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1,574 results for “genome sequencing”
Figure 1 from: Wang P, Yang H, Zhou W, Hwang C, Zhang W, Qian Z (2014) The mitochondrial genome of the land snail Camaena cicatricosa (Müller, 1774) (Stylommatophora, Camaenidae): the first complete sequence in the family Camaenidae. ZooKeys 451: 33-48. https://doi.org/10.3897/zookeys.451.8537
Figure 1 - The mt genome of Camaena cicatricosa. The tRNA genes are labeled based on the IUPACIUB single letter amino acid codes. Genes with underline illuminate the direction of transcription from 3' to 5', and without underline illuminating from 5' to 3'. Numbers and overlapping lines within the circle indicate PCR fragments amplified for sequencing (see Table 1).
Figure 2 from: Lin J-H, Zhou W-C, Ding H-L, Wang P, Ai H-M (2016) The mitochondrial genome of the land snail Cernuella virgata (Da Costa, 1778): the first complete sequence in the family Hygromiidae (Pulmonata, Stylommatophora). ZooKeys 589: 55-69. https://doi.org/10.3897/zookeys.589.7637
Figure 2 - Relative synonymous codon usage (RSCU) in the Cernuella virgata mt genome. Codon families are provided on the x axis.
Figure 1 from: Lin J-H, Zhou W-C, Ding H-L, Wang P, Ai H-M (2016) The mitochondrial genome of the land snail Cernuella virgata (Da Costa, 1778): the first complete sequence in the family Hygromiidae (Pulmonata, Stylommatophora). ZooKeys 589: 55-69. https://doi.org/10.3897/zookeys.589.7637
Figure 1 - The mt genome of Cernuella virgata. The tRNA genes are labeled based on the IUPACIUB single letter amino acid codes. Genes with underline illustrate the direction of transcription from 3' to 5', and without underline revealing from 5' to 3'. Numbers and overlapping lines within the circle indicate PCR fragments amplified for sequencing (see Table 1).
Figure 4 from: Lin J-H, Zhou W-C, Ding H-L, Wang P, Ai H-M (2016) The mitochondrial genome of the land snail Cernuella virgata (Da Costa, 1778): the first complete sequence in the family Hygromiidae (Pulmonata, Stylommatophora). ZooKeys 589: 55-69. https://doi.org/10.3897/zookeys.589.7637
Figure 4 - Phylogenetic tree inferred by maximum likelihood (ML) method based on 13 protein genes. The tree is rooted with Aplysis californica and Galba pervia. Numbers on the nodes represent bootstrap values.
Figure 3 from: Lin J-H, Zhou W-C, Ding H-L, Wang P, Ai H-M (2016) The mitochondrial genome of the land snail Cernuella virgata (Da Costa, 1778): the first complete sequence in the family Hygromiidae (Pulmonata, Stylommatophora). ZooKeys 589: 55-69. https://doi.org/10.3897/zookeys.589.7637
Figure 3 - Inferred secondary structures of 22 tRNA genes in Cernuella virgata. Dashes (-) indicate Watson-Crick base pairing and bullets (•) indicate G-U base pairing.
Supplementary material 2 from: Grewe F, Lagostina E, Wu H, Printzen C, Lumbsch HT (2018) Population genomic analyses of RAD sequences resolves the phylogenetic relationship of the lichen-forming fungal species Usnea antarctica and Usnea aurantiacoatra. MycoKeys 43: 91-113. https://doi.org/10.3897/mycokeys.43.29093
Overview of RADseq results after individual steps of RAD analyses :
Figure 3 from: Grewe F, Lagostina E, Wu H, Printzen C, Lumbsch HT (2018) Population genomic analyses of RAD sequences resolves the phylogenetic relationship of the lichen-forming fungal species Usnea antarctica and Usnea aurantiacoatra. MycoKeys 43: 91-113. https://doi.org/10.3897/mycokeys.43.29093
Figure 3 Genomic variation by non-parametric DAPC. ADAPC plot of the densities of U.antarctica (blue) and U.aurantiacoatra (green) on the first retained discriminant function B Bar plot of group membership probabilities.
Figure 2 from: Grewe F, Lagostina E, Wu H, Printzen C, Lumbsch HT (2018) Population genomic analyses of RAD sequences resolves the phylogenetic relationship of the lichen-forming fungal species Usnea antarctica and Usnea aurantiacoatra. MycoKeys 43: 91-113. https://doi.org/10.3897/mycokeys.43.29093
Figure 2 Pairwise Gst, G'st and D distribution. Pairwise values of Nei's Gst (green), Hedrick's G'st (blue) and Jost's D (yellow) are plotted by their frequency.
