target = row['Protein names'] gene = row['Gene Names (primary)'] matched_rows = tcmsp.loc[target == tcmsp['Target name']] raw_matched_rows = tcmsp[tcmsp['Target name'].apply(lambda x: target.startswith(x))] tcmsp.loc[matched_rows.index,'Protein'] = target tcmsp.loc[matched_rows...
#将Gene Symbol转换为Gene Name,key为TP53,属于Gene Symbol,所以对应的keytype为SYMBOL > mapIds(x = org.Hs.eg.db,keys = "TP53",column = "GENENAME",keytype = "SYMBOL") 'select()' returned 1:1 mapping between keys and columns TP53 "tumor protein p53" # 此处对人类基因进行ID转换,所以使用...
Gene and protein names follow few, if any, true naming conventions and are subject to great variation in different occurrences of the same name. This gives rise to two important problems in natural language processing. First, can one locate the names of genes or proteins in free text, and ...
The latter contains ambiguous hierarchi-cal gene names to compensate GENA. In addition, to address the problem of trivial gene name variations and polysemy, heuristics were used to search gene/protein/family names in MEDLINEs. Using these algorithms to match dictionary and gene/protein/family ...
et al. (2009) BioTagger-GM: a gene/ protein name recognition system. J. Am. Med. Inform. Assoc., 16, 247-255.Manabu Torii, Zhangzhi Hu, Cathy H Wu, and Hong- fang Liu. 2009. Biotagger-GM: a gene/protein name recognition system. Journal of the American Medical Informatics ...
-to:需要转成的目标ID在GTF中的称谓,如这里我要转symbol就是gene_name; -idname:需要转换的ID在输入文件中的标题名称,如图的就是id,如果没有标题的文件用0~n代表; -outname:输出的文件名称; --header:文件有行头,如果文件有行头必须添加此参数,否则不可加入此参数;没有行头时idname用0~n表示,有时则用列...
When the body needs to do something or build something, it often requires a protein. Genes are the instructions that the cells read for how to build proteins. Proteins have very specific jobs, so scientists name genes based on what job their linked proteins are designed to do. For example,...
Brief description of and statistics on each ChromGene annotation. Rows correspond to ChromGene annotations. The columns are as follows: color used for ChromGene annotation; “Mnemonic”—abbreviated name used for annotation; “Description” of each ChromGene annotation based on mark emissions, expressi...
For GeneMark-ETP, used when protein and RNA-Seq is supplied: YAML::XS Data::Dumper Thread::Queue threads On Ubuntu, for example, install the modules with CPANminusF4: sudo cpanm Module::Name, e.g. sudo cpanm Hash::Merge. BRAKER also uses a Perl module helpMod_braker.pm that is not ...
- 0 ID=cds-WP_123091172.1;Parent=gene-EEW87_RS00020;Dbxref=GenBank:WP_123091172.1,GeneID:59160220;Name=WP_123091172.1;gbkey=CDS;inference=COORDINATES: similar to AA sequence:RefSeq:WP_010851411.1;locus_tag=EEW87_RS00020;product=molybdopterin-dependent oxidoreductase;protein_id=WP_123091172.1;transl_...