{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,6,18]],"date-time":"2025-06-18T04:09:15Z","timestamp":1750219755164,"version":"3.41.0"},"publisher-location":"New York, NY, USA","reference-count":60,"publisher":"ACM","license":[{"start":{"date-parts":[[2023,10,21]],"date-time":"2023-10-21T00:00:00Z","timestamp":1697846400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/www.acm.org\/publications\/policies\/copyright_policy#Background"}],"funder":[{"DOI":"10.13039\/100000001","name":"National Science Foundation","doi-asserted-by":"publisher","award":["2201583"],"award-info":[{"award-number":["2201583"]}],"id":[{"id":"10.13039\/100000001","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["dl.acm.org"],"crossmark-restriction":true},"short-container-title":[],"published-print":{"date-parts":[[2023,10,21]]},"DOI":"10.1145\/3583780.3615268","type":"proceedings-article","created":{"date-parts":[[2023,10,21]],"date-time":"2023-10-21T07:45:42Z","timestamp":1697874342000},"page":"3843-3848","update-policy":"https:\/\/doi.org\/10.1145\/crossmark-policy","source":"Crossref","is-referenced-by-count":3,"title":["Efficient Variant Calling on Human Genome Sequences Using a GPU-Enabled Commodity Cluster"],"prefix":"10.1145","author":[{"ORCID":"https:\/\/orcid.org\/0009-0007-9268-4364","authenticated-orcid":false,"given":"Manas Jyoti","family":"Das","sequence":"first","affiliation":[{"name":"University of Missouri, Columbia, MO, USA"}]},{"ORCID":"https:\/\/orcid.org\/0009-0007-1552-3161","authenticated-orcid":false,"given":"Khawar","family":"Shehzad","sequence":"additional","affiliation":[{"name":"University of Missouri, Columbia, MO, USA"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1859-0438","authenticated-orcid":false,"given":"Praveen","family":"Rao","sequence":"additional","affiliation":[{"name":"University of Missouri, Columbia, MO, USA"}]}],"member":"320","published-online":{"date-parts":[[2023,10,21]]},"reference":[{"key":"e_1_3_2_1_1_1","unstructured":"2021. What is Paired-End Sequencing? https:\/\/www.illumina.com\/science\/technology\/next-generation-sequencing\/plan-experiments\/paired-end-vs-single-read.html.  2021. What is Paired-End Sequencing? https:\/\/www.illumina.com\/science\/technology\/next-generation-sequencing\/plan-experiments\/paired-end-vs-single-read.html."},{"key":"e_1_3_2_1_2_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btv506"},{"key":"e_1_3_2_1_3_1","doi-asserted-by":"crossref","unstructured":"J. M. Abuin J. C. Pichel T. F. Pena and J. Amigo. 2016. SparkBWA: Speeding up the Alignment of High-Throughput DNA Sequencing Data. PLoS ONE 11 5 (2016).  J. M. Abuin J. C. Pichel T. F. Pena and J. Amigo. 2016. SparkBWA: Speeding up the Alignment of High-Throughput DNA Sequencing Data. PLoS ONE 11 5 (2016).","DOI":"10.1371\/journal.pone.0155461"},{"key":"e_1_3_2_1_4_1","volume-title":"Heterogeneous Hardware\/Software Acceleration of the BWA-MEM DNA Alignment Algorithm. In 2015 IEEE\/ACM International Conference on Computer-Aided Design (ICCAD). IEEE, 240--246","author":"Ahmed Nauman","year":"2015","unstructured":"Nauman Ahmed , Vlad-Mihai Sima , Ernst Houtgast , Koen Bertels , and Zaid Al-Ars . 