabolomic analysis of wild type and PttSCAMP3 RNAi plants. (XLSX 64 kb)
DOI: 10.6084/m9.figshare.5755659
title: Additional file 4: of A multi-omics approach reveals function of Secretory Carrier-Associated Membrane Proteins in wood formation of​ ​​Populus​​ ​trees

description: Proteomic analysis of wild type and PttSCAMP3 RNAi plants. 4.1. List of all peptides identified in the proteomic study. Statistical (OnPLS) analysis was done at the peptide level to compare the data from the wild type and the combined data from the three transgenic lines. The statistical analysis on the protein level is based on the p(CORR) values of the cognate peptides. 4.2. List of all proteins identified in the proteomic study on the basis of the cognate unique peptides. The p(CORR) value is a median for the p(CORR) values of the unique peptides corresponding to each of the proteins, and depict statistical significance between the wild type and the transgenic lines. (XLSX 698 kb)
DOI: 10.6084/m9.figshare.5755659.v1
title: Additional file 4: of A multi-omics approach reveals function of Secretory Carrier-Associated Membrane Proteins in wood formation of​ ​​Populus​​ ​trees

description: Proteomic analysis of wild type and PttSCAMP3 RNAi plants. 4.1. List of all peptides identified in the proteomic study. Statistical (OnPLS) analysis was done at the peptide level to compare the data from the wild type and the combined data from the three transgenic lines. The statistical analysis on the protein level is based on the p(CORR) values of the cognate peptides. 4.2. List of all proteins identified in the proteomic study on the basis of the cognate unique peptides. The p(CORR) value is a median for the p(CORR) values of the unique peptides corresponding to each of the proteins, and depict statistical significance between the wild type and the transgenic lines. (XLSX 698 kb)
DOI: 10.6084/m9.figshare.5755641
title: Additional file 3: of A multi-omics approach reveals function of Secretory Carrier-Associated Membrane Proteins in wood formation of​ ​​Populus​​ ​trees

description: RNAseq analysis of wild type and PttSCAMP3 RNAi plants. (XLSX 1841 kb)
DOI: 10.6084/m9.figshare.5755641.v1
title: Additional file 3: of A multi-omics approach reveals function of Secretory Carrier-Associated Membrane Proteins in wood formation of​ ​​Populus​​ ​trees

description: RNAseq analysis of wild type and PttSCAMP3 RNAi plants. (XLSX 1841 kb)
DOI: 10.6084/m9.figshare.5755617
title: Additional file 1: of A multi-omics approach reveals function of Secretory Carrier-Associated Membrane Proteins in wood formation of​ ​​Populus​​ ​trees

description: Coexpression analysis of PttSCAMP3 in AspWood. Closest neighbours of PttSCAMP3 were identified in AspWood database ( http://aspwood.popgenie.org/aspwood-v3.0/ ) using the default settings. (XLSX 21 kb)
DOI: 10.6084/m9.figshare.5755617.v1
title: Additional file 1: of A multi-omics approach reveals function of Secretory Carrier-Associated Membrane Proteins in wood formation of​ ​​Populus​​ ​trees

description: Coexpression analysis of PttSCAMP3 in AspWood. Closest neighbours of PttSCAMP3 were identified in AspWood database ( http://aspwood.popgenie.org/aspwood-v3.0/ ) using the default settings. (XLSX 21 kb)
DOI: 10.6084/m9.figshare.12797468
title: The use of Parmotrema tinctorum (Despr. ex Nyl.) Hale (Parmeliaceae) as a bioindicator of air pollution - Supplementary data

