Genome variant to Protein change

Created: 2012-07-27 11:26:11 Last updated: 2012-10-29 10:35:52

Reports protein change, given a genomic variant, using mutalyzer

Option 1:

Authors (1)

Titles (1)

Descriptions (1)

Dependencies (0)

Inputs (1)

Name	Description
numberConversion_2_variant	Genomic variant

Processors (12)

Name	Type	Description
numberConversion	wsdl	Wsdl https://mutalyzer.nl/services/?wsdl Wsdl Operation numberConversion
numberConversion_2	xmlsplitter
numberConversionResponse	xmlsplitter
build_value	stringconstant	Value hg19
getGeneName	wsdl	Wsdl https://mutalyzer.nl/services/?wsdl Wsdl Operation getGeneName
getGeneName_2	xmlsplitter
getGeneNameResponse	xmlsplitter
Beanshell	beanshell	Script int i = variant_HGVS.indexOf(":"); transcript_ref=variant_HGVS.substring(0,i); variant_pos= variant_HGVS.substring(i+1);
runMutalyzer	wsdl	Wsdl https://mutalyzer.nl/services/?wsdl Wsdl Operation runMutalyzer
runMutalyzerResponse	xmlsplitter
runMutalyzerResponse_runMutalyzerResult	xmlsplitter
runMutalyzer_2	xmlsplitter

Beanshells (1)

Name	Description	Inputs	Outputs
Beanshell		variant_HGVS	transcript_ref variant_pos

Outputs (5)

Name	Description
numberConversionResponse_numberConversionResult
getGeneNameResponse_getGeneNameResult
transcript_ref
variant_pos
proteinDescriptions

Datalinks (18)

Source	Sink
numberConversion_2:output	numberConversion:numberConversion
build_value:value	numberConversion_2:build
numberConversion_2_variant	numberConversion_2:variant
numberConversion:numberConversionResponse	numberConversionResponse:input
getGeneName_2:output	getGeneName:getGeneName
build_value:value	getGeneName_2:build
Beanshell:transcript_ref	getGeneName_2:accno
getGeneName:getGeneNameResponse	getGeneNameResponse:input
numberConversionResponse:numberConversionResult	Beanshell:variant_HGVS
runMutalyzer_2:output	runMutalyzer:runMutalyzer
runMutalyzer:runMutalyzerResponse	runMutalyzerResponse:input
runMutalyzerResponse:runMutalyzerResult	runMutalyzerResponse_runMutalyzerResult:input
numberConversionResponse:numberConversionResult	runMutalyzer_2:variant
numberConversionResponse:numberConversionResult	numberConversionResponse_numberConversionResult
getGeneNameResponse:getGeneNameResult	getGeneNameResponse_getGeneNameResult
Beanshell:transcript_ref	transcript_ref
Beanshell:variant_pos	variant_pos
runMutalyzerResponse_runMutalyzerResult:proteinDescriptions	proteinDescriptions