本研究利用SLAF-seq的策略,构建了辣椒超高密度遗传图谱,该图谱拥有9328个SLAF标记,图距仅0.22cM。基于此图谱,作者定位到两个主效应QTL--Ffn2.1和Ffn2.2,结合辣椒已有基因注释信息,发现在定位区间内包含59个基因,经RNA-seq分析显示,仅有3个存在差异表达,最终确定了一个与首花节位相关的基因。本研究构建的辣椒遗传图...
RNA-Seq, Transcriptomics, Gene-expression, Visualisation, Database, Agriculture, Barley, Maize, Rice, Wheat, TomatoBackground: The genome-wide expression profile of genes in different tissues/cell types and developmental stages is a vital component of many functional genomic studies. Transcriptome data...
Background:Single cell RNA-Seq analysis utilises feature selection to classify and characterise cell clusters withing a heterogeneous cell population. To our knowledge there is no public pipeline to interrogate this plethora of data and identify by co-expression corelation the putative unknown or additi...
CLIP-seq is widely used to study genome-wide interactions between RNA-binding proteins and RNAs. However, there are few tools available to analyze CLIP-seq data, thus creating a bottleneck to the implementation of this methodology. Here, we present PIPE-
Preparation, Culture, and Analysis of Amniotic Fluid Samples Trypan Blue Exclusion Test of Cell Viability ATAC‐seq: A Method for Assaying Chromatin Accessibility Genome‐Wide Gram Staining Cre‐loxP‐Mediated Recombination: General Principles and Experimental Considerations ...
RNA-Seq analysis Fastq files (Table S3) were downloaded from the NCBI Biosample database and quality checked by FastQC (https://www.bioinformatics.babraham.ac.uk/projects/fastqc/). When applicable, overrepresented sequences were removed by Trimmomatic (Bolger et al., 2014). The filtered reads...
BRAKER with RNA-Seq and protein data Description of selected BRAKER command line options --ab_initio --augustus_args=--some_arg=bla --cores=INT --fungus --softmasking --useexisting --crf --lambda=int --UTR=on --addUTR=on --stranded=+,-,.,... ...
Output is a Anndata object for further analysis with scanpy. data_listcan be data_path, file format included txt, csv, h5ad, h5mu/rna, h5mu/atac, dir contains mtx list of data_paths Anndata list of AnnData above mixed batch_categoriesis optional, name of each batch, will be range from...
论文题目:Deeplearningenables accurateclusteringand batch effect removal in single-cell RNA-seq... Correlation Analysis3(CCA) or Mutual Nearest Neighbors (MNN) approach4.在ScRNA-seq中常用的消除批次效应的方法:CCA和MNN NIPS2018深度学习(8)|亮点:实证深度学习、贝叶斯、半监督众包聚类 ...
The sample size prevents further analysis of the unique experiences of lesbian, gay and bisexual young people. Tackling online sexual harassment amongst young people 7 Special educational needs, disabilities and health problems • 12% of the pre-pilot sample had special educational ...