cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6164540.v1
title: MOESM2 of Novel functional variants at the GWAS-implicated loci might confer risk to major depressive disorder, bipolar affective disorder and schizophrenia

description: Additional file 2. Contains the Tables S1–S5, as listed below: Table S1. (The identified rSNPs) contains the IDs and information on the totalled regulatory variants identified in the study. Table S2. (The rSNPs that were found associated with cognitive disorders) contains the data on the identified regulatory variants that fell within the − 10,000 to + 10,000 bp window around GWAS-implicated SNPs for analyzed traits related to cognition and cognitive disorders. Table S3. (The list of genes in GeneMANIA query) contains the totalled annotation of the targeted genes and their interactors by GeneMANIA. Table S4. (The interactions within the targeted gene list by GeneMANIA) contains the information on the composite functional gene–gene interactions between the targeted genes and the genes most related to the original targeted list by GeneMANIA. Table S5. (Functional annotation of targeted genes) contains DAVID results for targeted genes and their potential interaction partners by GeneMANIA.
DOI: 10.6084/m9.figshare.6164531
title: MOESM1 of Novel functional variants at the GWAS-implicated loci might confer risk to major depressive disorder, bipolar affective disorder and schizophrenia

description: Additional file 1. Contains the accession list 1 with the accession numbers for utilized ChIP-Seq datasets (by NCBI archive).
DOI: 10.6084/m9.figshare.6164531.v1
title: MOESM1 of Novel functional variants at the GWAS-implicated loci might confer risk to major depressive disorder, bipolar affective disorder and schizophrenia

description: Additional file 1. Contains the accession list 1 with the accession numbers for utilized ChIP-Seq datasets (by NCBI archive).
DOI: 10.6084/m9.figshare.6164507
title: Additional file 6: of Indel detection from DNA and RNA sequencing data with transIndel

description: Table S2. FoxA1 deletion detection by different methods from TCGA whole exome sequencing data. (XLSX 40Â kb)
DOI: 10.6084/m9.figshare.6164507.v1
title: Additional file 6: of Indel detection from DNA and RNA sequencing data with transIndel

description: Table S2. FoxA1 deletion detection by different methods from TCGA whole exome sequencing data. (XLSX 40Â kb)
DOI: 10.6084/m9.figshare.6164501
title: Additional file 24: of Assessing the benefits of horizontal gene transfer by laboratory evolution and genome sequencing

description: Excel file S2. List of de novo mutations in coding regions found in sequenced clones isolated from butyric acid evolved populations. The coordinates of mutations are given in E. coli W reference genome coordinates (sheet 1) (In ' Re c Y X $$ \operatorname{Re}{\mathrm{c}}_{\mathrm{Y}}^{\mathrm{X}} $$ ', X refers to the DNA donor identity, and Y refers to the recipient identity). Mutations are annotated according to the amino acid change they cause in the encoded polypeptide sequence. Specifically, the left first three-letter abbreviation denotes the original amino acid, the following number indicates its location, and the right abbreviation denotes the substituted amino acid. ‘fs’ denotes frameshift mutations, ‘del’ denotes a deletion, and ‘*’ denotes a stop-gain mutation. We did not observed any mutations in transferred genes from the B donors in the Re c W B $$ \operatorname{Re}{\mathrm{c}}_{\mathrm{W}}^{\mathrm{B}} $$ or K donors in the Re c W K $$ \operatorname{Re}{\mathrm{c}}_{\mathrm{W}}^{\mathrm{K}} $$ clones. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.6164501.v1
title: Additional file 24: of Assessing the benefits of horizontal gene transfer by laboratory evolution and genome sequencing

