{"id":"https://openalex.org/W2610995603","doi":"https://doi.org/10.1371/journal.pcbi.1005483","title":"Nucleotide-time alignment for molecular recorders","display_name":"Nucleotide-time alignment for molecular recorders","publication_year":2017,"publication_date":"2017-05-01","ids":{"openalex":"https://openalex.org/W2610995603","doi":"https://doi.org/10.1371/journal.pcbi.1005483","mag":"2610995603","pmid":"https://pubmed.ncbi.nlm.nih.gov/28459860"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1005483","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1005483","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005483&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005483&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5078437281","display_name":"Thaddeus R. Cybulski","orcid":"https://orcid.org/0000-0003-0613-7617"},"institutions":[{"id":"https://openalex.org/I111979921","display_name":"Northwestern University","ror":"https://ror.org/000e0be47","country_code":"US","type":"education","lineage":["https://openalex.org/I111979921"]},{"id":"https://openalex.org/I1324242722","display_name":"Shirley Ryan AbilityLab","ror":"https://ror.org/02ja0m249","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1324242722"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Thaddeus R. Cybulski","raw_affiliation_strings":["Department of Physical Medicine and Rehabilitation, Rehabilitation Institute of Chicago, Northwestern University, Chicago, Illinois, United States of America"],"affiliations":[{"raw_affiliation_string":"Department of Physical Medicine and Rehabilitation, Rehabilitation Institute of Chicago, Northwestern University, Chicago, Illinois, United States of America","institution_ids":["https://openalex.org/I1324242722","https://openalex.org/I111979921"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5109593948","display_name":"Edward S. Boyden","orcid":null},"institutions":[{"id":"https://openalex.org/I144112489","display_name":"McGovern Institute for Brain Research","ror":"https://ror.org/05ymca674","country_code":"US","type":"facility","lineage":["https://openalex.org/I144112489","https://openalex.org/I63966007"]},{"id":"https://openalex.org/I63966007","display_name":"Massachusetts Institute of Technology","ror":"https://ror.org/042nb2s44","country_code":"US","type":"education","lineage":["https://openalex.org/I63966007"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Edward S. Boyden","raw_affiliation_strings":["Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States of America","McGovern Institute, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States of America","Media Lab, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States of America"],"affiliations":[{"raw_affiliation_string":"Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States of America","institution_ids":["https://openalex.org/I63966007"]},{"raw_affiliation_string":"McGovern Institute, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States of America","institution_ids":["https://openalex.org/I144112489","https://openalex.org/I63966007"]},{"raw_affiliation_string":"Media Lab, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States of America","institution_ids":["https://openalex.org/I63966007"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103076360","display_name":"George M. Church","orcid":null},"institutions":[{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"George M. Church","raw_affiliation_strings":["Biophysics Program, Harvard University, Boston, Massachusetts, United States of America","Department of Genetics, Harvard Medical School, Harvard University, Boston, Massachusetts, United States of America","Wyss Institute, Harvard University, Boston, Massachusetts, United States of America"],"affiliations":[{"raw_affiliation_string":"Biophysics Program, Harvard University, Boston, Massachusetts, United States of America","institution_ids":["https://openalex.org/I136199984"]},{"raw_affiliation_string":"Department of Genetics, Harvard Medical School, Harvard University, Boston, Massachusetts, United States of America","institution_ids":["https://openalex.org/I136199984"]},{"raw_affiliation_string":"Wyss Institute, Harvard University, Boston, Massachusetts, United States of America","institution_ids":["https://openalex.org/I136199984"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5049701357","display_name":"Keith E. J. Tyo","orcid":"https://orcid.org/0000-0002-2342-0687"},"institutions":[{"id":"https://openalex.org/I111979921","display_name":"Northwestern University","ror":"https://ror.org/000e0be47","country_code":"US","type":"education","lineage":["https://openalex.org/I111979921"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Keith E. J. Tyo","raw_affiliation_strings":["Department of Chemical and Biological Engineering, Northwestern University, Evanston, Illinois, United States of America"],"affiliations":[{"raw_affiliation_string":"Department of Chemical and Biological Engineering, Northwestern University, Evanston, Illinois, United States of