DataBiNS with Kegg ID
Created: 2009-07-09 21:39:54
Last updated: 2010-11-22 23:16:42
Download WorkflowDataBiNS was originally a custom-designed BioMoby Web Service workflow that gathered non-synonymous coding single nucleotide polymorphisms (nsSNPs) data with structure/function and pathway data for relevant proteins. While the usage of the automated workflow, rather than manual internet surfing, significantly reduced the effort required to retrieve the information, analyzing the data for co-relations between specific outputs was difficult. Further work on DataBiNS has produced a web-based tool that aims to solve the problems of visualizing the retrieved data. DataBiNS can now be accessed through a website which takes an unique identifier input, from numerous sources such as KEGG, Pubmed, and OMIM, and then initializes the DataBiNS workflow in the background. The workflow retrieves scientific data and knowledge from disparate web-based sources, relating to non-synonymous coding single nucleotide polymorphisms (nsSNPs) and then displays it in a format that makes studying the results easier than before.
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Workflow Components
Authors (2)
| Fong Chun Chan, edited by Mark Wilkinson with the help of Edward Kawas and David Withers |
Titles (1)
| DataBiNS with Kegg ID |
Descriptions (2)
| Consumes a KEGG gene id and mines for pathway, GO, PubMed and SNP information about that gene |
Dependencies (0)
None
Inputs (1)
| Name | Description |
|---|---|
| id | This is a gene identifer in KEGG gene-id format |
Processors (56)
| Name | Type | Description |
|---|---|---|
| Remove_duplicate_strings2 | localworker |
ScriptList strippedlist = new ArrayList();
for (Iterator i = stringlist.iterator(); i.hasNext();) {
String item = (String) i.next();
if (strippedlist.contains(item) == false) {
strippedlist.add(item);
}
}
|
| nsSNP_amino_acid_variant_list_flatter | localworker |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 1); |
| nsSNP_allele_list_flatter | localworker |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 1); |
| pdb_file_flatter | localworker |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 1); |
| base64_PNG | localworker |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 1); |
| go_term_list_flatter | beanshell |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 2); |
| publication_pubmed_id_list_flatter | beanshell |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 2); |
| frequency_list_flatter | localworker |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 1); |
| gene_name_list_flatter | beanshell |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 1); |
| KEGG_NS | stringconstant |
ValueKEGG |
| Entrez_NS | stringconstant |
ValueEntrezGene_EntrezGeneID |
| article_name | stringconstant |
Valueidentifier |
| publication_journal_name_list_flatter | beanshell |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 2); |
| go_term_definition_list_flatter | beanshell |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 2); |
| Remove_duplicate_strings | localworker |
ScriptList strippedlist = new ArrayList();
for (Iterator i = stringlist.iterator(); i.hasNext();) {
String item = (String) i.next();
if (strippedlist.contains(item) == false) {
strippedlist.add(item);
}
}
|
| frequency_id_list_flatter | localworker |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 1); |
| entrez_gene_id_list_flatter | localworker |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 1); |
| gene_description_list_flatter | localworker |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 1); |
| nsSNP_codon_position_list_flatter | localworker |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 1); |
| gene_id_list_flatter | localworker |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 1); |
| gene_summary_list_flatter | beanshell |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 1); |
| publication_abstract_list_flatter | beanshell |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 2); |
| nsSNP_id_list_flatter | localworker |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 1); |
| entrez_gene_list_flatter2 | localworker |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 1); |
| nsSNP_strand_list_flatter | localworker |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 1); |