2015 . Heterogeneous Hardware\/Software Acceleration of the BWA-MEM DNA Alignment Algorithm. In 2015 IEEE\/ACM International Conference on Computer-Aided Design (ICCAD). IEEE, 240--246 . Nauman Ahmed, Vlad-Mihai Sima, Ernst Houtgast, Koen Bertels, and Zaid Al-Ars. 2015. Heterogeneous Hardware\/Software Acceleration of the BWA-MEM DNA Alignment Algorithm. In 2015 IEEE\/ACM International Conference on Computer-Aided Design (ICCAD). IEEE, 240--246."},{"key":"e_1_3_2_1_5_1","volume-title":"A Global Reference for Human Genetic Variation. Nature 526, 7571","author":"Auton Adam","year":"2015","unstructured":"Adam Auton and et.al. 2015. A Global Reference for Human Genetic Variation. Nature 526, 7571 ( 2015 ), 68--74. Adam Auton and et.al. 2015. A Global Reference for Human Genetic Variation. Nature 526, 7571 (2015), 68--74."},{"key":"e_1_3_2_1_6_1","doi-asserted-by":"publisher","DOI":"10.1109\/MIC.2019.2958545"},{"key":"e_1_3_2_1_7_1","volume-title":"Proc. of the 8th USENIX Conference on Hot Topics in Cloud Computing","author":"Chen Yu-Ting","year":"2016","unstructured":"Yu-Ting Chen , Jason Cong , Zhenman Fang , Jie Lei , and Peng Wei . 2016 . When Apache Spark Meets FPGAs: A Case Study for Next-Generation DNA Sequencing Acceleration . In Proc. of the 8th USENIX Conference on Hot Topics in Cloud Computing ( Denver, CO). 64--70. Yu-Ting Chen, Jason Cong, Zhenman Fang, Jie Lei, and Peng Wei. 2016. When Apache Spark Meets FPGAs: A Case Study for Next-Generation DNA Sequencing Acceleration. In Proc. of the 8th USENIX Conference on Hot Topics in Cloud Computing (Denver, CO). 64--70."},{"key":"e_1_3_2_1_8_1","unstructured":"J. Cong Jie Lei Sen Li Myron Peto P. Spellman Peng Wei and Peipei Zhou. 2015. CS-BWAMEM: A Fast and Scalable Read Aligner at the Cloud Scale for Whole Genome Sequencing. In High Throughput Sequencing Algorithms and Applications (HITSEQ).  J. Cong Jie Lei Sen Li Myron Peto P. Spellman Peng Wei and Peipei Zhou. 2015. CS-BWAMEM: A Fast and Scalable Read Aligner at the Cloud Scale for Whole Genome Sequencing. In High Throughput Sequencing Algorithms and Applications (HITSEQ)."},{"key":"e_1_3_2_1_9_1","unstructured":"Databricks. 2018. Building the Fastest DNASeq Pipeline at Scale. https:\/\/databricks.com\/blog\/2018\/09\/10\/building-the-fastest-dnaseq-pipeline-at-scale.html  Databricks. 2018. Building the Fastest DNASeq Pipeline at Scale. https:\/\/databricks.com\/blog\/2018\/09\/10\/building-the-fastest-dnaseq-pipeline-at-scale.html"},{"key":"e_1_3_2_1_10_1","volume-title":"Proc. of the 6th OSDI Conference. 137--150","author":"Dean Jeffrey","year":"2004","unstructured":"Jeffrey Dean and Sanjay Ghemawat . 2004 . MapReduce: Simplified Data Processing on Large Clusters . In Proc. of the 6th OSDI Conference. 137--150 . Jeffrey Dean and Sanjay Ghemawat. 2004. MapReduce: Simplified Data Processing on Large Clusters. In Proc. of the 6th OSDI Conference. 137--150."},{"key":"e_1_3_2_1_11_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btv179"},{"volume-title":"Docker: Develop faster. Run anywhere. https:\/\/www.docker.com\/","year":"2023","key":"e_1_3_2_1_12_1","unstructured":"Docker. 2023 . Docker: Develop faster. Run anywhere. https:\/\/www.docker.com\/ Docker. 2023. Docker: Develop faster. Run anywhere. https:\/\/www.docker.com\/"},{"key":"e_1_3_2_1_13_1","volume-title":"The Design and Operation of CloudLab. In 2019 USENIX Annual Technical Conference (USENIX ATC 19)","author":"Duplyakin Dmitry","year":"2019","unstructured":"Dmitry Duplyakin , Robert Ricci , Aleksander Maricq , Gary Wong , Jonathon Duerig , Eric Eide , Leigh Stoller , Mike Hibler , David Johnson , Kirk Webb , Aditya Akella , Kuangching Wang , Glenn Ricart , Larry Landweber , Chip Elliott , Michael Zink , Emmanuel Cecchet , Snigdhaswin Kar , and Prabodh Mishra . 