{"id":"https://openalex.org/W2033012990","doi":"https://doi.org/10.1021/tx010062i","title":"Locating Nucleobase Lesions within DNA Sequences by MALDI-TOF Mass Spectral Analysis of Exonuclease Ladders","display_name":"Locating Nucleobase Lesions within DNA Sequences by MALDI-TOF Mass Spectral Analysis of Exonuclease Ladders","publication_year":2001,"publication_date":"2001-07-14","ids":{"openalex":"https://openalex.org/W2033012990","doi":"https://doi.org/10.1021/tx010062i","mag":"2033012990","pmid":"https://pubmed.ncbi.nlm.nih.gov/11511180"},"language":"en","primary_location":{"id":"doi:10.1021/tx010062i","doi":"https://doi.org/10.1021/tx010062i","is_oa":false,"landing_page_url":"https://doi.org/10.1021/tx010062i","pdf_url":null,"source":{"id":"https://openalex.org/S152840809","display_name":"Chemical Research in Toxicology","issn_l":"0893-228X","issn":["0893-228X","1520-5010"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-b","doyens","jufo-2","ki-jl-1","medline","norway-1","poland-100","russia-white-list-2","vabb-shw"],"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Chemical Research in Toxicology","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5068509910","display_name":"Natalia Y. Tretyakova","orcid":"https://orcid.org/0000-0002-0621-6860","observed_orcids":["https://orcid.org/0000-0002-0621-6860"]},"institutions":[{"id":"https://openalex.org/I130238516","display_name":"University of Minnesota","ror":"https://ror.org/017zqws13","country_code":"US","type":"education","lineage":["https://openalex.org/I130238516"]},{"id":"https://openalex.org/I4390039358","display_name":"Masonic Cancer Center","ror":"https://ror.org/05x083d20","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I130238516","https://openalex.org/I4390039358"]},{"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":"Natalia Tretyakova","raw_affiliation_strings":["University of Minnesota Cancer Center and Department of Medicinal Chemistry, Minneapolis, Minnesota 55455, and Division of Bioengineering and Environmental Health and Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Minnesota Cancer Center and Department of Medicinal Chemistry, Minneapolis, Minnesota 55455, and Division of Bioengineering and Environmental Health and Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139","institution_ids":["https://openalex.org/I130238516","https://openalex.org/I4390039358","https://openalex.org/I63966007"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051890901","display_name":"Brock A. Matter","orcid":"https://orcid.org/0000-0002-6339-3820","observed_orcids":["https://orcid.org/0000-0002-6339-3820"]},"institutions":[{"id":"https://openalex.org/I130238516","display_name":"University of Minnesota","ror":"https://ror.org/017zqws13","country_code":"US","type":"education","lineage":["https://openalex.org/I130238516"]},{"id":"https://openalex.org/I4390039358","display_name":"Masonic Cancer Center","ror":"https://ror.org/05x083d20","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I130238516","https://openalex.org/I4390039358"]},{"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":"Brock Matter","raw_affiliation_strings":["University of Minnesota Cancer Center and Department of Medicinal Chemistry, Minneapolis, Minnesota 55455, and Division of Bioengineering and Environmental Health and Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Minnesota Cancer Center and Department of Medicinal Chemistry, Minneapolis, Minnesota 55455, and Division of Bioengineering and Environmental Health and Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139","institution_ids":["https://openalex.org/I130238516","https://openalex.org/I4390039358","https://openalex.org/I63966007"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014427334","display_name":"Alexis Ogdie","orcid":"https://orcid.org/0000-0002-4639-0775","observed_orcids":["https://orcid.org/0000-0002-4639-0775"]},"institutions":[{"id":"https://openalex.org/I130238516","display_name":"University of Minnesota","ror":"https://ror.org/017zqws13","country_code":"US","type":"education","lineage":["https://openalex.org/I130238516"]},{"id":"https://openalex.org/I4390039358","display_name":"Masonic