Figure 1 from: Grewe F, Lagostina E, Wu H, Printzen C, Lumbsch HT (2018) Population genomic analyses of RAD sequences resolves the phylogenetic relationship of the lichen-forming fungal species Usnea antarctica and Usnea aurantiacoatra. MycoKeys 43: 91-113. https://doi.org/10.3897/mycokeys.43.29093
Figure 1 Phylogenetic tree inferred from the U.antarctica and U.aurantiacoatraRADseq data. The clades of each species are highlighted by brackets. Bootstrap values are indicated at the branches. The unit of branch length is substitutions per site. Note that branches leading to both major clades were abbreviated by 0.4 substitutions per site.
Supplementary material 1 from: Grewe F, Lagostina E, Wu H, Printzen C, Lumbsch HT (2018) Population genomic analyses of RAD sequences resolves the phylogenetic relationship of the lichen-forming fungal species Usnea antarctica and Usnea aurantiacoatra. MycoKeys 43: 91-113. https://doi.org/10.3897/mycokeys.43.29093
Origin of samples used for this study :
Figure 4 from: Grewe F, Lagostina E, Wu H, Printzen C, Lumbsch HT (2018) Population genomic analyses of RAD sequences resolves the phylogenetic relationship of the lichen-forming fungal species Usnea antarctica and Usnea aurantiacoatra. MycoKeys 43: 91-113. https://doi.org/10.3897/mycokeys.43.29093
Figure 4 Clustered fineRADstructure co-ancestry matrix. A Full dataset including U.antarctica collected on the Antarctic Peninsula in addition to U.antarctica and U.aurantiacoatra collected on King George Island and Elephant Island B Reduced dataset with all U.antarctica and U.aurantiacoatra collected on King George Island and Elephant Island. Two major clades are corresponding to the two species U.antarctica (top-left) and U.aurantiacoatra (bottom-right). The top and left trees were calculated from the co-ancestry matrix to sort the individuals by their population structure. The matrix is diagonally split into the top-right half showing raw data and the bottom-left half displaying aggregated data.
Supplementary material 3 from: Grewe F, Lagostina E, Wu H, Printzen C, Lumbsch HT (2018) Population genomic analyses of RAD sequences resolves the phylogenetic relationship of the lichen-forming fungal species Usnea antarctica and Usnea aurantiacoatra. MycoKeys 43: 91-113. https://doi.org/10.3897/mycokeys.43.29093
Correlation of RADseq results after individual steps of RAD analyses :
Dataset for the manuscript "In silico evaluation of variant calling methods for bacterial whole genome sequencing"
<p>Input data and associated analysis code for reproducing results reported in the manuscript.</p>
Supplementary material 1 from: Li Z, Huang Z, Wan X, Yu J, Dong H, Zhang J, Zhang C, Wang S (2023) Complete chloroplast genome sequence of Rhododendron mariesii and comparative genomics of related species in the family Ericaeae. Comparative Cytogenetics 17: 163-180. https://doi.org/10.3897/compcytogen.17.101427
Taxonomic and accession information on cp genomes downloaded from NCBI database
The hg38 genome sequences used in this project
<p>hg38_original.fasta.gz : The original hg38 contig sequences (contigs length < 500kb were excluded ).</p> <p>hg38_sim1.fasta.gz : The simulated heterozygous hg38 genome.</p> <p>hg38_sim2.fasta.gz : The simulated error-included hg38 genome.</p>
The VetSeq Study: a Pilot Study of Genome Sequencing in Veteran Care
ClinicalTrials.gov study NCT03380819. IPD Sharing: YES. Countries: 1. Publications: 0.
Prenatal Genetic Diagnosis by Genomic Sequencing
ClinicalTrials.gov study NCT03936101. IPD Sharing: YES. Countries: 1. Publications: 0.
Feasibility Clinical Study of Targeted and Genome-Wide Sequencing
ClinicalTrials.gov study NCT01345513. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Uncovering Genes Behind Cartilage Tumors and Vascular Anomalies Using Genomic Sequencing
ClinicalTrials.gov study NCT06749366. IPD Sharing: YES. Countries: 1. Publications: 0.
Data from: Genome sequences reveal cryptic speciation in the human pathogen Histoplasma capsulatum
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OpenNeuro
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