2019 . The Design and Operation of CloudLab. In 2019 USENIX Annual Technical Conference (USENIX ATC 19) (Renton, WA). 1--14. Dmitry Duplyakin, Robert Ricci, Aleksander Maricq, Gary Wong, Jonathon Duerig, Eric Eide, Leigh Stoller, Mike Hibler, David Johnson, Kirk Webb, Aditya Akella, Kuangching Wang, Glenn Ricart, Larry Landweber, Chip Elliott, Michael Zink, Emmanuel Cecchet, Snigdhaswin Kar, and Prabodh Mishra. 2019. The Design and Operation of CloudLab. In 2019 USENIX Annual Technical Conference (USENIX ATC 19) (Renton, WA). 1--14."},{"key":"e_1_3_2_1_14_1","unstructured":"Ensembl. 2021. Ensembl Variation - Variant Classification. https:\/\/m.ensembl.org\/info\/genome\/variation\/prediction\/classification.html  Ensembl. 2021. Ensembl Variation - Variant Classification. https:\/\/m.ensembl.org\/info\/genome\/variation\/prediction\/classification.html"},{"key":"e_1_3_2_1_15_1","volume-title":"DNAscope: High Accuracy Small Variant Calling Using Machine Learning. bioRxiv","author":"Freed Donald","year":"2022","unstructured":"Donald Freed , Renke Pan , Haodong Chen , Zhipan Li , Jinnan Hu , and Rafael Aldana . 2022. DNAscope: High Accuracy Small Variant Calling Using Machine Learning. bioRxiv ( 2022 ). https:\/\/doi.org\/10.1101\/2022.05.20.492556 10.1101\/2022.05.20.492556 Donald Freed, Renke Pan, Haodong Chen, Zhipan Li, Jinnan Hu, and Rafael Aldana. 2022. DNAscope: High Accuracy Small Variant Calling Using Machine Learning. bioRxiv (2022). https:\/\/doi.org\/10.1101\/2022.05.20.492556"},{"key":"e_1_3_2_1_16_1","unstructured":"GA4GH. 2021. The Variant Call Format (VCF) Version 4.2 Specification. https:\/\/samtools.github.io\/hts-specs\/VCFv4.2.pdf.  GA4GH. 2021. The Variant Call Format (VCF) Version 4.2 Specification. https:\/\/samtools.github.io\/hts-specs\/VCFv4.2.pdf."},{"key":"e_1_3_2_1_17_1","unstructured":"Erik Garrison and Gabor Marth. 2012. Haplotype-Based Variant Detection from Short-Read Sequencing. arXiv:1207.3907  Erik Garrison and Gabor Marth. 2012. Haplotype-Based Variant Detection from Short-Read Sequencing. arXiv:1207.3907"},{"key":"e_1_3_2_1_18_1","unstructured":"Big Data Genomics. 2020. Big Data Genomics. https:\/\/github.com\/bigdatagenomics\/  Big Data Genomics. 2020. Big Data Genomics. https:\/\/github.com\/bigdatagenomics\/"},{"key":"e_1_3_2_1_19_1","doi-asserted-by":"publisher","DOI":"10.1038\/nrg.2016.49"},{"key":"e_1_3_2_1_20_1","unstructured":"Google. 2021. DeepVariant. https:\/\/github.com\/google\/deepvariant  Google. 2021. DeepVariant. https:\/\/github.com\/google\/deepvariant"},{"key":"e_1_3_2_1_21_1","unstructured":"The SAM\/BAM Format Specification Working Group. 2021. Sequence Alignment\/Map Format Specification. https:\/\/samtools.github.io\/hts-specs\/SAMv1.pdf  The SAM\/BAM Format Specification Working Group. 2021. Sequence Alignment\/Map Format Specification. https:\/\/samtools.github.io\/hts-specs\/SAMv1.pdf"},{"key":"e_1_3_2_1_22_1","doi-asserted-by":"publisher","DOI":"10.1145\/4472.4478"},{"key":"e_1_3_2_1_23_1","unstructured":"Illumina. 