America","institution_ids":["https://openalex.org/I111979921"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5072047827","display_name":"Konrad P. K\u00f6rding","orcid":"https://orcid.org/0000-0001-8408-4499"},"institutions":[{"id":"https://openalex.org/I111979921","display_name":"Northwestern University","ror":"https://ror.org/000e0be47","country_code":"US","type":"education","lineage":["https://openalex.org/I111979921"]},{"id":"https://openalex.org/I1324242722","display_name":"Shirley Ryan AbilityLab","ror":"https://ror.org/02ja0m249","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1324242722"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Konrad P. Kording","raw_affiliation_strings":["Department of Applied Mathematics, Northwestern University, Evanston, Illinois, United States of America","Department of Physical Medicine and Rehabilitation, Rehabilitation Institute of Chicago, Northwestern University, Chicago, Illinois, United States of America","Department of Physiology, Northwestern University, Chicago, Illinois, United States of America"],"affiliations":[{"raw_affiliation_string":"Department of Applied Mathematics, Northwestern University, Evanston, Illinois, United States of America","institution_ids":["https://openalex.org/I111979921"]},{"raw_affiliation_string":"Department of Physical Medicine and Rehabilitation, Rehabilitation Institute of Chicago, Northwestern University, Chicago, Illinois, United States of America","institution_ids":["https://openalex.org/I1324242722","https://openalex.org/I111979921"]},{"raw_affiliation_string":"Department of Physiology, Northwestern University, Chicago, Illinois, United States of America","institution_ids":["https://openalex.org/I111979921"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5078437281"],"corresponding_institution_ids":["https://openalex.org/I111979921","https://openalex.org/I1324242722"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.04487641,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"13","issue":"5","first_page":"e1005483","last_page":"e1005483"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10581","display_name":"Neural dynamics and brain function","score":0.9990000128746033,"subfield":{"id":"https://openalex.org/subfields/2805","display_name":"Cognitive Neuroscience"},"field":{"id":"https://openalex.org/fields/28","display_name":"Neuroscience"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10581","display_name":"Neural dynamics and brain function","score":0.9990000128746033,"subfield":{"id":"https://openalex.org/subfields/2805","display_name":"Cognitive Neuroscience"},"field":{"id":"https://openalex.org/fields/28","display_name":"Neuroscience"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11178","display_name":"Receptor Mechanisms and Signaling","score":0.9811999797821045,"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/T10429","display_name":"EEG and Brain-Computer Interfaces","score":0.9781000018119812,"subfield":{"id":"https://openalex.org/subfields/2805","display_name":"Cognitive Neuroscience"},"field":{"id":"https://openalex.org/fields/28","display_name":"Neuroscience"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/dynamic-time-warping","display_name":"Dynamic time warping","score":0.6659874320030212},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.654448390007019},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.4560823440551758},{"id":"https://openalex.org/keywords/in-silico","display_name":"In silico","score":0.4329957365989685},{"id":"https://openalex.org/keywords/biological-system","display_name":"Biological system","score":0.3611997365951538},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.269375741481781},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2692462205886841},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.13869628310203552}],"concepts":[{"id":"https://openalex.org/C88516994","wikidata":"https://www.wikidata.org/wiki/Q1268863","display_name":"Dynamic time warping","level":2,"score":0.6659874320030212},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.654448390007019},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.4560823440551758},{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.4329957365989685},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.3611997365951538},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.269375741481781},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2692462205886841},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.13869628310203552},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002118","descriptor_name":"Calcium","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D002118","descriptor_name":"Calcium","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D002118","descriptor_name":"Calcium","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D002118","descriptor_name":"Calcium","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D002118","descriptor_name":"Calcium","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D002118","descriptor_name":"Calcium","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D004259","descriptor_name":"DNA-Directed