description: Our study, published in Rodriguesia journal, aimed at using the lichen species <i>Parmotrema</i> <i>tinctorum</i> in active air quality biomonitoring. With a new methodology we studied the area of chlorosis in the lichen’s thalli using QGis software. Samples of the aforementioned species were exposed to atmospheric pollution for 30 consecutive days in the dry and rainy seasons in Uberaba municipality, Minas Gerais state, Brazil. The samples were exposed to air pollution in urban (A, B and C points) and industrial landscapes (D point). The chlorosis rate (34% of the lichen thalli, on average) and the accumulation of sulfur (1.1 g.kg<sup>-1</sup>, on average) were higher in the samples of lichens exposed in the industrial region, in the dry season. There was a moderate-to-high positive correlation between chlorosis rate and lichen content of nitrogen, sulfur, iron and zinc, in the dry season, mainly with sulfur (<i>r</i> = 0.71). The results confirmed the sensitive of <i>P. tinctorum </i>to atmospheric pollution, even after a short exposure time. The following files are attached here:<b> </b><b>- Study points</b> - KML file with the geographical location of the points of exposure of the lichen <i>P. tinctorum</i> in Uberaba municipality, Minas Gerais state, Brazil;<b>- Figure 1 -</b> Chlorosis area in lichen thalli of <i>P. tinctorum</i>. A-D: Samples exposed in the dry season at points A, B, C and D, respectively. E-H: Samples exposed during the rainy season at points A, B, C and D, respectively;<b>- Table 1 -</b> Mean values of polluting elements concentration and chlorosis in samples of the lichen <i>P. tinctorum</i> from different points at Uberaba, in the dry and rainy season;<b>- Raw data</b> - Spreadsheets with raw data of chlorosis and concentration of polluting elements in samples of the lichen <i>P. tinctorum</i> from different points at Uberaba, Minas Gerais, Brazil, in the dry and rainy season, and statistical analysis to compare data between study points and between seasons (files are in Excel and CSV formts)..<br><br>
DOI: 10.6084/m9.figshare.12797468.v1
title: The use of Parmotrema tinctorum (Despr. ex Nyl.) Hale (Parmeliaceae) as a bioindicator of air pollution - Supplementary data

description: Our study, published in Rodriguesia journal, aimed at using the lichen species <i>Parmotrema</i> <i>tinctorum</i> in active air quality biomonitoring. With a new methodology we studied the area of chlorosis in the lichen’s thalli using QGis software. Samples of the aforementioned species were exposed to atmospheric pollution for 30 consecutive days in the dry and rainy seasons in Uberaba municipality, Minas Gerais state, Brazil. The samples were exposed to air pollution in urban (A, B and C points) and industrial landscapes (D point). The chlorosis rate (34% of the lichen thalli, on average) and the accumulation of sulfur (1.1 g.kg<sup>-1</sup>, on average) were higher in the samples of lichens exposed in the industrial region, in the dry season. There was a moderate-to-high positive correlation between chlorosis rate and lichen content of nitrogen, sulfur, iron and zinc, in the dry season, mainly with sulfur (<i>r</i> = 0.71). The results confirmed the sensitive of <i>P. tinctorum </i>to atmospheric pollution, even after a short exposure time. The following files are attached here:<b> </b><b>- Study points</b> - KML file with the geographical location of the points of exposure of the lichen <i>P. tinctorum</i> in Uberaba municipality, Minas Gerais state, Brazil;<b>- Figure 1 -</b> Chlorosis area in lichen thalli of <i>P. tinctorum</i>. A-D: Samples exposed in the dry season at points A, B, C and D, respectively. E-H: Samples exposed during the rainy season at points A, B, C and D, respectively;<b>- Table 1 -</b> Mean values of polluting elements concentration and chlorosis in samples of the lichen <i>P. tinctorum</i> from different points at Uberaba, in the dry and rainy season;<b>- Raw data</b> - Spreadsheets with raw data of chlorosis and concentration of polluting elements in samples of the lichen <i>P. tinctorum</i> from different points at Uberaba, Minas Gerais, Brazil, in the dry and rainy season, and statistical analysis to compare data between study points and between seasons (files are in Excel and CSV formts)..<br><br>
DOI: 10.6084/m9.figshare.5755530
title: Additional file 2: Figure S2. of Genotype and biotype of invasive Anopheles stephensi in Mannar Island of Sri Lanka

description: Amino acid sequence variation in cox1 showing the replacement of valine by methionine in the Sri Lankan samples. (RTF 41Â kb)
DOI: 10.6084/m9.figshare.5755530.v1
title: Additional file 2: Figure S2. of Genotype and biotype of invasive Anopheles stephensi in Mannar Island of Sri Lanka