2020. DRAGEN Wins at PrecisionFDA Truth Challenge V2 Showcase Accuracy Gains from Alt-aware Mapping and Graph Reference Genomes. https:\/\/www.illumina.com\/science\/genomics-research\/articles\/dragen-wins-precisionfda-challenge-accuracy-gains.html  Illumina. 2020. DRAGEN Wins at PrecisionFDA Truth Challenge V2 Showcase Accuracy Gains from Alt-aware Mapping and Graph Reference Genomes. https:\/\/www.illumina.com\/science\/genomics-research\/articles\/dragen-wins-precisionfda-challenge-accuracy-gains.html"},{"key":"e_1_3_2_1_24_1","unstructured":"Illumina. 2022. DRAGEN. https:\/\/developer.illumina.com\/dragen  Illumina. 2022. DRAGEN. https:\/\/developer.illumina.com\/dragen"},{"key":"e_1_3_2_1_25_1","unstructured":"Broad Institute. 2020. HaplotypeCaller in a Nutshell. https:\/\/gatk.broadinstitute.org\/hc\/en-us\/articles\/360035531412-HaplotypeCaller-in-a-nutshell  Broad Institute. 2020. HaplotypeCaller in a Nutshell. https:\/\/gatk.broadinstitute.org\/hc\/en-us\/articles\/360035531412-HaplotypeCaller-in-a-nutshell"},{"key":"e_1_3_2_1_26_1","unstructured":"Broad Institute. 2021. Genome Analysis Toolkit. https:\/\/gatk.broadinstitute.org\/hc\/en-us  Broad Institute. 2021. Genome Analysis Toolkit. https:\/\/gatk.broadinstitute.org\/hc\/en-us"},{"key":"e_1_3_2_1_27_1","unstructured":"Broad Institute. 2023. GATK4. https:\/\/gatk.broadinstitute.org\/hc\/en-us\/articles\/360035890591-Spark  Broad Institute. 2023. GATK4. https:\/\/gatk.broadinstitute.org\/hc\/en-us\/articles\/360035890591-Spark"},{"key":"e_1_3_2_1_28_1","unstructured":"National Human Genome Research Institute. 2021. The Cost of Sequencing a Human Genome. https:\/\/www.genome.gov\/about-genomics\/fact-sheets\/Sequencing-Human-Genome-cost  National Human Genome Research Institute. 2021. The Cost of Sequencing a Human Genome. https:\/\/www.genome.gov\/about-genomics\/fact-sheets\/Sequencing-Human-Genome-cost"},{"key":"e_1_3_2_1_29_1","unstructured":"Welcome Trust Sanger Institute. 2000. FASTQ Format Specification. https:\/\/maq.sourceforge.net\/fastq.shtml  Welcome Trust Sanger Institute. 2000. FASTQ Format Specification. https:\/\/maq.sourceforge.net\/fastq.shtml"},{"key":"e_1_3_2_1_30_1","doi-asserted-by":"publisher","DOI":"10.1186\/s13073-020-00791-w"},{"key":"e_1_3_2_1_31_1","volume-title":"Biodoop: Bioinformatics on Hadoop. In 2009 International Conference on Parallel Processing Workshops. IEEE, 415--422","author":"Leo Simone","year":"2009","unstructured":"Simone Leo , Federico Santoni , and Gianluigi Zanetti . 2009 . Biodoop: Bioinformatics on Hadoop. In 2009 International Conference on Parallel Processing Workshops. IEEE, 415--422 . Simone Leo, Federico Santoni, and Gianluigi Zanetti. 2009. Biodoop: Bioinformatics on Hadoop. In 2009 International Conference on Parallel Processing Workshops. IEEE, 415--422."},{"key":"e_1_3_2_1_32_1","volume-title":"Aligning Sequence Reads, Clone Sequences and Assembly Contigs With BWA-MEM. arXiv e-prints (March","author":"Heng Li.","year":"2013","unstructured":"Heng Li. 2013. Aligning Sequence Reads, Clone Sequences and Assembly Contigs With BWA-MEM. arXiv e-prints (March 2013 ), arXiv:1303.3997. arXiv:1303.3997 Heng Li. 2013. Aligning Sequence Reads, Clone Sequences and Assembly Contigs With BWA-MEM. arXiv e-prints (March 2013), arXiv:1303.3997. arXiv:1303.3997"},{"key":"e_1_3_2_1_33_1","volume-title":"Algorithm-Hardware Co-design for BQSR Acceleration in Genome Analysis ToolKit. In 2020 IEEE 28th Annual International Symposium on Field-Programmable Custom Computing Machines (FCCM). 