DNA Polymerase","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004259","descriptor_name":"DNA-Directed DNA Polymerase","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004259","descriptor_name":"DNA-Directed DNA Polymerase","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009474","descriptor_name":"Neurons","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009474","descriptor_name":"Neurons","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009474","descriptor_name":"Neurons","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009488","descriptor_name":"Neurosciences","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009488","descriptor_name":"Neurosciences","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009488","descriptor_name":"Neurosciences","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009711","descriptor_name":"Nucleotides","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":true},{"descriptor_ui":"D009711","descriptor_name":"Nucleotides","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":true},{"descriptor_ui":"D009711","descriptor_name":"Nucleotides","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":true},{"descriptor_ui":"D009711","descriptor_name":"Nucleotides","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D009711","descriptor_name":"Nucleotides","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D009711","descriptor_name":"Nucleotides","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":7,"locations":[{"id":"doi:10.1371/journal.pcbi.1005483","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1005483","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005483&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:28459860","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/28459860","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:dash.harvard.edu:1/33029846","is_oa":true,"landing_page_url":"http://nrs.harvard.edu/urn-3:HUL.InstRepos:33029846","pdf_url":null,"source":{"id":"https://openalex.org/S4306401540","display_name":"Digital Access to Scholarship at Harvard (DASH) (Harvard University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I136199984","host_organization_name":"Harvard University","host_organization_lineage":["https://openalex.org/I136199984"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Journal Article"},{"id":"pmh:oai:RePEc:plo:pcbi00:1005483","is_oa":false,"landing_page_url":"https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1005483","pdf_url":null,"source":{"id":"https://openalex.org/S4306401271","display_name":"RePEc: Research Papers in Economics","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I77793887","host_organization_name":"Federal Reserve Bank of St. Louis","host_organization_lineage":["https://openalex.org/I77793887"],"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":"article"},{"id":"pmh:oai:doaj.org/article:933b8bc4c1494416aab3b78704b6866d","is_oa":true,"landing_page_url":"https://doaj.org/article/933b8bc4c1494416aab3b78704b6866d","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 13, Iss 5, p e1005483 (2017)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:4294394","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5432193","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:figshare.com:article/4958792","is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/Nucleotide-time_alignment_for_molecular_recorders/4958792","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Dataset"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1005483","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1005483","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005483&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2116388654","display_name":null,"funder_award_id":"1R01MH103910","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G2296835010","display_name":null,"funder_award_id":"MH103910","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3200173757","display_name":null,"funder_award_id":"R01MH103910","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4334357142","display_name":null,"funder_award_id":"1DP1NS087724","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7170034006","display_name":null,"funder_award_id":"Pioneer","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7872550276","display_name":null,"funder_award_id":"1R01MH103910-01","funder_id":"https://openalex.org/F4320337349","funder_display_name":"NIH Office of the Director"}],"funders":[{"id":"https://openalex.org/F4320307384","display_name":"New York Stem Cell Foundation","ror":"https://ror.org/03n2a3p06"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337349","display_name":"NIH Office of the