et al. Recent improvements to the SMART domain–based sequence annotation resource. Nucleic Acids Res. 30, 242–244 (2002). Article CAS Google Scholar Altschul, S.F. et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25, 3389–34...
README Introduction This R script is to demonstrate the steps to download GSE data from NCBI GEO database, and to obtain the differential expressed genes from GSE data. A little background of GEO The Gene Expression Omnibus (GEO) is a data repository hosted by the National Center for Biotech...
Search for your gene of interest using the search bar at the top. I usually search my full gene name along with the species I am interested in. Since the NCBI database is vast, you will want to narrow down your search the best you can. ...
we identified one ORF corresponding to a member of the Archaeo-Eukaryotic Primase (AEP) superfamily, which had not been noted earlier. We will refer to it as “PrimPol”, similarly to its close homologues, and its gene will be referred to as “pplA”. ...
was 338 F/806R, and sequencing was performed on an Illumina NovaSeq 6000 with two paired-end read cycles of 250 bases each by OE Biotech. Co., Ltd (Shanghai, China) [40,44]. The accession number of total 40 clean sequencing data in NCBI Sequence Read Archive database is SRP424056....
Also, the GO gene sets are extracted from MSigDB version 6.1 [10] and used as the gene set database for all experiments. Hereafter, this database is referred to as \mathbb {G}. After generating D_{1}^{(2\times n)}, \dots, D_{m}^{(2\times n)}, each replicate dataset D_{i...
The road most travelled is focusing on the bacteriamost heard aboutand trying to address them one by one. The road that I take is to ignore this chatter, and aim to adjusteverything in one passusing mathematical models. Often I have read that something like Lactobacillus increases for a sub...
首先在 NCBI 在线软件 ORF finder ( https://www.ncbi.nlm.nih.gov/orffinder/ ) 分析基因 的开放阅读框(open reading frame,ORF)和翻译出 的蛋白序列;通过 NCBI 数据库的在线软件 blast (https://blast.ncbi.nlm.nih.gov/)寻找与 LjPDS 蛋白 序列相似的其他物种的 PDS 蛋白序列并下载; DNAMAN 6.0 ...
HTSeq (Anders et al., 2014) was used to quantify the read counts mapping uniquely to the reference using the reference annotation available from Flybase (r1.2). Expression analysis Gene expression analysis was performed using the Bioconductor package EdgeR (Robinson et al., 2010) in R (R ...
Advanced prostate cancer remains one of the most common and deadly cancers, despite advances in treatment options. Immunotherapy has provided little benefit to a majority of patients, largely due to the immunosuppressive tumor microenvironment that gives