157--166","author":"Lo Michael","year":"2020","unstructured":"Michael Lo , Zhenman Fang , Jie Wang , Peipei Zhou , Mau-Chung Frank Chang , and Jason Cong . 2020 . Algorithm-Hardware Co-design for BQSR Acceleration in Genome Analysis ToolKit. In 2020 IEEE 28th Annual International Symposium on Field-Programmable Custom Computing Machines (FCCM). 157--166 . Michael Lo, Zhenman Fang, Jie Wang, Peipei Zhou, Mau-Chung Frank Chang, and Jason Cong. 2020. Algorithm-Hardware Co-design for BQSR Acceleration in Genome Analysis ToolKit. In 2020 IEEE 28th Annual International Symposium on Field-Programmable Custom Computing Machines (FCCM). 157--166."},{"key":"e_1_3_2_1_34_1","unstructured":"Microsoft. 2020. Microsoft Genomics. https:\/\/www.microsoft.com\/en-us\/genomics\/  Microsoft. 2020. Microsoft Genomics. https:\/\/www.microsoft.com\/en-us\/genomics\/"},{"key":"e_1_3_2_1_35_1","unstructured":"NCBI. 2013. Genome Reference Consortium Human Build 38. https:\/\/www.ncbi.nlm.nih.gov\/assembly\/GCF_000001405.26\/  NCBI. 2013. Genome Reference Consortium Human Build 38. https:\/\/www.ncbi.nlm.nih.gov\/assembly\/GCF_000001405.26\/"},{"key":"e_1_3_2_1_36_1","doi-asserted-by":"publisher","DOI":"10.1186\/1756-0500-4-171"},{"key":"e_1_3_2_1_37_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bts054"},{"key":"e_1_3_2_1_38_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btt528"},{"key":"e_1_3_2_1_39_1","unstructured":"Frank A. Nothaft. 2017. Scalable Systems and Algorithms for Genomic Variant Analysis. Ph. D. Dissertation. UC Berkeley ProQuest.  Frank A. Nothaft. 2017. Scalable Systems and Algorithms for Genomic Variant Analysis. Ph. D. Dissertation. UC Berkeley ProQuest."},{"volume-title":"Proc. of the 2015 ACM SIGMOD Conference","author":"Nothaft Frank Austin","key":"e_1_3_2_1_40_1","unstructured":"Frank Austin Nothaft , Matt Massie , Timothy Danford , Zhao Zhang , Uri Laserson , Carl Yeksigian , Jey Kottalam , Arun Ahuja , Jeff Hammerbacher , Michael D. Linderman , Michael J. Franklin , Anthony D. Joseph , and David A. Patterson . 2015. Rethinking Data-Intensive Science Using Scalable Analytics Systems . In Proc. of the 2015 ACM SIGMOD Conference ( Victoria, Australia). 631--646. Frank Austin Nothaft, Matt Massie, Timothy Danford, Zhao Zhang, Uri Laserson, Carl Yeksigian, Jey Kottalam, Arun Ahuja, Jeff Hammerbacher, Michael D. Linderman, Michael J. Franklin, Anthony D. Joseph, and David A. Patterson. 2015. Rethinking Data-Intensive Science Using Scalable Analytics Systems. In Proc. of the 2015 ACM SIGMOD Conference (Victoria, Australia). 631--646."},{"key":"e_1_3_2_1_41_1","unstructured":"NVIDIA. 2020. NVIDIA Clara Parabricks. https:\/\/developer.nvidia.com\/clara-parabricks  NVIDIA. 2020. NVIDIA Clara Parabricks. https:\/\/developer.nvidia.com\/clara-parabricks"},{"key":"e_1_3_2_1_42_1","volume-title":"Klenk","author":"O'Connell Kyle A.","year":"2023","unstructured":"Kyle A. O'Connell , Zelaikha B. Yosufzai , Ross A. Campbell , Collin J. Lobb , Haley T. Engelken , Laura M. Gorrell , Thad B. Carlson , Josh J. Catana , Dina Mikdadi , Vivien R. Bonazzi , and Juergen A . Klenk . 