description: Excel file S2. List of de novo mutations in coding regions found in sequenced clones isolated from butyric acid evolved populations. The coordinates of mutations are given in E. coli W reference genome coordinates (sheet 1) (In ' Re c Y X $$ \operatorname{Re}{\mathrm{c}}_{\mathrm{Y}}^{\mathrm{X}} $$ ', X refers to the DNA donor identity, and Y refers to the recipient identity). Mutations are annotated according to the amino acid change they cause in the encoded polypeptide sequence. Specifically, the left first three-letter abbreviation denotes the original amino acid, the following number indicates its location, and the right abbreviation denotes the substituted amino acid. ‘fs’ denotes frameshift mutations, ‘del’ denotes a deletion, and ‘*’ denotes a stop-gain mutation. We did not observed any mutations in transferred genes from the B donors in the Re c W B $$ \operatorname{Re}{\mathrm{c}}_{\mathrm{W}}^{\mathrm{B}} $$ or K donors in the Re c W K $$ \operatorname{Re}{\mathrm{c}}_{\mathrm{W}}^{\mathrm{K}} $$ clones. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.6164474
title: Additional file 4: of Indel detection from DNA and RNA sequencing data with transIndel

description: Table S1. Summary of deletions in AR detected by transIndel. (XLSX 37Â kb)
DOI: 10.6084/m9.figshare.6164474.v1
title: Additional file 4: of Indel detection from DNA and RNA sequencing data with transIndel

description: Table S1. Summary of deletions in AR detected by transIndel. (XLSX 37Â kb)
DOI: 10.6084/m9.figshare.6164456
title: Additional file 7: of Shape variation and modularity of skull and teeth in domesticated horses and wild equids

description: TpsDig output for 2) upper third molar, 3) upper second premolar, 4) lower third molar, and 5) lower second premolar for all specimens used in this study including two-dimensional landmark data (raw coordinates) and identifier (image name); for details see Additional file 1. (TXT 12 kb)
DOI: 10.6084/m9.figshare.6164456.v1
title: Additional file 7: of Shape variation and modularity of skull and teeth in domesticated horses and wild equids

description: TpsDig output for 2) upper third molar, 3) upper second premolar, 4) lower third molar, and 5) lower second premolar for all specimens used in this study including two-dimensional landmark data (raw coordinates) and identifier (image name); for details see Additional file 1. (TXT 12 kb)
DOI: 10.6084/m9.figshare.6164435
title: Additional file 6: of Shape variation and modularity of skull and teeth in domesticated horses and wild equids

description: TpsDig output for 2) upper third molar, 3) upper second premolar, 4) lower third molar, and 5) lower second premolar for all specimens used in this study including two-dimensional landmark data (raw coordinates) and identifier (image name); for details see Additional file 1. (TXT 12 kb)
DOI: 10.6084/m9.figshare.6164432
title: MOESM1 of Effect of laser Doppler flowmetry and occlusion time on outcome variability and mortality in rat middle cerebral artery occlusion: inconclusive results

description: Additional file 1. Data on which â Effect of laser Doppler flowmetry and occlusion time on outcome variability and mortality in rat middle cerebral artery occlusion: inconclusive resultsâ was based on.
DOI: 10.6084/m9.figshare.6164435.v1
title: Additional file 6: of Shape variation and modularity of skull and teeth in domesticated horses and wild equids

description: TpsDig output for 2) upper third molar, 3) upper second premolar, 4) lower third molar, and 5) lower second premolar for all specimens used in this study including two-dimensional landmark data (raw coordinates) and identifier (image name); for details see Additional file 1. (TXT 12 kb)
DOI: 10.6084/m9.figshare.6164432.v1
title: MOESM1 of Effect of laser Doppler flowmetry and occlusion time on outcome variability and mortality in rat middle cerebral artery occlusion: inconclusive results

description: Additional file 1. Data on which â Effect of laser Doppler flowmetry and occlusion time on outcome variability and mortality in rat middle cerebral artery occlusion: inconclusive resultsâ was based on.
DOI: 10.6084/m9.figshare.6164414
title: Additional file 5: of Shape variation and modularity of skull and teeth in domesticated horses and wild equids

description: TpsDig output for 2) upper third molar, 3) upper second premolar, 4) lower third molar, and 5) lower second premolar for all specimens used in this study including two-dimensional landmark data (raw coordinates) and identifier (image name); for details see Additional file 1. (TXT 12 kb)
DOI: 10.6084/m9.figshare.6164414.v1
title: Additional file 5: of Shape variation and modularity of skull and teeth in domesticated horses and wild equids

