{"id":"https://openalex.org/W4386952675","doi":"https://doi.org/10.1109/socc58585.2023.10256881","title":"Experience Migrating OpenCL to SYCL: A Case Study on Searches for Potential Off-Target Sites of Cas9 RNA-Guided Endonucleases on AMD GPUs","display_name":"Experience Migrating OpenCL to SYCL: A Case Study on Searches for Potential Off-Target Sites of Cas9 RNA-Guided Endonucleases on AMD GPUs","publication_year":2023,"publication_date":"2023-09-05","ids":{"openalex":"https://openalex.org/W4386952675","doi":"https://doi.org/10.1109/socc58585.2023.10256881"},"language":"en","primary_location":{"id":"doi:10.1109/socc58585.2023.10256881","is_oa":false,"landing_page_url":"https://doi.org/10.1109/socc58585.2023.10256881","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2023 IEEE 36th International System-on-Chip Conference (SOCC)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.osti.gov/servlets/purl/2000367","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101790023","display_name":"Zheming Jin","orcid":"https://orcid.org/0000-0002-7197-780X"},"institutions":[{"id":"https://openalex.org/I1289243028","display_name":"Oak Ridge National Laboratory","ror":"https://ror.org/01qz5mb56","country_code":"US","type":"facility","lineage":["https://openalex.org/I1289243028","https://openalex.org/I1330989302","https://openalex.org/I39565521","https://openalex.org/I4210159294"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Zheming Jin","raw_affiliation_strings":["Oak Ridge National Laboratory"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Oak Ridge National Laboratory","institution_ids":["https://openalex.org/I1289243028"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5061838490","display_name":"Jeffrey S. Vetter","orcid":"https://orcid.org/0000-0002-2449-6720"},"institutions":[{"id":"https://openalex.org/I1289243028","display_name":"Oak Ridge National Laboratory","ror":"https://ror.org/01qz5mb56","country_code":"US","type":"facility","lineage":["https://openalex.org/I1289243028","https://openalex.org/I1330989302","https://openalex.org/I39565521","https://openalex.org/I4210159294"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jeffrey S. Vetter","raw_affiliation_strings":["Oak Ridge National Laboratory"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Oak Ridge National Laboratory","institution_ids":["https://openalex.org/I1289243028"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.28651914,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"1","last_page":"6"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10878","display_name":"CRISPR and Genetic Engineering","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10878","display_name":"CRISPR and Genetic Engineering","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10207","display_name":"Advanced biosensing and bioanalysis techniques","score":0.9983000159263611,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9973999857902527,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8078471422195435},{"id":"https://openalex.org/keywords/software-portability","display_name":"Software portability","score":0.7088366746902466},{"id":"https://openalex.org/keywords/kernel","display_name":"Kernel (algebra)","score":0.5963808298110962},{"id":"https://openalex.org/keywords/cuda","display_name":"CUDA","score":0.5494260191917419},{"id":"https://openalex.org/keywords/cas9","display_name":"Cas9","score":0.5478602647781372},{"id":"https://openalex.org/keywords/general-purpose-computing-on-graphics-processing-units","display_name":"General-purpose computing on graphics processing units","score":0.49348604679107666},{"id":"https://openalex.org/keywords/crispr","display_name":"CRISPR","score":0.42894411087036133},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.3183363676071167},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.15947315096855164}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8078471422195435},{"id":"https://openalex.org/C63000827","wikidata":"https://www.wikidata.org/wiki/Q3080428","display_name":"Software portability","level":2,"score":0.7088366746902466},{"id":"https://openalex.org/C74193536","wikidata":"https://www.wikidata.org/wiki/Q574844","display_name":"Kernel (algebra)","level":2,"score":0.5963808298110962},{"id":"https://openalex.org/C2778119891","wikidata":"https://www.wikidata.org/wiki/Q477690","display_name":"CUDA","level":2,"score":0.5494260191917419},{"id":"https://openalex.org/C132455925","wikidata":"https://www.wikidata.org/wiki/Q16965677","display_name":"Cas9","level":4,"score":0.5478602647781372},{"id":"https://openalex.org/C50630238","wikidata":"https://www.wikidata.org/wiki/Q971505","display_name":"General-purpose computing on graphics processing