Director","ror":"https://ror.org/00fj8a872"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2610995603.pdf","grobid_xml":"https://content.openalex.org/works/W2610995603.grobid-xml"},"referenced_works_count":40,"referenced_works":["https://openalex.org/W116902681","https://openalex.org/W1560013842","https://openalex.org/W1930229395","https://openalex.org/W1964491684","https://openalex.org/W1971007813","https://openalex.org/W2004869342","https://openalex.org/W2016189066","https://openalex.org/W2019307060","https://openalex.org/W2022288730","https://openalex.org/W2041545661","https://openalex.org/W2061744336","https://openalex.org/W2065286706","https://openalex.org/W2067209153","https://openalex.org/W2080580112","https://openalex.org/W2089315051","https://openalex.org/W2102199381","https://openalex.org/W2108539496","https://openalex.org/W2115125685","https://openalex.org/W2119150736","https://openalex.org/W2128160875","https://openalex.org/W2128636568","https://openalex.org/W2137089646","https://openalex.org/W2139106564","https://openalex.org/W2141895024","https://openalex.org/W2144736080","https://openalex.org/W2145031157","https://openalex.org/W2146693544","https://openalex.org/W2148817522","https://openalex.org/W2152112318","https://openalex.org/W2161831889","https://openalex.org/W2164202285","https://openalex.org/W2165253089","https://openalex.org/W2169087643","https://openalex.org/W2230002436","https://openalex.org/W2340348677","https://openalex.org/W2949938118","https://openalex.org/W2950124509","https://openalex.org/W2980804970","https://openalex.org/W3006083116","https://openalex.org/W3145243350"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2030799363","https://openalex.org/W2950183183","https://openalex.org/W2341338763","https://openalex.org/W2288425735","https://openalex.org/W2349923317","https://openalex.org/W2894081631","https://openalex.org/W2986063033","https://openalex.org/W2040439981","https://openalex.org/W2472888994"],"abstract_inverted_index":{"Using":[0],"a":[1,13,80,130,162,208,231,235,263,286],"DNA":[2,68,148,250],"polymerase":[3,149,222],"to":[4,85,98,102,132,158,181,192,217,267],"record":[5],"intracellular":[6],"calcium":[7],"levels":[8],"has":[9],"been":[10],"proposed":[11],"as":[12,234,271,273],"novel":[14],"neural":[15,36,92,106,175],"recording":[16,139,142,163],"technique,":[17],"promising":[18],"massive-scale,":[19],"single-cell":[20],"resolution":[21],"monitoring":[22],"of":[23,26,35,40,46,52,105,115,161,169,196,203,221,230,237,247,276,282],"large":[24],"portions":[25],"the":[27,55,70,113,137,167,190,200,219,228,280],"brain.":[28],"This":[29,110,260],"technique":[30,180],"relies":[31],"on":[32,224],"local":[33],"storage":[34],"activity":[37,93,107],"in":[38,123,183],"strands":[39],"DNA,":[41],"followed":[42],"by":[43,66],"offline":[44],"analysis":[45],"that":[47,277],"DNA.":[48],"In":[49],"simple":[50],"implementations":[51],"this":[53,87,215],"scheme,":[54],"time":[56],"when":[57],"each":[58],"nucleotide":[59],"was":[60],"written":[61],"cannot":[62],"be":[63,74],"determined":[64],"directly":[65],"post-hoc":[67],"sequencing;":[69],"timing":[71],"data":[72,198],"must":[73],"estimated":[75],"instead.":[76],"Here,":[77],"we":[78],"use":[79,214],"Dynamic":[81,117],"Time":[82,118],"Warping-based":[83],"algorithm":[84,111,127,152,191,216],"perform":[86],"estimation,":[88],"exploiting":[89],"correlations":[90],"between":[91],"and":[94,145,173,199,240],"observed":[95],"experimental":[96],"variables":[97],"translate":[99],"DNA-based":[100,156,197],"signals":[101],"an":[103,182],"estimate":[104,193],"over":[108],"time.":[109],"improves":[112],"parallelizability":[114],"traditional":[116],"Warping,":[119],"allowing":[120,165],"several-fold":[121],"increases":[122],"computation":[124],"speed.":[125],"The":[126,151],"also":[128,213],"provides":[129],"solution":[131],"several":[133],"critical":[134],"problems":[135],"with":[136,147],"molecular":[138,232,283],"paradigm:":[140],"determining":[141,227],"start":[143],"times":[144,172],"coping":[146],"pausing.":[150],"can":[153],"generally":[154],"locate":[155],"records":[157],"within":[159],"<10%":[160],"window,":[164],"for":[166,249,255,290],"estimation":[168],"unobserved":[170],"incorporation":[171],"latent":[174],"tunings.":[176],"We":[177,212,243],"apply":[178],"our":[179],"silico":[184],"motor":[185,204],"control":[186],"neuroscience":[187],"experiment,":[188],"using":[189],"both":[194],"timings":[195],"directional":[201],"tuning":[202],"cortical":[205],"cells":[206],"during":[207],"center-out":[209],"reaching":[210],"task.":[211],"explore":[218],"impact":[220],"characteristics":[223],"system":[225],"performance,":[226],"precision":[229],"recorder":[233],"function":[236],"its":[238],"kinetic":[239],"error-generating":[241],"properties.":[242],"find":[244],"useful":[245,264],"ranges":[246],"properties":[248],"polymerase-based":[251],"recorders,":[252,284],"providing":[253,285],"guidance":[254],"future":[256,291],"protein":[257],"engineering":[258],"attempts.":[259],"work":[261],"demonstrates":[262],"general":[265],"extension":[266,278],"dynamic":[268],"alignment":[269],"algorithms,":[270],"well":[272],"direct":[274],"applications":[275],"toward":[279],"development":[281],"necessary":[287],"stepping":[288],"stone":[289],"biological":[292],"work.":[293]},"counts_by_year":[],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