description: Amino acid sequence variation in cox1 showing the replacement of valine by methionine in the Sri Lankan samples. (RTF 41Â kb)
DOI: 10.6084/m9.figshare.5755497
title: Additional file 2: Table S1. of Root lodging is a physical stress that changes gene expression from sucrose accumulation to degradation in sorghum

description: Comparison of expression levels of sorghum genes in intact and lodged stems. Columns show the following, from the left: gene name (gene_id), chromosomal position (locus), average FPKM (fragments per kilobase of exon per million mapped sequence reads) of three intact sorghum plants (fpkm_intact), average FPKM of three lodged sorghum plants (fpkm_lodged), log2 value of fold change from lodged sorghum to intact sorghum (log2_ratio), P-value (p_value), q-value (q_value), and statistical significance (yes/no). (XLSX 2174Â kb)
DOI: 10.6084/m9.figshare.5755497.v1
title: Additional file 2: Table S1. of Root lodging is a physical stress that changes gene expression from sucrose accumulation to degradation in sorghum

description: Comparison of expression levels of sorghum genes in intact and lodged stems. Columns show the following, from the left: gene name (gene_id), chromosomal position (locus), average FPKM (fragments per kilobase of exon per million mapped sequence reads) of three intact sorghum plants (fpkm_intact), average FPKM of three lodged sorghum plants (fpkm_lodged), log2 value of fold change from lodged sorghum to intact sorghum (log2_ratio), P-value (p_value), q-value (q_value), and statistical significance (yes/no). (XLSX 2174Â kb)
DOI: 10.6084/m9.figshare.12749864
title: Arbuscular mycorrhizal fungi moderate changes in plant allometric partitioning and nutrient concentration under elevated atmospheric CO2

description: Data associated with "<i>Arbuscular mycorrhizal fungi moderate changes in plant allometric partitioning and nutrient concentration under elevated atmospheric CO<sub>2</sub></i>"<br>by Adam Frew, Jodi N. Price, Jane Oja, Martti Vasar, Maarja Öpik<br>Files included:- Plant biomass- Plant chemistry- Fungal root colonisation- AMF virtual taxa (VT) table- Meta-data
DOI: 10.6084/m9.figshare.5755404
title: PhyloSift markers database

description: Markers database for PhyloSift<br><br>PhyloSift is a suite of software tools to conduct phylogenetic analysis of genomes and metagenomes.Using a reference database of protein sequences, PhyloSift can scan new sequences against that database for homologs and identify the phylogenetic relationship of the new sequence to the database sequences. During this procedure, high quality alignments of codon and<br>amino acid sequence are generated.Software Download on GitHub: https://github.com/gjospin/PhyloSift<br>
DOI: 10.6084/m9.figshare.5755404.v1
title: PhyloSift markers database

description: Markers database for PhyloSift<br><br>PhyloSift is a suite of software tools to conduct phylogenetic analysis of genomes and metagenomes.Using a reference database of protein sequences, PhyloSift can scan new sequences against that database for homologs and identify the phylogenetic relationship of the new sequence to the database sequences. During this procedure, high quality alignments of codon and<br>amino acid sequence are generated.Software Download on GitHub: https://github.com/gjospin/PhyloSift<br>
DOI: 10.6084/m9.figshare.5755404.v2
title: PhyloSift markers database

description: Markers database for PhyloSift<br><br>PhyloSift is a suite of software tools to conduct phylogenetic analysis of genomes and metagenomes.Using a reference database of protein sequences, PhyloSift can scan new sequences against that database for homologs and identify the phylogenetic relationship of the new sequence to the database sequences. During this procedure, high quality alignments of codon and<br>amino acid sequence are generated.Software Download on GitHub: https://github.com/gjospin/PhyloSift<br>
DOI: 10.6084/m9.figshare.5755395
title: A case of mite-on-mammal ectoparasitism from Eocene Baltic amber (Acari: Prostigmata: Myobiidae and Mammalia: Erinaceomorpha)

