{"id":"https://openalex.org/W4393526172","doi":"https://doi.org/10.5281/zenodo.7776251","title":"Novel molecular requirements for CRISPR RNA-guided transposition","display_name":"Novel molecular requirements for CRISPR RNA-guided transposition","publication_year":2023,"publication_date":"2023-01-19","ids":{"openalex":"https://openalex.org/W4393526172","doi":"https://doi.org/10.5281/zenodo.7776251"},"language":"en","primary_location":{"id":"pmh:oai:zenodo.org:7776252","doi":null,"is_oa":true,"landing_page_url":"https://zenodo.org/record/7776252","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"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"},"volume":null,"type":"dataset","indexed_in":["datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://zenodo.org/record/7776252","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5008691042","display_name":"Matt W.G. Walker","orcid":"https://orcid.org/0000-0003-3345-8248","observed_orcids":["https://orcid.org/0000-0003-3345-8248"]},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Walker, Matt W.G.","raw_affiliation_strings":["Columbia University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Columbia University","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042151530","display_name":"Sanne E. Klompe","orcid":"https://orcid.org/0000-0002-0151-9459","observed_orcids":["https://orcid.org/0000-0002-0151-9459"]},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Klompe, Sanne E.","raw_affiliation_strings":["Columbia University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Columbia University","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017914905","display_name":"Dennis J. Zhang","orcid":"https://orcid.org/0000-0002-6871-9842","observed_orcids":["https://orcid.org/0000-0002-6871-9842"]},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Zhang, Dennis J.","raw_affiliation_strings":["Columbia University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Columbia University","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5072427514","display_name":"Samuel H. Sternberg","orcid":"https://orcid.org/0000-0001-8240-9114","observed_orcids":["https://orcid.org/0000-0001-8240-9114"]},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sternberg, Samuel H.","raw_affiliation_strings":["Columbia University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Columbia University","institution_ids":["https://openalex.org/I78577930"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I78577930"],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10878","display_name":"CRISPR and Genetic Engineering","score":0.9994999766349792,"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":0.9994999766349792,"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/T10120","display_name":"Bacterial Genetics and Biotechnology","score":0.00019999999494757503,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T13326","display_name":"Biochemical and Structural Characterization","score":0.0,"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/crispr-associated-transposons","display_name":"CRISPR-associated transposons","score":0.9639999866485596},{"id":"https://openalex.org/keywords/type-i-f-crispr-cas","display_name":"type I-F CRISPR-Cas","score":0.8309999704360962},{"id":"https://openalex.org/keywords/vibrio-cholerae","display_name":"Vibrio cholerae","score":0.9639999866485596},{"id":"https://openalex.org/keywords/integration-host-factor","display_name":"integration host factor","score":0.9449999928474426},{"id":"https://openalex.org/keywords/sequence-determinants","display_name":"sequence determinants","score":0.640999972820282},{"id":"https://openalex.org/keywords/genome-editing","display_name":"genome editing","score":0.7319999933242798}],"concepts":[{"id":"https://openalex.org/C98108389","wikidata":"https://www.wikidata.org/wiki/Q412563","display_name":"CRISPR","level":3,"score":0.8581548929214478},{"id":"https://openalex.org/C12455157","wikidata":"https://www.wikidata.org/wiki/Q7835331","display_name":"Transposition (logic)","level":2,"score":0.7520347833633423},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5450353026390076},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.4668090343475342},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.40665096044540405},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.39756423234939575},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3332565426826477},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.17617109417915344},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.0440637469291687}],"mesh":[],"locations_count":3,"locations":[{"id":"pmh:oai:zenodo.org:7776252","doi":null,"is_oa":true,"landing_page_url":"https://zenodo.org/record/7776252","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"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"},{"id":"doi:10.5281/zenodo.7776251","doi":"https://doi.org/10.5281/zenodo.7776251","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.7776251","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Dataset"},{"id":"doi:10.5281/zenodo.7776252","doi":"https://doi.org/10.5281/zenodo.7776252","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.7776252","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Dataset"}],"best_oa_location":{"id":"pmh:oai:zenodo.org:7776252","doi":null,"is_oa":true,"landing_page_url":"https://zenodo.org/record/7776252","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"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"},"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W7161637812","https://openalex.org/W4382284407","https://openalex.org/W4310155672","https://openalex.org/W6907740644","https://openalex.org/W4414449079","https://openalex.org/W4388720036","https://openalex.org/W4399302652","https://openalex.org/W4289262202","https://openalex.org/W4299286120","https://openalex.org/W3214141913"],"abstract_inverted_index":{"CRISPR-associated":[0,120],"transposons":[1],"(CASTs)":[2],"direct":[3],"DNA":[4,13,41],"integration":[5,42,98,134],"downstream":[6],"of":[7,16,172,187],"target":[8,125],"sites":[9],"using":[10],"the":[11,34,61,69,81,124,133,168,173,180,185],"RNA-guided":[12],"binding":[14,76,95],"activity":[15],"nuclease-deficient":[17],"CRISPR-Cas":[18],"systems.":[19,197],"Transposition":[20],"relies":[21],"on":[22],"several":[23],"key":[24],"protein-protein":[25],"and":[26,50,170,179,183],"protein-DNA":[27],"interactions,":[28],"but":[29],"little":[30],"is":[31],"known":[32],"about":[33,167],"explicit":[35],"sequence":[36,56,130],"requirements":[37],"governing":[38],"efficient":[39,110],"transposon":[40,154,181],"activity.":[43],"Here,":[44],"we":[45,103,127,146],"exploit":[46],"pooled":[47],"library":[48,149],"screening":[49],"high-throughput":[51],"sequencing":[52],"to":[53,151],"reveal":[54],"novel":[55,115],"determinants":[57],"during":[58],"transposition":[59],"by":[60],"Type":[62],"I-F":[63],"Vibrio":[64],"cholerae":[65],"CAST":[66,196],"system.":[67],"On":[68,123],"donor":[70],"DNA,":[71,126,182],"large":[72],"mutagenic":[73],"libraries":[74],"revealed":[75],"site":[77,96,135],"nucleotide":[78],"preferences":[79],"for":[80,97,109,191],"TnsB":[82,178],"transposase,":[83],"as":[84,86],"well":[85],"an":[87],"additional":[88],"conserved":[89],"region":[90],"that":[91,105,136,156],"encoded":[92],"a":[93,114],"consensus":[94],"host":[99],"factor":[100,117],"(IHF).":[101],"Remarkably,":[102],"found":[104],"VchCAST":[106],"requires":[107],"IHF":[108],"transposition,":[111],"thus":[112],"revealing":[113],"cellular":[116],"involved":[118],"in":[119],"transpososome":[121],"assembly.":[122],"uncovered":[128],"preferred":[129],"motifs":[131],"at":[132],"explained":[137],"previously":[138],"observed":[139],"heterogeneity":[140],"with":[141,195],"single-base":[142],"pair":[143],"resolution.":[144],"Finally,":[145],"exploited":[147],"our":[148,162],"data":[150],"design":[152,186],"modified":[153],"variants":[155],"enable":[157],"in-frame":[158],"protein":[159],"tagging.":[160],"Collectively,":[161],"results":[163],"provide":[164],"new":[165],"clues":[166],"assembly":[169],"architecture":[171],"paired-end":[174],"complex":[175],"formed":[176],"between":[177],"inform":[184],"custom":[188],"payload":[189],"sequences":[190],"genome":[192],"engineering":[193],"applications":[194]},"counts_by_year":[],"updated_date":"2026-10-11T09:32:39.932853","created_date":"2024-04-03T00:00:00"}