description: TpsDig output for 2) upper third molar, 3) upper second premolar, 4) lower third molar, and 5) lower second premolar for all specimens used in this study including two-dimensional landmark data (raw coordinates) and identifier (image name); for details see Additional file 1. (TXT 12 kb)
DOI: 10.6084/m9.figshare.6164411
title: Additional file 1: of Indel detection from DNA and RNA sequencing data with transIndel

description: Dataset S1. List of cancer related genes. (XLSX 92Â kb)
DOI: 10.6084/m9.figshare.6164411.v1
title: Additional file 1: of Indel detection from DNA and RNA sequencing data with transIndel

description: Dataset S1. List of cancer related genes. (XLSX 92Â kb)
DOI: 10.6084/m9.figshare.6164399
title: Additional file 4: of Shape variation and modularity of skull and teeth in domesticated horses and wild equids

description: TpsDig output for 2) upper third molar, 3) upper second premolar, 4) lower third molar, and 5) lower second premolar for all specimens used in this study including two-dimensional landmark data (raw coordinates) and identifier (image name); for details see Additional file 1. (TXT 13 kb)
DOI: 10.6084/m9.figshare.6164399.v1
title: Additional file 4: of Shape variation and modularity of skull and teeth in domesticated horses and wild equids

description: TpsDig output for 2) upper third molar, 3) upper second premolar, 4) lower third molar, and 5) lower second premolar for all specimens used in this study including two-dimensional landmark data (raw coordinates) and identifier (image name); for details see Additional file 1. (TXT 13 kb)
DOI: 10.6084/m9.figshare.6164378
title: Additional file 3: of Shape variation and modularity of skull and teeth in domesticated horses and wild equids

description: Raw data for crania and mandibles for all specimens used in this study including three-dimensional landmark data (raw coordinates) and identifier; ID_String is the individual combination including all information: Museum (A = Argentina, B = Berlin, H = Halle, K = Kiel, V = Vienna), ID (identifier used at the museum), group (H = horse, D = donkey, P = Przewalski’s, Z = zebra), breed (aaa = not a domesticated horse, ahb = Ancient Breed (Roman period), ano = Anglo-Norman, arb = Arab, bif = Birkenfelder, blg = Belgian Draft, bos = Bosnian Pony, cds = Clydesdale, exm = Exmoor Pony, fab = Falabella, gbh = Galician Farm Horse, grb = Grisons (Graubündner), grp = German Riding Pony, han = Hannoverian, hny = Hackney, hol = Holstein, hun = Hungarian, huz = Huzule, ice = Icelandic Horse, ind = Indian Pony, kdr = Kladrubian, kon = Konik, kos = Kosarian, lpz = Lipizzan, mon = Mongolian, nor = Norik, odb = Oldenburgian, piz = Pinzgau, pll = Polish Farm Horse, scp = Scottish Pony, ses = Seneca Sarajevo, she = Shetland Pony, shi = Shire, stm = Styrian, suf = Suffolk, tbh = English Thoroughbred, tog = Togo Pony, trk = Trakehner, and wel = Welsh), and morphotype (A = not a domesticated horse, W = medium horse, F = Light horse, C = Draft horse, P = Pony). (XLSX 13 kb)
DOI: 10.6084/m9.figshare.6164378.v1
title: Additional file 3: of Shape variation and modularity of skull and teeth in domesticated horses and wild equids