units","level":3,"score":0.49348604679107666},{"id":"https://openalex.org/C98108389","wikidata":"https://www.wikidata.org/wiki/Q412563","display_name":"CRISPR","level":3,"score":0.42894411087036133},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.3183363676071167},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.15947315096855164},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.0},{"id":"https://openalex.org/C21442007","wikidata":"https://www.wikidata.org/wiki/Q1027879","display_name":"Graphics","level":2,"score":0.0},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1109/socc58585.2023.10256881","is_oa":false,"landing_page_url":"https://doi.org/10.1109/socc58585.2023.10256881","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2023 IEEE 36th International System-on-Chip Conference (SOCC)","raw_type":"proceedings-article"},{"id":"pmh:oai:osti.gov:2000367","is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/2000367","pdf_url":"https://www.osti.gov/servlets/purl/2000367","source":{"id":"https://openalex.org/S4306402487","display_name":"OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I139351228","host_organization_name":"Office of Scientific and Technical Information","host_organization_lineage":["https://openalex.org/I139351228"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null}],"best_oa_location":{"id":"pmh:oai:osti.gov:2000367","is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/2000367","pdf_url":"https://www.osti.gov/servlets/purl/2000367","source":{"id":"https://openalex.org/S4306402487","display_name":"OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I139351228","host_organization_name":"Office of Scientific and Technical Information","host_organization_lineage":["https://openalex.org/I139351228"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1645119126","display_name":null,"funder_award_id":"AC05-00OR22725","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G4423657506","display_name":null,"funder_award_id":"AC05-00OR22725","funder_id":"https://openalex.org/F4320338287","funder_display_name":"Oak Ridge National Laboratory"},{"id":"https://openalex.org/G7995982022","display_name":null,"funder_award_id":"DE-AC05","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G8906985441","display_name":null,"funder_award_id":"00OR22725","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"}],"funders":[{"id":"https://openalex.org/F4320306084","display_name":"U.S. Department of Energy","ror":"https://ror.org/01bj3aw27"},{"id":"https://openalex.org/F4320337506","display_name":"Advanced Scientific Computing Research","ror":"https://ror.org/0012c7r22"},{"id":"https://openalex.org/F4320338287","display_name":"Oak Ridge National Laboratory","ror":"https://ror.org/01qz5mb56"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4386952675.pdf","grobid_xml":"https://content.openalex.org/works/W4386952675.grobid-xml"},"referenced_works_count":17,"referenced_works":["https://openalex.org/W780656674","https://openalex.org/W1906046253","https://openalex.org/W2080914619","https://openalex.org/W2086860427","https://openalex.org/W2114245320","https://openalex.org/W2115603949","https://openalex.org/W2140658947","https://openalex.org/W2253428983","https://openalex.org/W2535050116","https://openalex.org/W2604770745","https://openalex.org/W2794757234","https://openalex.org/W2949080752","https://openalex.org/W2991600264","https://openalex.org/W3010009109","https://openalex.org/W3209449653","https://openalex.org/W4248294582","https://openalex.org/W6622596894"],"related_works":["https://openalex.org/W3020739840","https://openalex.org/W2913998709","https://openalex.org/W4386875822","https://openalex.org/W3177128669","https://openalex.org/W3081777379","https://openalex.org/W2615218473","https://openalex.org/W3040709352","https://openalex.org/W4385574943","https://openalex.org/W2977624170","https://openalex.org/W4394740655"],"abstract_inverted_index":{"Cas-OFFinder":[0],"is":[1],"a":[2,18],"popular":[3],"application":[4,29,76],"for":[5],"genome":[6,45],"editing.":[7],"Its":[8],"OpenCL":[9,31,39],"implementation":[10],"searches":[11],"potential":[12],"off-target":[13],"sites":[14],"in":[15,67],"parallel":[16],"on":[17,56],"GPU.":[19],"In":[20],"this":[21],"work,":[22],"we":[23],"describe":[24],"our":[25],"experience":[26],"migrating":[27],"the":[28,35,38,49,57,61,64,72,75],"from":[30],"to":[32,79],"SYCL.":[33],"Evaluating":[34],"performance":[36,54,73],"of":[37,63,74],"and":[40],"SYCL":[41,50,68],"applications":[42],"using":[43],"human":[44],"sequences":[46],"shows":[47],"that":[48],"program":[51],"could":[52],"achieve":[53],"portability":[55],"target":[58],"GPUs.":[59],"Exploring":[60],"optimizations":[62],"hotspot":[65],"kernel":[66],"may":[69],"further":[70],"improve":[71],"by":[77],"9%":[78],"23%.":[80]},"counts_by_year":[],"updated_date":"2026-06-17T08:01:34.144755","created_date":"2025-10-10T00:00:00"}