Cancer Center","ror":"https://ror.org/05x083d20","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I130238516","https://openalex.org/I4390039358"]},{"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":"Alexis Ogdie","raw_affiliation_strings":["University of Minnesota Cancer Center and Department of Medicinal Chemistry, Minneapolis, Minnesota 55455, and Division of Bioengineering and Environmental Health and Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Minnesota Cancer Center and Department of Medicinal Chemistry, Minneapolis, Minnesota 55455, and Division of Bioengineering and Environmental Health and Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139","institution_ids":["https://openalex.org/I130238516","https://openalex.org/I4390039358","https://openalex.org/I63966007"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110780316","display_name":"John S. Wishnok","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I130238516","display_name":"University of Minnesota","ror":"https://ror.org/017zqws13","country_code":"US","type":"education","lineage":["https://openalex.org/I130238516"]},{"id":"https://openalex.org/I4390039358","display_name":"Masonic Cancer Center","ror":"https://ror.org/05x083d20","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I130238516","https://openalex.org/I4390039358"]},{"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":"John S. Wishnok","raw_affiliation_strings":["University of Minnesota Cancer Center and Department of Medicinal Chemistry, Minneapolis, Minnesota 55455, and Division of Bioengineering and Environmental Health and Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Minnesota Cancer Center and Department of Medicinal Chemistry, Minneapolis, Minnesota 55455, and Division of Bioengineering and Environmental Health and Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139","institution_ids":["https://openalex.org/I130238516","https://openalex.org/I4390039358","https://openalex.org/I63966007"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5088589795","display_name":"Steven R. Tannenbaum","orcid":"https://orcid.org/0000-0003-1819-3181","observed_orcids":["https://orcid.org/0000-0003-1819-3181"]},"institutions":[{"id":"https://openalex.org/I130238516","display_name":"University of Minnesota","ror":"https://ror.org/017zqws13","country_code":"US","type":"education","lineage":["https://openalex.org/I130238516"]},{"id":"https://openalex.org/I4390039358","display_name":"Masonic Cancer Center","ror":"https://ror.org/05x083d20","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I130238516","https://openalex.org/I4390039358"]},{"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":"Steven R. Tannenbaum","raw_affiliation_strings":["University of Minnesota Cancer Center and Department of Medicinal Chemistry, Minneapolis, Minnesota 55455, and Division of Bioengineering and Environmental Health and Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Minnesota Cancer Center and Department of Medicinal Chemistry, Minneapolis, Minnesota 55455, and Division of Bioengineering and Environmental Health and Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139","institution_ids":["https://openalex.org/I130238516","https://openalex.org/I4390039358","https://openalex.org/I63966007"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":4500,"currency":"USD","value_usd":4500},"apc_paid":null,"fwci":1.7099,"has_fulltext":false,"cited_by_count":38,"citation_normalized_percentile":{"value":0.81712669,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"14","issue":"8","first_page":"1058","last_page":"1070"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10683","display_name":"Mass Spectrometry Techniques and Applications","score":0.9682999849319458,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10683","display_name":"Mass Spectrometry Techniques and Applications","score":0.9682999849319458,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10433","display_name":"Carcinogens and Genotoxicity Assessment","score":0.011900000274181366,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T10432","display_name":"DNA and Nucleic Acid