description: Tetrapods are rarely recovered from fossil resins, such as amber, and fossils of parasites are even rarer. We describe the first pre-Quaternary co-occurrence of ectoparasitic mites with hairs of their mammalian hosts, preserved in life-like detail from a piece of Eocene (∼ 40 Ma) Baltic amber. The mites, representing the oldest fossils of the family Myobiidae (Acari: Prostigmata: Eleutherengona), are described as <i>Protohylomysobia erinaceophilus</i> Sidorchuk & Bochkov gen. et sp. nov. and belong to the generic group <i>Amorphacarus</i>. Recent members of this group parasitize small-sized insectivores – shrews, moles and gymnures (Mammalia: Eulipotyphla: Soricidae, Talpidae and Erinaceidae: Galericinae). The fossils indicate that the evolution of Myobiidae and their relationships with mammals were well underway by the Eocene. The hairs of the hosts are also described, and are morphologically compared with those of Recent mammals. This comparison suggests an early-derivative member from an array of mammalian groups, and provides clues to its habitus. Our data give a new perspective on a long discussion about the source of mammal hairs in Baltic amber. The combined mite, amber and hair evidence suggest a small, short- and fine-haired member of Amphilemuridae, sister family to hedgehogs, as a host for the mites and the source of at least some of the hairs preserved in Baltic amber. http://zoobank.org/urn:lsid:zoobank.org:pub:FB65DC5F-360E-4594-8153-6A04E732BF37
DOI: 10.6084/m9.figshare.5755395.v1
title: A case of mite-on-mammal ectoparasitism from Eocene Baltic amber (Acari: Prostigmata: Myobiidae and Mammalia: Erinaceomorpha)

description: Tetrapods are rarely recovered from fossil resins, such as amber, and fossils of parasites are even rarer. We describe the first pre-Quaternary co-occurrence of ectoparasitic mites with hairs of their mammalian hosts, preserved in life-like detail from a piece of Eocene (∼ 40 Ma) Baltic amber. The mites, representing the oldest fossils of the family Myobiidae (Acari: Prostigmata: Eleutherengona), are described as <i>Protohylomysobia erinaceophilus</i> Sidorchuk & Bochkov gen. et sp. nov. and belong to the generic group <i>Amorphacarus</i>. Recent members of this group parasitize small-sized insectivores – shrews, moles and gymnures (Mammalia: Eulipotyphla: Soricidae, Talpidae and Erinaceidae: Galericinae). The fossils indicate that the evolution of Myobiidae and their relationships with mammals were well underway by the Eocene. The hairs of the hosts are also described, and are morphologically compared with those of Recent mammals. This comparison suggests an early-derivative member from an array of mammalian groups, and provides clues to its habitus. Our data give a new perspective on a long discussion about the source of mammal hairs in Baltic amber. The combined mite, amber and hair evidence suggest a small, short- and fine-haired member of Amphilemuridae, sister family to hedgehogs, as a host for the mites and the source of at least some of the hairs preserved in Baltic amber. http://zoobank.org/urn:lsid:zoobank.org:pub:FB65DC5F-360E-4594-8153-6A04E732BF37
DOI: 10.6084/m9.figshare.5755377
title: Variability and Stability of Large-Scale Cortical Oscillation Patterns

description: These Matlab variables contain all power and functional connectivity estimates as described in the paper:<br>Cox, R., Schapiro, A.C., Stickgold, R., 2018. Variability and stability of large-scale cortical oscillation patterns. Network Neuroscience 2, 481–512. https://doi.org/10.1162/netn_a_00046<br>See readMe.docx for details.
DOI: 10.6084/m9.figshare.5755377.v1
title: Variability and Stability of Large-Scale Cortical Oscillation Patterns

description: These Matlab variables contain all power and functional connectivity estimates as described in the paper:<br>Cox, R., Schapiro, A.C., Stickgold, R., 2018. Variability and stability of large-scale cortical oscillation patterns. Network Neuroscience 2, 481–512. https://doi.org/10.1162/netn_a_00046<br>See readMe.docx for details.
DOI: 10.6084/m9.figshare.5755353
title: Shared keywords and shared publication journals of converging technologies