description: Raw data for crania and mandibles for all specimens used in this study including three-dimensional landmark data (raw coordinates) and identifier; ID_String is the individual combination including all information: Museum (A = Argentina, B = Berlin, H = Halle, K = Kiel, V = Vienna), ID (identifier used at the museum), group (H = horse, D = donkey, P = Przewalski’s, Z = zebra), breed (aaa = not a domesticated horse, ahb = Ancient Breed (Roman period), ano = Anglo-Norman, arb = Arab, bif = Birkenfelder, blg = Belgian Draft, bos = Bosnian Pony, cds = Clydesdale, exm = Exmoor Pony, fab = Falabella, gbh = Galician Farm Horse, grb = Grisons (Graubündner), grp = German Riding Pony, han = Hannoverian, hny = Hackney, hol = Holstein, hun = Hungarian, huz = Huzule, ice = Icelandic Horse, ind = Indian Pony, kdr = Kladrubian, kon = Konik, kos = Kosarian, lpz = Lipizzan, mon = Mongolian, nor = Norik, odb = Oldenburgian, piz = Pinzgau, pll = Polish Farm Horse, scp = Scottish Pony, ses = Seneca Sarajevo, she = Shetland Pony, shi = Shire, stm = Styrian, suf = Suffolk, tbh = English Thoroughbred, tog = Togo Pony, trk = Trakehner, and wel = Welsh), and morphotype (A = not a domesticated horse, W = medium horse, F = Light horse, C = Draft horse, P = Pony). (XLSX 13 kb)
DOI: 10.6084/m9.figshare.6164360
title: Additional file 17: of Assessing the benefits of horizontal gene transfer by laboratory evolution and genome sequencing

description: Excel file S1. List of de novo mutations in coding regions found in sequenced clones isolated from HPA evolved populations. The coordinates of mutations are given in coordinates of (i) the E. coli K12 reference genome for mutations in genes from the recipient K12 genome (sheet 1), (ii) the E. coli W genome in genes transferred from the E. coli W donor in Re c K W $$ \operatorname{Re}{\mathrm{c}}_{\mathrm{K}}^{\mathrm{W}} $$ clones (sheet 2), and (iii) the E. coli B genome in genes transferred from the E. coli W donor in Re c K B $$ \operatorname{Re}{\mathrm{c}}_{\mathrm{K}}^{\mathrm{B}} $$ clones (sheet 3) (In ' Re c Y X ’ $$ \operatorname{Re}{{\mathrm{c}}_{\mathrm{Y}}^{\mathrm{X}}}^{'} $$ ', X refers to the DNA donor identity, and Y refers to the recipient identity). Mutations are annotated according to the amino acid change they cause in the encoded polypeptide sequence. Specifically, the left first three-letter abbreviation denotes the original amino acid, the following number indicates its location, and the right abbreviation denotes the substituted amino acid. ‘fs’ denotes frameshift mutations, ‘del’ denotes a deletion, and ‘*’ denotes a stop-gain mutation. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.6164360.v1
title: Additional file 17: of Assessing the benefits of horizontal gene transfer by laboratory evolution and genome sequencing

description: Excel file S1. List of de novo mutations in coding regions found in sequenced clones isolated from HPA evolved populations. The coordinates of mutations are given in coordinates of (i) the E. coli K12 reference genome for mutations in genes from the recipient K12 genome (sheet 1), (ii) the E. coli W genome in genes transferred from the E. coli W donor in Re c K W $$ \operatorname{Re}{\mathrm{c}}_{\mathrm{K}}^{\mathrm{W}} $$ clones (sheet 2), and (iii) the E. coli B genome in genes transferred from the E. coli W donor in Re c K B $$ \operatorname{Re}{\mathrm{c}}_{\mathrm{K}}^{\mathrm{B}} $$ clones (sheet 3) (In ' Re c Y X ’ $$ \operatorname{Re}{{\mathrm{c}}_{\mathrm{Y}}^{\mathrm{X}}}^{'} $$ ', X refers to the DNA donor identity, and Y refers to the recipient identity). Mutations are annotated according to the amino acid change they cause in the encoded polypeptide sequence. Specifically, the left first three-letter abbreviation denotes the original amino acid, the following number indicates its location, and the right abbreviation denotes the substituted amino acid. ‘fs’ denotes frameshift mutations, ‘del’ denotes a deletion, and ‘*’ denotes a stop-gain mutation. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.6164294
title: Additional file 1: of Optimization of training periods for the estimation model of three-dimensional target positions using an external respiratory surrogate

description: Dataset supporting our findings. (XLSX 1259Â kb)
DOI: 10.6084/m9.figshare.6164294.v1
title: Additional file 1: of Optimization of training periods for the estimation model of three-dimensional target positions using an external respiratory surrogate