2023 . Accelerating Genomic Workflows Using NVIDIA Parabricks. BMC Bioinformatics 24 (2023). Kyle A. O'Connell, Zelaikha B. Yosufzai, Ross A. Campbell, Collin J. Lobb, Haley T. Engelken, Laura M. Gorrell, Thad B. Carlson, Josh J. Catana, Dina Mikdadi, Vivien R. Bonazzi, and Juergen A. Klenk. 2023. Accelerating Genomic Workflows Using NVIDIA Parabricks. BMC Bioinformatics 24 (2023)."},{"key":"e_1_3_2_1_43_1","doi-asserted-by":"publisher","DOI":"10.1145\/1376616.1376726"},{"key":"e_1_3_2_1_44_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btr325"},{"key":"e_1_3_2_1_45_1","doi-asserted-by":"publisher","DOI":"10.1038\/nbt.4235"},{"key":"e_1_3_2_1_46_1","volume-title":"Enabling Large-Scale Human Genome Sequence Analysis on CloudLab. In IEEE INFOCOM 2022 - IEEE Conference on Computer Communications Workshops (INFOCOM WKSHPS). 1--2.","author":"Rao Praveen","year":"2022","unstructured":"Praveen Rao and Arun Zachariah . 2022 . Enabling Large-Scale Human Genome Sequence Analysis on CloudLab. In IEEE INFOCOM 2022 - IEEE Conference on Computer Communications Workshops (INFOCOM WKSHPS). 1--2. Praveen Rao and Arun Zachariah. 2022. Enabling Large-Scale Human Genome Sequence Analysis on CloudLab. In IEEE INFOCOM 2022 - IEEE Conference on Computer Communications Workshops (INFOCOM WKSHPS). 1--2."},{"key":"e_1_3_2_1_47_1","doi-asserted-by":"publisher","DOI":"10.1145\/3459637.3482047"},{"key":"e_1_3_2_1_48_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btp236"},{"key":"e_1_3_2_1_49_1","volume-title":"Somatic small-variant calling methods in Illumina DRAGEN? Secondary Analysis. bioRxiv","author":"Scheffler Konrad","year":"2023","unstructured":"Konrad Scheffler , Severine Catreux , Taylor O'Connell , Heejoon Jo , Varun Jain , Theo Heyns , Jeffrey Yuan , Lisa Murray , James Han , and Rami Mehio . 2023. Somatic small-variant calling methods in Illumina DRAGEN? Secondary Analysis. bioRxiv ( 2023 ). arXiv:2023.03.23.534011 Konrad Scheffler, Severine Catreux, Taylor O'Connell, Heejoon Jo, Varun Jain, Theo Heyns, Jeffrey Yuan, Lisa Murray, James Han, and Rami Mehio. 2023. Somatic small-variant calling methods in Illumina DRAGEN? Secondary Analysis. bioRxiv (2023). arXiv:2023.03.23.534011"},{"key":"e_1_3_2_1_50_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btt601"},{"key":"e_1_3_2_1_51_1","unstructured":"Sentieon. 2023. Enabling Precision Data for Precision Medicine. https:\/\/www.sentieon.com\/  Sentieon. 2023. Enabling Precision Data for Precision Medicine. https:\/\/www.sentieon.com\/"},{"key":"e_1_3_2_1_52_1","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pbio.1002195"},{"key":"e_1_3_2_1_53_1","doi-asserted-by":"publisher","DOI":"10.1038\/s10038-020-00862-1"},{"key":"e_1_3_2_1_54_1","unstructured":"Stanford University. 2023. Stanford Genomics. https:\/\/med.stanford.edu\/sfgf\/services\/sequencing.html  Stanford University. 2023. Stanford Genomics. https:\/\/med.stanford.edu\/sfgf\/services\/sequencing.html"},{"key":"e_1_3_2_1_55_1","volume-title":"Hadoop: The Definitive Guide","author":"White Tom","year":"2009","unstructured":"Tom White . 2009 . Hadoop: The Definitive Guide ( 1 st ed.). O'Reilly Media, Inc. Tom White. 2009. Hadoop: The Definitive Guide (1st ed.). O'Reilly Media, Inc.","edition":"1"},{"key":"e_1_3_2_1_56_1","volume-title":"Cox","author":"Xu Tiancheng","year":"2023","unstructured":"Tiancheng Xu , Scott Rixner , and Alan L . Cox . 