Chemistry","score":0.008700000122189522,"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/dna-adducts","display_name":"DNA adducts","score":0.9369999766349792},{"id":"https://openalex.org/keywords/modified-nucleobases","display_name":"modified nucleobases","score":0.7919999957084656},{"id":"https://openalex.org/keywords/5-3-exonuclease","display_name":"5'-3' exonuclease","score":0.7680000066757202},{"id":"https://openalex.org/keywords/3-5-exonuclease","display_name":"3'-5' exonuclease","score":0.9990000128746033},{"id":"https://openalex.org/keywords/o6-methylguanine","display_name":"O6-methylguanine","score":0.8889999985694885},{"id":"https://openalex.org/keywords/oxazolone","display_name":"oxazolone","score":0.890999972820282},{"id":"https://openalex.org/keywords/cyanuric-acid","display_name":"cyanuric acid","score":0.8529999852180481},{"id":"https://openalex.org/keywords/carcinogen-dna-adducts","display_name":"carcinogen-DNA adducts","score":0.7480000257492065},{"id":"https://openalex.org/keywords/promutagenicity","display_name":"promutagenicity","score":0.6470000147819519},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.3310000002384186}],"concepts":[{"id":"https://openalex.org/C61234307","wikidata":"https://www.wikidata.org/wiki/Q422960","display_name":"Nucleobase","level":3,"score":0.8203446865081787},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.74946129322052},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.6445360779762268},{"id":"https://openalex.org/C2778301229","wikidata":"https://www.wikidata.org/wiki/Q169313","display_name":"Guanine","level":4,"score":0.5864918231964111},{"id":"https://openalex.org/C129312508","wikidata":"https://www.wikidata.org/wiki/Q133686","display_name":"Oligonucleotide","level":3,"score":0.5440293550491333},{"id":"https://openalex.org/C512185932","wikidata":"https://www.wikidata.org/wiki/Q28745","display_name":"Nucleotide","level":3,"score":0.48295873403549194},{"id":"https://openalex.org/C2781243718","wikidata":"https://www.wikidata.org/wiki/Q5420625","display_name":"Exonuclease III","level":4,"score":0.4827079772949219},{"id":"https://openalex.org/C108204754","wikidata":"https://www.wikidata.org/wiki/Q353392","display_name":"Adduct","level":2,"score":0.4514367878437042},{"id":"https://openalex.org/C162356407","wikidata":"https://www.wikidata.org/wiki/Q180809","display_name":"Mass spectrometry","level":2,"score":0.4184924364089966},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.34426453709602356},{"id":"https://openalex.org/C43617362","wikidata":"https://www.wikidata.org/wiki/Q170050","display_name":"Chromatography","level":1,"score":0.11833640933036804},{"id":"https://openalex.org/C547475151","wikidata":"https://www.wikidata.org/wiki/Q25419","display_name":"Escherichia coli","level":3,"score":0.10446670651435852},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.08928385376930237},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.07517579197883606}],"mesh":[{"descriptor_ui":"D005092","descriptor_name":"Exonucleases","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D009841","descriptor_name":"Oligonucleotides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D010084","descriptor_name":"Oxidation-Reduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D018736","descriptor_name":"DNA Adducts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019032","descriptor_name":"Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1021/tx010062i","doi":"https://doi.org/10.1021/tx010062i","is_oa":false,"landing_page_url":"https://doi.org/10.1021/tx010062i","pdf_url":null,"source":{"id":"https://openalex.org/S152840809","display_name":"Chemical Research in Toxicology","issn_l":"0893-228X","issn":["0893-228X","1520-5010"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-b","doyens","jufo-2","ki-jl-1","medline","norway-1","poland-100","russia-white-list-2","vabb-shw"],"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Chemical Research in Toxicology","raw_type":"journal-article"},{"id":"pmid:11511180","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/11511180","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,"listed_in":[],"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":"Chemical