| go_term_accession_list_flatter | beanshell |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 2); |
| publication_title_list_flatter | beanshell |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 2); |
| nsSNP_amino_acid_position_list_flatter | localworker |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 1); |
| pdb_rasmol_flatter | localworker |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 1); |
| gene_synonyms_list_flatter | beanshell |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 1); |
| publication_author_list_flatter | beanshell |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 2); |
| pdb_id_flatter | localworker |
Scriptflatten(inputs, outputs, depth) {
for (i = inputs.iterator(); i.hasNext();) {
element = i.next();
if (element instanceof Collection && depth > 0) {
flatten(element, outputs, depth - 1);
} else {
outputs.add(element);
}
}
}
outputlist = new ArrayList();
flatten(inputlist, outputlist, 1); |
| Parse_Moby_Data_Swiss_Prot | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.pl |
| Parse_Moby_Data_GO_Term | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.pl |
| Parse_Moby_Data_entrez_gene | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.pl |
| getBase64SnpFrequencyImage | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.plBiomoby Service NamegetBase64SnpFrequencyImageBiomoby Authority Namebioinfo.icapture.ubc.caBiomoby Categorymoby |
| Parse_Moby_Data_nsSNP | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.pl |
| convertSnp2EntrezGeneID | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.plBiomoby Service NameconvertSnp2EntrezGeneIDBiomoby Authority Namebioinfo.icapture.ubc.caBiomoby Categorymoby |
| Parse_Moby_Data_Publication | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.pl |
| snp2Frequencies | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.plBiomoby Service Namesnp2FrequenciesBiomoby Authority Namebioinfo.icapture.ubc.caBiomoby Categorymoby |
| getGeneInformationByEntrezGeneID | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.plBiomoby Service NamegetGeneInformationByEntrezGeneIDBiomoby Authority Namebioinfo.icapture.ubc.caBiomoby Categorymoby |
| getEntryFromPDB | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.plBiomoby Service NamegetEntryFromPDBBiomoby Authority Namewww.rcsb.orgBiomoby Categorymoby |
| Gene2PubMed | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.plBiomoby Service NameGene2PubMedBiomoby Authority Nameicapture.ubc.caBiomoby Categorymoby |
| convertKeggGeneId2ProtId | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.plBiomoby Service NameconvertKeggGeneId2ProtIdBiomoby Authority Namebioinfo.icapture.ubc.caBiomoby Categorymoby |
| Parse_Moby_Data_Frequencies | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.pl |
| Parse_Moby_Data_gene_ref | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.pl |
| getSnpsBySwissProtId | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.plBiomoby Service NamegetSnpsBySwissProtIdBiomoby Authority Namebioinfo.icapture.ubc.caBiomoby Categorymoby |
| Parse_Moby_Data_rasmol | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.pl |
| PDB_id2RasMolScript | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.plBiomoby Service NamePDB_id2RasMolScriptBiomoby Authority Namebioinfo.icapture.ubc.caBiomoby Categorymoby |
| Gene2Ontology | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.plBiomoby Service NameGene2OntologyBiomoby Authority Nameicapture.ubc.caBiomoby Categorymoby |
| CreateKeggId | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.plBiomoby Service NameObjectBiomoby Authority Name |
| CreateEntrezGeneDataType | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.plBiomoby Service NameObjectBiomoby Authority Name |
| ExtractPdbEntry | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.pl |
| Parse_Moby_Data_b64_Encoded_PNG | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.pl |
| convertUniProtId2PDBId | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.plBiomoby Service NameconvertUniProtId2PDBIdBiomoby Authority Namebioinfo.icapture.ubc.caBiomoby Category |
| Parse Moby Data(Object) | biomoby |
Endpointhttp://moby.ucalgary.ca/moby/MOBY-Central.pl |
Beanshells (11)
| Name | Description | Inputs | Outputs |
|---|---|---|---|
| go_term_list_flatter | inputlist | outputlist | |