description: Dataset supporting our findings. (XLSX 1259Â kb)
DOI: 10.6084/m9.figshare.6164270
title: Additional file 3: of Ecological niche modeling of Aedes mosquito vectors of chikungunya virus in southeastern Senegal

description: Table S2. Abundance of mosquito species for all months. Table S3. Abundance of mosquito species for November 2009. Table S4. Abundance of mosquito species for November 2010. Abundance is the number of mosquitoes per collector per night of collection and reported per collection site. Eastings and northings are in UTM coordinates, Zone 28P, WGS 1984. (XLSX 27 kb)
DOI: 10.6084/m9.figshare.6164270.v1
title: Additional file 3: of Ecological niche modeling of Aedes mosquito vectors of chikungunya virus in southeastern Senegal

description: Table S2. Abundance of mosquito species for all months. Table S3. Abundance of mosquito species for November 2009. Table S4. Abundance of mosquito species for November 2010. Abundance is the number of mosquitoes per collector per night of collection and reported per collection site. Eastings and northings are in UTM coordinates, Zone 28P, WGS 1984. (XLSX 27 kb)
DOI: 10.6084/m9.figshare.6164228
title: Additional file 3: of Ecological opportunity may facilitate diversification in Palearctic freshwater organisms: a case study on hydrobiid gastropods

description: Table S2. Morphological dataset. Abbreviations explained in Additional file 1: Table S3. (TXT 5Â kb)
DOI: 10.6084/m9.figshare.6164228.v1
title: Additional file 3: of Ecological opportunity may facilitate diversification in Palearctic freshwater organisms: a case study on hydrobiid gastropods

description: Table S2. Morphological dataset. Abbreviations explained in Additional file 1: Table S3. (TXT 5Â kb)
DOI: 10.6084/m9.figshare.6163916.v1
title: Supplementary Data

description: RNA-Seq data including:&gt; EDGE analysis (Supplementary Table (ST)-1)&gt; Overall differentially-expressed transcripts (ST-2)&gt; Differentially-expressed genes across treatments and . genotypes (ST-3)<br><br>
DOI: 10.6084/m9.figshare.6163916.v2
title: Supplementary Data

description: RNA-Seq data including:&gt; Environmental Profile of Tank Setup (Supplementary Figure (SF) -1)<br>&gt; cDNA libraries stats (Supplementary Table (ST)-1)&gt;EDGE analysis (Supplementary Table (ST)-2)<br>&gt; Overall differentially-expressed transcripts (ST-3)&gt; Differentially-expressed genes across treatments and . genotypes (ST-4)&gt; Electropherogram Summaries of cDNA libraries<br><br>
DOI: 10.6084/m9.figshare.6163916.v3
title: Supplementary Data

description: RNA-Seq data including:&gt; Environmental Profile of Tank Setup (Supplementary Figure (SF) -1)<br>&gt; cDNA libraries stats (Supplementary Table (ST)-1)&gt;EDGE analysis (Supplementary Table (ST)-2)<br>&gt; Overall differentially-expressed transcripts (ST-3)&gt; Differentially-expressed genes across treatments and . genotypes (ST-4)&gt; Electropherogram Summaries of cDNA libraries<br><br>
DOI: 10.6084/m9.figshare.6163916.v4
title: Supplementary Data

description: RNA-Seq data including:&gt; Environmental Profile of Tank Setup (Supplementary Figure (SF) -1)<br>&gt; cDNA libraries stats (Supplementary Table (ST)-1)&gt;EDGE analysis (Supplementary Table (ST)-2)<br>&gt; Overall differentially-expressed transcripts (ST-3)&gt; Differentially-expressed genes across treatments and . genotypes (ST-4)&gt; Electropherogram Summaries of cDNA libraries&gt; PCA analyses showing gene expression over treatment replicates for each genotype <br><br>
DOI: 10.6084/m9.figshare.6163916.v5
title: Supplementary Data

