protcomp

character, UniProt IDs of proteins

uniprot

data frame, amino acid compositions

aa_file

Get amino acid compositions of proteins.

Chemical metrics of differentially expressed proteins in cancer
and cell culture proteomics experiments. Data files in the package have amino
acid compositions of proteins obtained from UniProt and >250 published lists of
up- and down-regulated proteins in different cancer types and laboratory
experiments. Functions are provided to calculate chemical metrics including
protein length, grand average of hydropathicity (GRAVY), isoelectric point
(pI), carbon oxidation state, and stoichiometric hydration state; the latter
two are described in Dick et al. (2020) <doi:10.5194/bg-17-6145-2020>. The
vignettes visualize differences of chemical metrics between up- and
down-regulated proteins and list literature references for all datasets.

Jeffrey Dick

canprot

Chemical Metrics of Differentially Expressed Proteins

Ben Bolker

protcomp function

<dl> <dt>uniprot</dt>
<dd>character, UniProt IDs of proteins</dd> <dt>aa</dt>
<dd>data frame, amino acid compositions</dd> <dt>aa_file</dt>
<dd>character, file name</dd></dl>

Arguments

Amino Acid Compositions — protcomp

<dl>

 <dt>uniprot</dt>
<dd>character, UniProt IDs of proteins</dd>

 <dt>aa</dt>
<dd>data frame, amino acid compositions</dd>

 <dt>aa_file</dt>
<dd>character, file name</dd>

</dl>

protcomp: Amino Acid Compositions

Description

Usage

Value

Arguments

Details

See Also

Examples