description: This is the appendix of a paper submitted to Scientometrics. It includes some of the data (shared keywords and shared publication journals) for the converging technologies including nanotechnology, biotechnology, information technology and cognitive sciences (NBIC). <br>Jamlai, H.R., Azadi-Ahamadabadi, G., & Asadi, S. Interdisciplinary relations of converging technologies: Nano-Bio-Info-Cogno (NBIC), submitted to Scientometrics<br>
DOI: 10.6084/m9.figshare.5755353.v1
title: Shared keywords and shared publication journals of converging technologies

description: This is the appendix of a paper submitted to Scientometrics. It includes some of the data (shared keywords and shared publication journals) for the converging technologies including nanotechnology, biotechnology, information technology and cognitive sciences (NBIC). <br>Jamlai, H.R., Azadi-Ahamadabadi, G., & Asadi, S. Interdisciplinary relations of converging technologies: Nano-Bio-Info-Cogno (NBIC), submitted to Scientometrics<br>
DOI: 10.6084/m9.figshare.5755317
title: Power (source level)

description: <br>DFA (source level)03.01.2018, 20:27 by Thomas PfefferThis .mat file contains all source-level power estimates necessary to reproduce the main figures. The matrix has the following dimensions: 3000 x 3 x 28 x 2 x 2, where the different dimensions have the following meaning:<br><b>dim1:</b> 3000 voxel locations<b>dim2:</b> pharmacological sessions, where 1 = placebo, 2 = atomoxetine and 3 = donepezil<b>dim3:</b> 28 healthy human participants<b>dim4:</b> 2 frequency bands, where 1 = 2-12 Hz and 2 = 8 - 12 Hz<b>dim5:</b> 2 behavioral conditions, where 1 = Fixation and 2 = Task-counting
DOI: 10.6084/m9.figshare.5755317.v1
title: Power (source level)

description: <br>DFA (source level)03.01.2018, 20:27 by Thomas PfefferThis .mat file contains all source-level power estimates necessary to reproduce the main figures. The matrix has the following dimensions: 3000 x 3 x 28 x 2 x 2, where the different dimensions have the following meaning:<br><b>dim1:</b> 3000 voxel locations<b>dim2:</b> pharmacological sessions, where 1 = placebo, 2 = atomoxetine and 3 = donepezil<b>dim3:</b> 28 healthy human participants<b>dim4:</b> 2 frequency bands, where 1 = 2-12 Hz and 2 = 8 - 12 Hz<b>dim5:</b> 2 behavioral conditions, where 1 = Fixation and 2 = Task-counting
DOI: 10.6084/m9.figshare.5755311
title: DFA (source level)

description: This .mat file contains all source-level DFA estimates necessary to reproduce the main figures. The matrix has the following dimensions: 3000 x 3 x 28 x 2 x 2, where the different dimensions have the following meaning: <br><b>dim1:</b> 3000 voxel locations<b>dim2:</b> pharmacological sessions, where 1 = placebo, 2 = atomoxetine and 3 = donepezil<b>dim3:</b> 28 healthy human participants<b>dim4:</b> 2 frequency bands, where 1 = 2-12 Hz and 2 = 8 - 12 Hz<b>dim5:</b> 2 behavioral conditions, where 1 = Fixation and 2 = Task-counting<br><br>
DOI: 10.6084/m9.figshare.5755311.v1
title: DFA (source level)

description: This .mat file contains all source-level DFA estimates necessary to reproduce the main figures. The matrix has the following dimensions: 3000 x 3 x 28 x 2 x 2, where the different dimensions have the following meaning: <br><b>dim1:</b> 3000 voxel locations<b>dim2:</b> pharmacological sessions, where 1 = placebo, 2 = atomoxetine and 3 = donepezil<b>dim3:</b> 28 healthy human participants<b>dim4:</b> 2 frequency bands, where 1 = 2-12 Hz and 2 = 8 - 12 Hz<b>dim5:</b> 2 behavioral conditions, where 1 = Fixation and 2 = Task-counting<br><br>