description: RNA-Seq data including:&gt; Environmental Profile of Tank Setup (Supplementary Figure (SF) -1)<br>&gt; cDNA libraries stats (Supplementary Table (ST)-1)&gt;EDGE analysis (Supplementary Table (ST)-2)<br>&gt; Overall differentially-expressed transcripts (ST-3)&gt; Differentially-expressed genes across treatments and . genotypes (ST-4)&gt; Nucleotide Alignment Pairwise Comparisons of core genes&gt; Electropherogram Summaries of cDNA libraries&gt; PCA analyses showing gene expression over treatment replicates for each genotype <br><br>
DOI: 10.6084/m9.figshare.6163916.v6
title: Supplementary Data

description: RNA-Seq data including:&gt; Environmental Profile of Tank Setup (Supplementary Figure (SF) -1)<br>&gt; cDNA libraries stats (Supplementary Table (ST)-1)&gt;EDGE analysis (Supplementary Table (ST)-2)<br>&gt; Overall differentially-expressed transcripts (ST-3)&gt; Differentially-expressed genes across treatments and . genotypes (ST-4)&gt; Nucleotide Alignment Pairwise Comparisons of core genes&gt; Electropherogram Summaries of cDNA libraries&gt; PCA analyses showing gene expression over treatment replicates for each genotype <br><br>
DOI: 10.6084/m9.figshare.6163916.v7
title: Supplementary Data

description: RNA-Seq data including:&gt; Supplementary Figure (SF) 1 - Environmental Profile of Tank Setup&gt; SF 2 - PCA plots of expression values (normalized log CPM) &gt; SF 3 - Heat maps of expression values (normalized log CPM) &gt; cDNA libraries stats (Supplementary Table (ST)-1)&gt;EDGE analysis (Supplementary Table (ST)-2)<br>&gt; Overall differentially-expressed transcripts (ST-3)&gt; Differentially-expressed genes across treatments and . genotypes (ST-4)&gt; Nucleotide Alignment Pairwise Comparisons of core genes&gt; Electropherogram Summaries of cDNA libraries&gt; PCA analyses showing gene expression over treatment replicates for each genotype <br><br>
DOI: 10.6084/m9.figshare.6163916.v8
title: Supplementary Data

description: RNA-Seq data including:&gt; Supplementary Figure (SF) 1 - Environmental Profile of Tank Setup&gt; SF 2 - PCA plots of expression values (normalized log CPM) &gt; SF 3 - Heat maps of expression values (normalized log CPM) &gt; cDNA libraries stats (Supplementary Table (ST)-1)&gt;EDGE analysis (Supplementary Table (ST)-2)<br>&gt; Overall differentially-expressed transcripts (ST-3)&gt; Differentially-expressed genes across treatments and . genotypes (ST-4)&gt; Nucleotide Alignment Pairwise Comparisons of core genes&gt; Electropherogram Summaries of cDNA libraries&gt; PCA analyses showing gene expression over treatment replicates for each genotype <br><br>
DOI: 10.6084/m9.figshare.6163910
title: SNAP Gene Predictions

description: Gene predictions made using the SNAP tool (Korf. 2004. Gene finding in novel genomes) for <i>p450nor</i>-containing fungal genomes. Each file is labeled by the genome assembly ID of the organism. An excel file is available within this directory for perusal of species names associated with each genome assembly ID. The genome assembly IDs can easily link to genomic information using either batch entrez retrieval services or individually typing the IDs as search queries within NCBI's website.
DOI: 10.6084/m9.figshare.6163910.v1
title: SNAP Gene Predictions

description: Gene predictions made using the SNAP tool (Korf. 2004. Gene finding in novel genomes) for <i>p450nor</i>-containing fungal genomes. Each file is labeled by the genome assembly ID of the organism. An excel file is available within this directory for perusal of species names associated with each genome assembly ID. The genome assembly IDs can easily link to genomic information using either batch entrez retrieval services or individually typing the IDs as search queries within NCBI's website.
DOI: 10.6084/m9.figshare.6163907
title: EDGE Analysis

description: RNA-Seq data
DOI: 10.6084/m9.figshare.6163907.v1
title: EDGE Analysis

description: RNA-Seq data