research in toxicology","raw_type":"Journal Article"}],"best_oa_location":null,"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G2171662693","display_name":null,"funder_award_id":"CA-26731","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G7234316914","display_name":"Endogenous Nitrite Carcinogenesis in Man","funder_award_id":"P01CA026731","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"}],"funders":[{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":18,"referenced_works":["https://openalex.org/W600564746","https://openalex.org/W627224643","https://openalex.org/W953047224","https://openalex.org/W1561841146","https://openalex.org/W1965331655","https://openalex.org/W1976056213","https://openalex.org/W1978373501","https://openalex.org/W1989906952","https://openalex.org/W1996022521","https://openalex.org/W2000774559","https://openalex.org/W2023374329","https://openalex.org/W2026887544","https://openalex.org/W2037539957","https://openalex.org/W2047898183","https://openalex.org/W2078080141","https://openalex.org/W2078754103","https://openalex.org/W2089609408","https://openalex.org/W2113216258"],"related_works":["https://openalex.org/W2087214026","https://openalex.org/W2140067340","https://openalex.org/W2578350593","https://openalex.org/W2080009630","https://openalex.org/W2041943834","https://openalex.org/W2936598442","https://openalex.org/W2094774294","https://openalex.org/W2047898183","https://openalex.org/W2975871210","https://openalex.org/W2022075896"],"abstract_inverted_index":{"The":[0,48,106],"location":[1],"of":[2,27,57,65,89,92,111,147,157,173,188],"carcinogen-modified":[3],"nucleobases":[4,45],"(DNA":[5],"adducts)":[6],"within":[7,46],"DNA":[8,49,59,135,181],"sequences":[9],"is":[10,51,140,177],"a":[11,130,155],"critical":[12],"factor":[13],"affecting":[14],"their":[15,103],"promutagenic":[16],"properties":[17],"and":[18,100,108,169],"persistence":[19],"in":[20,121],"DNA.":[21,47],"We":[22,142],"now":[23],"report":[24],"the":[25,58,78,90,134,144,170,186],"use":[26],"controlled":[28],"exonuclease":[29],"digestion":[30],"followed":[31],"by":[32,53,62,102,123,150],"matrix-assisted":[33],"laser":[34],"desorption/ionization":[35],"time-of-flight":[36],"mass":[37,54,79,109,122],"spectrometry":[38],"(MALDI-TOF":[39],"MS)":[40],"to":[41,85,116,191],"directly":[42],"map":[43],"modified":[44,96],"sequence":[50,136],"determined":[52],"spectral":[55],"analysis":[56],"ladders":[60],"produced":[61],"sequential":[63],"removal":[64],"nucleotides":[66,97],"with":[67],"either":[68],"5'-->3'":[69],"or":[70,137],"3'-->5'":[71],"exonuclease.":[72],"Individual":[73],"mononucleotides":[74],"are":[75,98,114],"identified":[76,101],"from":[77],"differences":[80],"between":[81],"adjacent":[82],"peaks":[83],"corresponding":[84],"singly":[86],"charged":[87],"ions":[88],"products":[91],"enzymatic":[93],"cleavage.":[94],"Chemically":[95],"detected":[99],"molecular":[104],"weight.":[105],"resolution":[107],"accuracy":[110],"this":[112,148,189],"approach":[113],"sufficient":[115],"identify":[117],"nucleobase":[118,158],"modifications":[119],"differing":[120],"as":[124,126],"little":[125],"2":[127],"Da.":[128],"No":[129],"priori":[131],"information":[132,176],"on":[133],"adduct":[138,172],"type":[139],"required.":[141],"demonstrate":[143],"general":[145],"applicability":[146],"method":[149],"sequencing":[151],"synthetic":[152],"oligonucleotides":[153],"containing":[154,183],"range":[156],"modifications:":[159],"O(6)-methylguanine,":[160],"peroxynitrite-induced":[161],"oxidative":[162],"lesions":[163],"(oxaluric":[164],"acid,":[165],"oxazolone,":[166],"cyanuric":[167],"acid),":[168],"N(2)-guanine":[171],"(+,-)-7r,8t-dihydroxy-9t,10t-epoxy-7,8,9,10-tetrahydribenzo[a]pyrene.":[174],"Sequence":[175],"also":[178],"obtained":[179],"for":[180],"oligodeoxynucleotides":[182],"O(6)-pyridyloxobutylguanine,":[184],"despite":[185],"ability":[187],"lesion":[190],"block":[192],"3'-phosphodiesterase.":[193]},"counts_by_year":[{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":1},{"year":2013,"cited_by_count":3},{"year":2012,"cited_by_count":1}],"updated_date":"2026-10-31T12:09:11.096373","created_date":"2016-06-24T00:00:00"}