To overcome this, we adopted DASH (depletion of abundant sequences by hybridization), initially developed for eukaryotic cells, to improve both the sensitivity and depth of bacterial RNA-seq. DASH uses the Cas9 nuclease to remove unwanted cDNA sequences prior to library amplification. We report ...
R. Studying bacterial transcriptomes using RNA-seq. Curr. Opin. Microbiol. 13, 619–624 (2010). Article CAS PubMed PubMed Central Google Scholar Schauer, O. et al. Motility and chemotaxis of bacteria-driven microswimmers fabricated using antigen 43-mediated biotin display. Sci. Rep. 8, ...
Complex interactions between different host immune cell types can determine the outcome of pathogen infections. Advances in single cell RNA-sequencing (scRNA-seq) allow probing of these immune interactions, such as cell-type compositions, which are then interpreted by deconvolution algorithms using bulk ...
N). For a new RNA sequence x, fi(x) represents the prediction probability of being predicted as a real sRNA by the base predictors fi. The final prediction probability of the sequence x is given by [Math Processing Error]F(x)=∑i=1Nwifi(x)∑i=1Nwi=1,wi≥0 (1) Here, we ...
全血RNA-seq 荧光共聚焦显微镜 4. Results 鉴于之前有研究报道:将SPF小鼠至于日常病原环境后,循环的血白细胞在转录组水平上有着显著的变化,实验团队推测肺炎链球菌的感染是否也会引起相同的变化。使用血清型为19F的肺炎链球菌每周两次免疫小鼠(感染方式为鼻喷)。发现免疫过的小鼠可以很好的抵御后续的SP3感染。对其全血的...
processing of RNA-seq experiment. Just choosesimpleworkflow during the reference prep, and run the pipeline as usual. The pipeline automatically handles gzipped/non-gzipped/paired-end/single-end/mixedfastqfiles, and automatically estimates the strand-specificity of the RNA-seq library preparation ...
Step 1, the sampled data as mdRNA-Seq and metaRNA-Seq are used as input and both are quality controlled in Step 2 using FastQC and in Step 3 become trimmed and barcode/adapter removed using Trimmomatic (Bolger et al., 2014). Step 4, the modified data are transferred from FASTQ to ...
Figure 1. Outline of the rRNA sequencing and annotation procedure. Purple lines: not-uniquely alignedreads. Green lines: uniquely aligned reads. The latter, being specific for a single target within the database, fall on hypervariable regions (vs). (a) Paired-end SOLiD RNA-sequencing; (b...
Comparative RNA-Seq Analysis Reveals Potentially Resistance-Related Genes in Response to Bacterial Canker of Tomato 来自 mdpi.com 喜欢 0 阅读量: 66 作者:LI Pereyra-Bistraín,C Ovando-Vázquez,A Rougon-Cardoso,NG Alpuche-Solís 摘要: Tomato is one of the most important crops for human ...
Bacterial droplet-based single-cell RNA-seq reveals antibiotic-associated heterogeneous cellular states. Cell 186, 877–891.e14 (2023). Article CAS PubMed Google Scholar Brennan, M. A. & Rosenthal, A. Z. Single-Cell RNA sequencing elucidates the structure and organization of microbial ...