2023 . An FPGA Accelerator for Genome Variant Calling. ACM Transactions on Reconfigurable Technology and Systems (May 2023), 1--20. Tiancheng Xu, Scott Rixner, and Alan L. Cox. 2023. An FPGA Accelerator for Genome Variant Calling. ACM Transactions on Reconfigurable Technology and Systems (May 2023), 1--20."},{"key":"e_1_3_2_1_57_1","doi-asserted-by":"publisher","DOI":"10.1145\/3400286.3418243"},{"key":"e_1_3_2_1_58_1","volume-title":"Scalable Cohort Variant Calls Using DeepVariant and GLnexus. Bioinformatics 36, 24 (01","author":"Yun Taedong","year":"2021","unstructured":"Taedong Yun , Helen Li , Pi-Chuan Chang , Michael F Lin , Andrew Carroll , and Cory Y McLean . 2021. Accurate , Scalable Cohort Variant Calls Using DeepVariant and GLnexus. Bioinformatics 36, 24 (01 2021 ), 5582--5589. Taedong Yun, Helen Li, Pi-Chuan Chang, Michael F Lin, Andrew Carroll, and Cory Y McLean. 2021. Accurate, Scalable Cohort Variant Calls Using DeepVariant and GLnexus. Bioinformatics 36, 24 (01 2021), 5582--5589."},{"key":"e_1_3_2_1_59_1","volume-title":"Proc. of the 2nd USENIX Conference on Hot Topics in Cloud Computing","author":"Zaharia Matei","year":"2010","unstructured":"Matei Zaharia , Mosharaf Chowdhury , Michael J. Franklin , Scott Shenker , and Ion Stoica . 2010 . Spark: Cluster Computing with Working Sets . In Proc. of the 2nd USENIX Conference on Hot Topics in Cloud Computing . Boston, MA, 10--10. Matei Zaharia, Mosharaf Chowdhury, Michael J. Franklin, Scott Shenker, and Ion Stoica. 2010. Spark: Cluster Computing with Working Sets. In Proc. of the 2nd USENIX Conference on Hot Topics in Cloud Computing. Boston, MA, 10--10."},{"key":"e_1_3_2_1_60_1","volume-title":"PipeMEM: A Framework to Speed Up BWA-MEM in Spark with Low Overhead. Genes 10, 11","author":"Zhang Lingqi","year":"2019","unstructured":"Lingqi Zhang , Cheng Liu , and Shoubin Dong . 2019. PipeMEM: A Framework to Speed Up BWA-MEM in Spark with Low Overhead. Genes 10, 11 ( 2019 ). Lingqi Zhang, Cheng Liu, and Shoubin Dong. 2019. PipeMEM: A Framework to Speed Up BWA-MEM in Spark with Low Overhead. Genes 10, 11 (2019)."}],"event":{"name":"CIKM '23: The 32nd ACM International Conference on Information and Knowledge Management","sponsor":["SIGWEB ACM Special Interest Group on Hypertext, Hypermedia, and Web","SIGIR ACM Special Interest Group on Information Retrieval"],"location":"Birmingham United Kingdom","acronym":"CIKM '23"},"container-title":["Proceedings of the 32nd ACM International Conference on Information and Knowledge Management"],"original-title":[],"link":[{"URL":"https:\/\/dl.acm.org\/doi\/10.1145\/3583780.3615268","content-type":"unspecified","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/dl.acm.org\/doi\/pdf\/10.1145\/3583780.3615268","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/dl.acm.org\/doi\/pdf\/10.1145\/3583780.3615268","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,6,17]],"date-time":"2025-06-17T16:36:58Z","timestamp":1750178218000},"score":1,"resource":{"primary":{"URL":"https:\/\/dl.acm.org\/doi\/10.1145\/3583780.3615268"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2023,10,21]]},"references-count":60,"alternative-id":["10.1145\/3583780.3615268","10.1145\/3583780"],"URL":"https:\/\/doi.org\/10.1145\/3583780.3615268","relation":{},"subject":[],"published":{"date-parts":[[2023,10,21]]},"assertion":[{"value":"2023-10-21","order":2,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}]}}