| publication_pubmed_id_list_flatter | inputlist | outputlist | |
| gene_name_list_flatter | inputlist | outputlist | |
| publication_journal_name_list_flatter | inputlist | outputlist | |
| go_term_definition_list_flatter | inputlist | outputlist | |
| gene_summary_list_flatter | inputlist | outputlist | |
| publication_abstract_list_flatter | inputlist | outputlist | |
| go_term_accession_list_flatter | inputlist | outputlist | |
| publication_title_list_flatter | inputlist | outputlist | |
| gene_synonyms_list_flatter | inputlist | outputlist | |
| publication_author_list_flatter | inputlist | outputlist |
Outputs (28)
| Name | Description |
|---|---|
| nsSNP_id | |
| nsSNP_codon_position | |
| nsSNP_allele | |
| nsSNP_strand | |
| nsSNP_amino_acid_variant | |
| nsSNP_amino_acid_position | |
| swiss_prot_id | |
| go_term_accession | |
| go_term | |
| go_term_definition | |
| frequency | |
| frequency_id | |
| gene_id | |
| gene_description | |
| gene_name | |
| gene_summary | |
| gene_synonyms | |
| entrez_gene_id | |
| publication_author | |
| publication_pubmed_id | |
| publication_abstract | |
| publication_title | |
| publication_journal_name | |
| kegg_gene_id | |
| pdb_id | |
| pdb_rasmol | |
| base64_PNG | |
| pdb_file |
Datalinks (84)
| Source | Sink |
|---|---|
| entrez_gene_id_list_flatter:outputlist | Remove_duplicate_strings2:stringlist |
| Parse_Moby_Data_nsSNP:snps_'aa_var' | nsSNP_amino_acid_variant_list_flatter:inputlist |
| Parse_Moby_Data_nsSNP:snps_'allele' | nsSNP_allele_list_flatter:inputlist |
| ExtractPdbEntry:entry_'content' | pdb_file_flatter:inputlist |
| Parse_Moby_Data_b64_Encoded_PNG:image_'content' | base64_PNG:inputlist |
| Parse_Moby_Data_GO_Term:terms_'Term' | go_term_list_flatter:inputlist |
| Parse_Moby_Data_Publication:id | publication_pubmed_id_list_flatter:inputlist |
| Parse_Moby_Data_Frequencies:Frequencies_'Frequency' | frequency_list_flatter:inputlist |
| Parse_Moby_Data_gene_ref:gene_info_'name' | gene_name_list_flatter:inputlist |
| Parse_Moby_Data_Publication:publications_'Journal' | publication_journal_name_list_flatter:inputlist |
| Parse_Moby_Data_GO_Term:terms_'Definition' | go_term_definition_list_flatter:inputlist |
| entrez_gene_list_flatter2:outputlist | Remove_duplicate_strings:stringlist |
| Parse_Moby_Data_Frequencies:id | frequency_id_list_flatter:inputlist |
| Parse_Moby_Data_entrez_gene:id | entrez_gene_id_list_flatter:inputlist |
| Parse_Moby_Data_gene_ref:gene_info_'description' | gene_description_list_flatter:inputlist |
| Parse_Moby_Data_nsSNP:snps_'codon_pos' | nsSNP_codon_position_list_flatter:inputlist |
| Parse_Moby_Data_gene_ref:id | gene_id_list_flatter:inputlist |
| Parse_Moby_Data_gene_ref:gene_info_'summary' | gene_summary_list_flatter:inputlist |
| Parse_Moby_Data_Publication:publications_'Abstract' | publication_abstract_list_flatter:inputlist |
| Parse_Moby_Data_nsSNP:id | nsSNP_id_list_flatter:inputlist |
| Parse_Moby_Data_entrez_gene:id | entrez_gene_list_flatter2:inputlist |
| Parse_Moby_Data_nsSNP:snps_'strand' | nsSNP_strand_list_flatter:inputlist |
| Parse_Moby_Data_GO_Term:id | go_term_accession_list_flatter:inputlist |
| Parse_Moby_Data_Publication:publications_'Title' | publication_title_list_flatter:inputlist |
| Parse_Moby_Data_nsSNP:snps_'aa_pos' | nsSNP_amino_acid_position_list_flatter:inputlist |
| Parse_Moby_Data_rasmol:rasmol_text_'content' | pdb_rasmol_flatter:inputlist |
| Parse_Moby_Data_gene_ref:gene_info_'synonyms' | gene_synonyms_list_flatter:inputlist |
| Parse_Moby_Data_Publication:publications_'Author' | publication_author_list_flatter:inputlist |
| Parse Moby Data(Object):id | pdb_id_flatter:inputlist |
| convertKeggGeneId2ProtId:Object(prot_id) | Parse_Moby_Data_Swiss_Prot:mobyData('Object') |
| Gene2Ontology:GO_Term(Collection - 'terms' As Simples) | Parse_Moby_Data_GO_Term:mobyData('GO_Term') |
| convertSnp2EntrezGeneID:Object(geneid) | Parse_Moby_Data_entrez_gene:mobyData('Object') |
| snp2Frequencies:Frequencies(Frequencies) | getBase64SnpFrequencyImage:Object(snpId) |
| getSnpsBySwissProtId:nsSNP(Collection - 'snps' As Simples) | Parse_Moby_Data_nsSNP:mobyData('nsSNP') |
| getSnpsBySwissProtId:nsSNP(Collection - 'snps' As Simples) | convertSnp2EntrezGeneID:Object(snp) |
| Gene2PubMed:Publication(Collection - 'publications' As Simples) | Parse_Moby_Data_Publication:mobyData('Publication') |
| getSnpsBySwissProtId:nsSNP(Collection - 'snps' As Simples) | snp2Frequencies:Object(snpid) |
| CreateEntrezGeneDataType:mobyData | getGeneInformationByEntrezGeneID:Object(geneid) |
| PDB_id2RasMolScript:text-formatted(rasmol_text) | getEntryFromPDB:Object(id) |
| CreateEntrezGeneDataType:mobyData | Gene2PubMed:Object(geneid) |
| CreateKeggId:mobyData | convertKeggGeneId2ProtId:Object(kegg_gene) |
| snp2Frequencies:Frequencies(Frequencies) | Parse_Moby_Data_Frequencies:mobyData('Frequencies') |
| getGeneInformationByEntrezGeneID:gene_ref(gene_info) | Parse_Moby_Data_gene_ref:mobyData('gene_ref') |
| convertKeggGeneId2ProtId:Object(prot_id) | getSnpsBySwissProtId:Object(id) |
| PDB_id2RasMolScript:text-formatted(rasmol_text) | Parse_Moby_Data_rasmol:mobyData('text-formatted') |
| convertUniProtId2PDBId:Object(Collection - 'pdb_ids') | PDB_id2RasMolScript:Object(pdb_id) |
| CreateEntrezGeneDataType:mobyData | Gene2Ontology:Object(gene) |
| KEGG_NS:value | CreateKeggId:namespace |
| article_name:value | CreateKeggId:article name |
| id | CreateKeggId:id |
| Entrez_NS:value | CreateEntrezGeneDataType:namespace |
| Remove_duplicate_strings:strippedlist | CreateEntrezGeneDataType:id |
| getEntryFromPDB:PDB-Text(entry) | ExtractPdbEntry:mobyData('PDB-Text') |
| getBase64SnpFrequencyImage:b64_Encoded_PNG(image) | Parse_Moby_Data_b64_Encoded_PNG:mobyData('b64_Encoded_PNG') |
| convertKeggGeneId2ProtId:Object(prot_id) | convertUniProtId2PDBId:Object(kegg_gene) |
| convertUniProtId2PDBId:Object(Collection - 'pdb_ids' As Simples) | Parse Moby Data(Object):mobyData('Object') |
| nsSNP_id_list_flatter:outputlist | nsSNP_id |
| nsSNP_codon_position_list_flatter:outputlist | nsSNP_codon_position |
| nsSNP_allele_list_flatter:outputlist | nsSNP_allele |
| nsSNP_strand_list_flatter:outputlist | nsSNP_strand |
| nsSNP_amino_acid_variant_list_flatter:outputlist | nsSNP_amino_acid_variant |
| nsSNP_amino_acid_position_list_flatter:outputlist | nsSNP_amino_acid_position |
| Parse_Moby_Data_Swiss_Prot:id | swiss_prot_id |
| go_term_accession_list_flatter:outputlist | go_term_accession |
| go_term_list_flatter:outputlist | go_term |
| go_term_definition_list_flatter:outputlist | go_term_definition |
| frequency_list_flatter:outputlist | frequency |
| frequency_id_list_flatter:outputlist | frequency_id |
| gene_id_list_flatter:outputlist | gene_id |
| gene_description_list_flatter:outputlist | gene_description |
| gene_name_list_flatter:outputlist | gene_name |
| gene_summary_list_flatter:outputlist | gene_summary |
| gene_synonyms_list_flatter:outputlist | gene_synonyms |
| Remove_duplicate_strings2:strippedlist | entrez_gene_id |
| publication_author_list_flatter:outputlist | publication_author |
| publication_pubmed_id_list_flatter:outputlist | publication_pubmed_id |
| publication_abstract_list_flatter:outputlist | publication_abstract |
| publication_title_list_flatter:outputlist | publication_title |
| publication_journal_name_list_flatter:outputlist | publication_journal_name |
| id | kegg_gene_id |
| pdb_id_flatter:outputlist | pdb_id |
| pdb_rasmol_flatter:outputlist | pdb_rasmol |
| base64_PNG:outputlist | base64_PNG |
| pdb_file_flatter:outputlist | pdb_file |
Coordinations (0)
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Workflow Type
Version 2
(of 3)
- information
- |
- nssnp
- |
- nucleotide
- |
- OMIM
- |
- pathway
- |
- snp
- |
- structure
- |
- workflow
- information
- |
- nssnp
- |
- nucleotide
- |
- OMIM
- |
- pathway
- |
- snp
- |
- structure
- |
- workflow
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Version History
In chronological order:
-
Created by Mark Wilkinson on Tuesday 19 May 2009 18:25:40 (UTC)
Last edited by Mark Wilkinson on Wednesday 06 February 2013 16:23:49 (UTC)
-
Created by Mark Wilkinson on Thursday 09 July 2009 21:39:54 (UTC)
Last edited by Mark Wilkinson on Monday 22 November 2010 23:15:14 (UTC)
Revision comment:Previous workflow was not properly flattening some of the PubMed information, so it never made it into the output bin. This version is also properly annotated with an example input.
-
Created by Mark Wilkinson on Monday 22 November 2010 23:16:38 (UTC)
Revision comment:switched default input suggestion to a new valid KEGG gene Identifier (previous one didn't return hits in all cases)
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