Journal: Theranostics

Article Title: A strategy of local hydrogen capture and catalytic hydrogenation for enhanced therapy of chronic liver diseases

doi: 10.7150/thno.80494

Figure Lengend Snippet: Transcriptome analysis of liver samples. The Venn diagram of the DEGs in various comparisons ( A ), the KEGG enrichment analysis of the 43 genes clustered in the Venn diagram ( B ), the KEGG enrichment analysis of all the DEGs in comparison of H 2 +PdH and H 2 groups (Log 2 |fold change| > 0, p value < 0.05) ( C ), the heatmap of DEGs in enriched pathways in comparison of H 2 +PdH and H 2 groups ( D ), mRNA expression levels of TNF-α, IL-6 and IL-1β in liver tissues examined by real-time qPCR ( E ). Data were presented as mean ± standard deviation (Mean ± SD) with individual data. Student t -test was applied for comparison between groups. Difference was considered significant using asterisk as follows: * p < 0.05, ** p < 0.01, *** p < 0.001.

Article Snippet: All the RNAs were extracted, and transcriptome library was constructed at BGI-Shenzhen.

Techniques: Comparison, Expressing, Standard Deviation

Journal: Oncotarget

Article Title: HLA class I loss in metachronous metastases prevents continuous T cell recognition of mutated neoantigens in a human melanoma model

doi: 10.18632/oncotarget.16048

Figure Lengend Snippet: Metrics of the exome and transcriptome sequencing

Article Snippet: Exome and transcriptome sequencing libraries were constructed by GENterprise Genomics (Mainz, Germany) using TruSeq™ DNA and RNA sample preparation kits (Illumina, Eindhoven, The Netherlands).

Techniques:

Journal: PLoS ONE

Article Title: Sequencing, Annotation and Analysis of the Syrian Hamster ( Mesocricetus auratus ) Transcriptome

doi: 10.1371/journal.pone.0112617

Figure Lengend Snippet: (A) The length distribution of the reads is shown in a gray histogram. Bins of the histogram have been set to 50 nucleotides. The lengths of the reads range from 40 to 631, with a median length of 387 and a mean length of 352. The reads represents a total of 426,683,712 nucleotides bases. (B) The length distribution of the 111,796 singletons is shown in a red histogram while the length distribution of the 62,482 contigs is shown in a blue histogram. Bins of the histograms have been set to 25 nucleotides. The lengths of the singleton sequences range from 50 to 614, with a median length of 187 and a mean length of 265. The lengths of the contig sequences range from 50 to 4,054, with a median length of 473 and a mean length of 487. Our Syrian hamster transcriptome represents a total of 60,117,204 nucleotides bases.

Article Snippet: Moreover, we released the annotated transcriptome assembly in LabArchives ( http://www.labarchives.com/ ) and are available via the DOI http://dx.doi.org/10.6070/H4FQ9TKP .

Techniques:

Journal: PLoS ONE

Article Title: Sequencing, Annotation and Analysis of the Syrian Hamster ( Mesocricetus auratus ) Transcriptome

doi: 10.1371/journal.pone.0112617

Figure Lengend Snippet: Transcriptome references and alignment statistics.

Article Snippet: Moreover, we released the annotated transcriptome assembly in LabArchives ( http://www.labarchives.com/ ) and are available via the DOI http://dx.doi.org/10.6070/H4FQ9TKP .

Techniques:

Journal: PLoS ONE

Article Title: Sequencing, Annotation and Analysis of the Syrian Hamster ( Mesocricetus auratus ) Transcriptome

doi: 10.1371/journal.pone.0112617

Figure Lengend Snippet: Functional enrichment of the mouse genes mapped by our transcriptome assembly.

Article Snippet: Moreover, we released the annotated transcriptome assembly in LabArchives ( http://www.labarchives.com/ ) and are available via the DOI http://dx.doi.org/10.6070/H4FQ9TKP .

Techniques: Functional Assay, Ubiquitin Proteomics

Journal: PLoS ONE

Article Title: Sequencing, Annotation and Analysis of the Syrian Hamster ( Mesocricetus auratus ) Transcriptome

doi: 10.1371/journal.pone.0112617

Figure Lengend Snippet: (A) Distogram showing the number of transcripts commonly mapped by the Syrian hamster transcriptome between the different species used in this study. Each cell of the distogram represents the number of transcripts commonly mapped by two different species using a gradient color. (B) Phylogenetic tree showing the genomic divergence between a subset of the different species used in this study. Each leaf of the tree represents a different species and the distances of the edges are proportional to the genomic distances between the species. Genomic distances have been calculated based on the list of 611 Syrian hamster contigs and singletons that have been commonly aligned on the transcriptome references of the 13 species having the highest number of commonly aligned sequences.

Article Snippet: Moreover, we released the annotated transcriptome assembly in LabArchives ( http://www.labarchives.com/ ) and are available via the DOI http://dx.doi.org/10.6070/H4FQ9TKP .

Techniques: