NASC's Bioinformatics Webservices

SOAPLAB, was developed in the European Bioinformatics Institute (EBI), and is a SOAP-based analysis web service that is used to wrap command-line applications so they can be used as web services.

NASC provides most of its data via SOAPLAB. Please click on the green arrow on the right of the service groups to get a list of all services in that category.

Germplasm webservices



• getNASCstockDescription services

Service Name	Description	WSDL
getNASCstockDescriptionByDonorNumber	Stock description for a given donor number. Example input: 'salk_000013'.	wsdl
getNASCstockDescriptionByNASCinsertNumber	Stock description for a given insert number. Example input: '083008'.	wsdl
getNASCstockDescriptionByStockCode	Stock description for a given NASC stock code. Example input: 'N500013', 'N3074'.	wsdl
getNASCstockDescriptionByStockName	Stock description for a given name of a stock. Example input: 'albina', 'ZWILLE'.	wsdl

• getNASCphenotype services

Service Name	Description	WSDL
getNASCphenotypeByABRCcode	Arabidopsis phenotypes corresponding to the given ABRC code. Example input: CS20.	wsdl
getNASCphenotypeByAGI	Arabidopsis phenotypes corresponding to the given AGI locus code. Example input: At1g20300	wsdl
getNASCphenotypeByAllele	Arabidopsis phenotypes corresponding to the given allele. Example input: cer5-1	wsdl
getNASCphenotypeByDonorName	Arabidopsis phenotypes corresponding to the given donor surname. Example input: Hobbie	wsdl
getNASCphenotypeByDonorNumber	Arabidopsis phenotypes corresponding to the given a donor number. Example input salk_000013	wsdl
getNASCphenotypeByEcotypeName	Arabidopsis phenotypes corresponding to the given ecotype name. Example input: 'Ag-0'.	wsdl
getNASCphenotypeByEMBL	Arabidopsis phenotypes corresponding to the given EMBL accession. Example input: X98772	wsdl
getNASCphenotypeByInsertNumber	Arabidopsis phenotypes corresponding to the given insert number. Example input: 083008	wsdl
getNASCphenotypeByKeyword	Arabidopsis phenotypes corresponding to the given keyword. Example input: David Meinke	wsdl
getNASCphenotypeByLocus	Arabidopsis phenotypes corresponding to the given Arabidopsis gene symbol . Example input: cer2	wsdl
getNASCphenotypeByMutagen	Arabidopsis phenotypes corresponding to the given mutagen. Example input: NMB	wsdl
getNASCphenotypeByNASCstockCode	Arabidopsis phenotypes corresponding to the given NASC stock Code. Example input: NW20	wsdl
getNASCphenotypeByNASCstockName	Arabidopsis phenotypes corresponding to the given NASC stock name. Example input:An-1.	wsdl
getNASCphenotypeBySeedType	Arabidopsis phenotypes corresponding to the given NASC seed type . Example input: Single marker.	wsdl

• getNASCstockName services

Service Name	Description	WSDL
getNASCstockNameByABRCcode	Stock name for a given ABRC code. Example input: CS20.	wsdl
getNASCstockNameByAGI	Stock name for a given AGI locus code. Example input: 'At1g19100'.	wsdl
getNASCstockNameByAllele	Stock name for a given allele. Example input: Cer-1.	wsdl
getNASCstockNameByDonorName	Stock name for a given donor surname. Example input: Relichova.	wsdl
getNASCstockNameByDonorNumber	Stock name for a given donor number. Example input: salk_000014.	wsdl
getNASCstockNameByEcotypeName	Stock name for a given ecotype name. Example input: S96.	wsdl
getNASCstockNameByEMBL	Stock name for a given EMBL accession. Example input: Y15193.	wsdl
getNASCstockNameByInsertNumber	Stock name for a given insert number. Example input: 083008.	wsdl
getNASCstockNameByKeyword	Stock name for a given keyword. Example input: trichomes.	wsdl
getNASCstockNameByLocus	Stock name for a given locus. Example input: psv.	wsdl
getNASCstockNameByMutagen	Stock name for a given mutagen. Example input: NMB.	wsdl
getNASCstockNameByNASCstockCode	Stock name for a given stock code. Example input: N4, N6, N1654, N933.	wsdl
getNASCstockNameBySeedType	Stock name for a given type of seed. Example input: Single marker.	wsdl

• getArabidopsisHabitat services

Service Name	Description	WSDL
getArabidopsisHabitatByNASCstockCode	Arabidopsis habitat for a given stock code. Example input: 'N900', 'N901', 'N902', 'N960', 'N1150'.	wsdl
getArabidopsisHabitatByNASCstockName	Arabidopsis habitat for a given stock name. Example input: 'An-1'.	wsdl

• getNASCstockCode services

Service Name	Description	WSDL
getNASCstockCodeByABRCcode	NASC Stock code for a given ABRC code. Example input: CS20.	wsdl
getNASCstockCodeByAGI	NASC_codes for a given AGI locus code. Example input: At1g20310.	wsdl
getNASCstockCodeByAllele	NASC Stock code for a given allele. Example input: cer5-1.	wsdl
getNASCstockCodeByCollection	NASC Stock code for a given collection name. Example input: CAUT.	wsdl
getNASCstockCodeByDonorName	NASC Stock code for a given donor surname. Example input: Plieth.	wsdl
getNASCstockCodeByDonorNumber	NASC Stock code for a given donor number. Example input: 304.	wsdl
getNASCstockCodeByEcotypeName	NASC Stock code for a given ecotype name. Example input: Ag-0.	wsdl
getNASCstockCodeByEMBL	NASC Stock code for a given EMBL accession. Example input: Y15193.	wsdl
getNASCstockCodeByInsertNumber	NASC Stock codes for a given insert number. Example input: 083008.	wsdl
getNASCstockCodeByKeyword	NASC Stock code for a given Keyword. Example input: dwarf.	wsdl
getNASCstockCodeByLocus	NASC Stock code for a given locus in Arabidopsis. Example input: cer5.	wsdl
getNASCstockCodeByMutagen	NASC Stock code for a given mutagen. Example input: NMB	wsdl
getNASCstockCodeByStockName	NASC Stock code for a given stock name. Example input: An-1	wsdl

• getNASCinsert services

Service Name	Description	WSDL
getNASCinsertByABRCcode	NASC insert numbers for a given ABRC code. Example input: CS25583.	wsdl
getNASCinsertByAGI	NASC inserts for a given AGI locus code. Example input: At1g11900.	wsdl
getNASCinsertByDonorNumber	NASC insert numbers for a given donor number. Example input: salk_000013.	wsdl
getNASCinsertByEMBL	NASC insert numbers for a given EMBL accession. Example input: AB028622.	wsdl
getNASCinsertByLocus	NASC insert numbers for a given locus. Example input: At4g22165.	wsdl
getNASCinsertByNASCstockCode	NASC insert numbers for a given stock code. Example input: N700001.	wsdl
getNASCinsertByNASCstockName	NASC insert numbers for a given stock name. Example input: AT_111.	wsdl

• getArabidopsisMutagen services

Service Name	Description	WSDL
getArabidopsisMutagenByAllele	NASC mutagens for a given allele. Example input: cer5-1.	wsdl
getArabidopsisMutagenByEMBL	NASC mutagens for a given. Example input: X98772.	wsdl
getArabidopsisMutagenByInsertNumber	NASC mutagens for a given insert number. Example input: 083008.	wsdl
getArabidopsisMutagenByLocus	NASC mutagens for a given locus. Example input: cer2.	wsdl
getArabidopsisMutagenByNASCdonorNumber	NASC mutagens for a given donor number. Example input: salk_000013.	wsdl
getArabidopsisMutagenByNASCstockCode	NASC mutagens for a given NASC code. Example input: N3074.	wsdl
getArabidopsisMutagenByNASCstockName	NASC mutagens for a given stock name. Example input: apetala.	wsdl

• getArabidopsisLocus services

Service Name	Description	WSDL
getArabidopsisLocusByAllele	Retrieves the locus for a given allele. Example input: aux1-7.	wsdl
getArabidopsisLocusByEMBL	Retrieves the locus for a given EMBL accession. Example input: Y15193.	wsdl
getArabidopsisLocusByNASCstockCode	Retrieves the locus for a given a stock code. Example input: N6, N4, N3074.	wsdl
getArabidopsisLocusByNASCstockName	Retrieves the locus for a given stock name. Example input: apetala.	wsdl

• getArabidopsisEcotype services

Service Name	Description	WSDL
getArabidopsisEcotypeByEMBL	NASC ecotypes for a given EMBL accession. Example input: X98772 .	wsdl
getArabidopsisEcotypeByInsertNumber	NASC ecotypes for a given insert number. Example input: 083008.	wsdl
getArabidopsisEcotypeByMutagen	NASC ecotypes for a given mutagen. Example input: EMS.	wsdl
getArabidopsisEcotypeByNASCdonorNumber	NASC ecotypes for a given donor number. Example input: salk_000013.	wsdl
getArabidopsisEcotypeByNASCstockCode	NASC ecotypes for a given NASC stock code. Example input: N1092.	wsdl

• getArabidopsisAllele services

Service Name	Description	WSDL
getArabidopsisAlleleByEMBL	Retrieves the Arabidosis allele for a given EMBL accession. Example input: X98772.	wsdl
getArabidopsisAlleleByABRCcode	Allele for a given ABRC code. Example input: CS20.	wsdl
getArabidopsisAlleleByEMBL	Allele for a given EMBL accession. Example input: X98772.	wsdl
getArabidopsisAlleleByLocus	Allele for a given locus. Example input: cer2.	wsdl
getArabidopsisAlleleByNASCstockCode	Allele for a given NASC code. Example input: N6.	wsdl
getArabidopsisAlleleByNASCstockName	Allele for a given stock name. Example input: apetala.	wsdl

• getArabidopsisGrowthRequirements services

Service Name	Description	WSDL
getArabidopsisGrowthRequirementsByABRCcode	Growth requirements for a given ABRC code. Example input: 'CS20', 'CS3', 'CS90'.	wsdl
getArabidopsisGrowthRequirementsByNASCstockCode	Growth requirements for a given stock code. Example input: 'N6', 'N933', 'N20'.	wsdl
getArabidopsisGrowthRequirementsByNASCstockName	Growth requirements for a given NASC stcok name. Example input: 'eceriferum', 'Landsberg erecta'.	wsdl

• getArabidopsisPublications services

Service Name	Description	WSDL
getArabidopsisPublicationsByNASCdonorNumber	Arabidopsis publications for a given donor number. Example input: 'salk_000013'.	wsdl
getArabidopsisPublicationsByNASCinsertNumber	Arabidopsis publications for a given Arabidopsis insert number. Example input: '083008'.	wsdl
getArabidopsisPublicationsByNASCstockCode	Arabidopsis publications for a given NASC code. Example input: 'N500013'.	wsdl
getArabidopsisPublicationsByNASCstockName	Arabidopsis publications for a given stock name. Example input: 'salk_000013 (O)'.	wsdl

• getNASCstockAvailability services

Service Name	Description	WSDL
getNASCstockAvailabilityByDonorNumber	Stock availablity for a donor number given. Example input: 'salk_000013'.	wsdl
getNASCstockAvailabilityByNASCstockCode	Stock availablity for a given NASC stock code. Example input: 'N20', 'N901', 'N960', 'N1150'.	wsdl
getNASCstockAvailabilityByNASCstockName	Stock availablity for a given stock name. Example input: 'angustifolia', 'chlorina', 'brevipedicellus', 'agamous'.	wsdl

• getArabidopsisSeedType services

Service Name	Description	WSDL
getArabidopsisSeedTypeByNASCdonorNumber	Arabidopsis seed type for a given donor number. Example input: 'salk_000013'.	wsdl
getArabidopsisSeedTypeByNASCinsertNumber	Arabidopsis seed type for a given insert number. Example input: launchpad:1A.	wsdl
getArabidopsisSeedTypeByNASCstockCode	Arabidopsis seed type for a given stock code. Example input: N3074.	wsdl
getArabidopsisSeedTypeByNASCstockName	Arabidopsis seed type for a given stock name. Example input: 'root hair defective'.	wsdl

• getEMBLaccessionBy services

Service Name	Description	WSDL
getEMBLaccessionByABRCcode	EMBL accession number for a given ABRC code. Example input: CS20.	wsdl
getEMBLaccessionByAllele	EMBL accession number for a given allele. Example input: cer5-1.	wsdl
getEMBLaccessionByDonorName	EMBL accession number for a given donor surname. Example input: Hobbie.	wsdl
getEMBLaccessionByDonorNumber	EMBL accession number for a given donor number. Example input: 'fah1-7 ttg'.	wsdl
getEMBLaccessionByInsertNumber	EMBL accession number for a given Arabidopsis insert number. Example input: CSHL:ET84.	wsdl
getEMBLaccessionByKeyword	EMBL accession number for a given keyword. Example input: trichomes.	wsdl
getEMBLaccessionByLocus	EMBL accession number for a given locus. Example input: cer2.	wsdl
getEMBLaccessionByMutagen	EMBL accession number for a given mutagen. Example input: gamma rays.	wsdl
getEMBLaccessionByNASCseedType	EMBL accession number for a given seed type. Example input: 'Single marker'.	wsdl
getEMBLaccessionByNASCstockCode	EMBL accession number for a given stock code. Example input: N3574.	wsdl
getEMBLaccessionByNASCstockName	EMBL accession number for a given stock name. Example input: AT_111.	wsdl

• getNASCdonorName services

Service Name	Description	WSDL
getNASCdonorNameByABRCcode	Retrieves the NASC donor name(s) for a given ABRC code. Example input: 'CS20', 'CS70', 'CS7'.	wsdl
getNASCdonorNameByDonorNumber	Retrieves donor surname for a given donor number. Example input: 'salk_000014'.	wsdl
getNASCdonorNameByEMBL	Retrieves the NASC donor name for a given EMBL accession number. Example input: 'X98772'.	wsdl
getNASCdonorNameByInsertNumber	Retrieves the NASC donor surname for a given insert number. Example input: CSHL:ET84.	wsdl
getNASCdonorNameByMutagen	Retrieves the NASC donor surname for a given mutagen. Example input: EMS.	wsdl
getNASCdonorNameByNASCstockCode	Retrieves the NASC donor name for a given NASC stock code. Example input: 'N4', 'N933', 'N3074', 'N1150'.	wsdl
getNASCdonorNameByNASCstockName	Retrieves the NASC donor name for a given stock name. Example input: 'An-1', 'AT_3462', 'chlorina', 'AT_111'.	wsdl

• getNASCcollection service

Service Name	Description	WSDL
getNASCcollectionByDonorNumber	Retrieves the name of the collection from which the given NASC donor number belongs to. Example input: 'salk_000013'.	wsdl

• getArabidopsisImage services

Service Name	Description	WSDL
getArabidopsisImageByNASCstockCode	Retrieves the images for a given NASC stock code. Example input: NW77.	wsdl
getArabidopsisImageByNASCstockName	Arabidopsis images for a given NASC stock name. Example input: brevipedicellus, Angustifolia, Dentata.	wsdl
		wsdl




Genomic webservices



• Services still in development!

Service Name	Description	WSDL




Microarray webservices



• getNASCArraysExpDescription services

Service Name	Description	WSDL
getNASCArraysExpDescriptionByReferenceNumber	Microarray experiment description for a given from NASCArrays reference number. Example input: NASCARRAYS-136.	wsdl
getNASCArraysExpDescriptionByMGEDExperimentDesignType	'Retrieves NASCArrays experiment description for a given MGED experiment design type. Example input: time_series_design.'	wsdl
getNASCArraysExpDescriptionByNASCArraysSlide	Retrieves NASCArrays experiment description for a given slide name. Example input: 'Durrant_1-1_wild-type_Rep1_ATH1'.	wsdl
getNASCArraysExpDescriptionByName	Retrieves NASCArrays experiment description for a given experiment name. Example input: 'Comparison of transcriptional profiles between sni1 and wild type'.	wsdl
getNASCArraysExpDescriptionByNASCstockCode	Retrieves NASCArrays experiment description for a given NASC stock code. Example input: N1093, NW20.	wsdl

• getNASCArraysReferenceNumber services

Service Name	Description	WSDL
getNASCArraysReferenceNumberByNASCstockCode	Retrieves the NASCArrays reference number for a given NASC stock code. Example input: NW20	wsdl
getNASCArraysReferenceNumberBySlideName	Retrieves NASCArrays reference number for a given slide name from NASCArrays. Example input: 'Penfield_1-1_endosperm-control_Rep1_ATH1'	wsdl
getNASCArraysReferenceNumberByExperimentName	Retrieves the NASCArrays reference number for a given NASCArrays experiment name. Example input: 'Baseline experiment floral homeotics'	wsdl

• AffymetrixProbeSetID conversion services

Service Name	Description	WSDL
getAffymetrixProbeSetIDbyAGI		wsdl

• NASCArraysGeneswinger services

Service Name	Description	WSDL
NASCArraysGeneswingerByAGI	Runs the analysis tool, GeneSwinger for a given AGI locus code. Example input: At3g52590.	wsdl
NASCArraysGeneswingerByATH1AffyProbeSetID	Runs the analysis tool, GeneSwinger for a given Affymetrix probeset ID from the ATH1 chip. Example input: 252056_at.	wsdl
NASCArraysGeneswingerByAGAffyProbeSetID	Runs the analysis tool, GeneSwinger for a given Affymetrix probeset ID from the AG chip. Example input: 13129_f_at.	wsdl

• getNASCArraysSlide services

Service Name	Description	WSDL
getNASCArraysSlideByExperimentName	Retrieves slide names in an experiment. Example input: \'FRI FLC combos\'.	wsdl
getNASCArraysSlideByNASCstockCode	Retrieves slide names for a given NASC stock code. Example input: N1093.	wsdl
getNASCArraysSlideByReferenceNumber	Retrieves slide names for a given reference number. Example input: \'NASCARRAYS-389\'	wsdl

All the above SOAPLAB webservices are also available as BioMOBY webservices. These are registered in the Central registry. There are several web interfaces available where the webservices can be browsed through and invoked. These are listed on the BioMOBY website.

It is possible to chain together several webservices into workflows. Taverna, is one such project, written by Tom Oinn at the European Bioinformatics Institute (EBI), that enables researchers with limited computing background and limited technical resources, to perform complex analyses.
If you have complex analyses to compute, Taverna allows you simply to chain your webservices together and click "go". When the workflow is complete, the data can either be saved, or used for further analyses.

A simple tutorial on how to chain together your own webservices is available here - coming soon!!!. Here are some example workflows - coming soon!!!.

This section is continually under development. As more webservices become available, more complex analyses will become possible using NASC webservices and data.

If you wish any of NASC data to be made available via webservices, that is not already, or if there are any problems with any of the webservices, please contact the NASC bioinformatics team at bioinfo@arabidopsis.info, and we'll see what we can do for you.