{"id":"https://openalex.org/W3204449787","doi":"https://doi.org/10.1080/19336934.2021.1978776","title":"A robust method to isolate Drosophila fat body nuclei for transcriptomic analysis","display_name":"A robust method to isolate Drosophila fat body nuclei for transcriptomic analysis","publication_year":2021,"publication_date":"2021-10-06","ids":{"openalex":"https://openalex.org/W3204449787","doi":"https://doi.org/10.1080/19336934.2021.1978776","mag":"3204449787","pmid":"https://pubmed.ncbi.nlm.nih.gov/34612794","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/8500699"},"language":"en","primary_location":{"id":"doi:10.1080/19336934.2021.1978776","doi":"https://doi.org/10.1080/19336934.2021.1978776","is_oa":true,"landing_page_url":"https://doi.org/10.1080/19336934.2021.1978776","pdf_url":"https://www.tandfonline.com/doi/pdf/10.1080/19336934.2021.1978776?needAccess=true","source":{"id":"https://openalex.org/S36681318","display_name":"Fly","issn_l":"1933-6934","issn":["1933-6934","1933-6942"],"is_oa":false,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","dongbi-c","jufo-1","medline","norway-1","oarl","poland-70","russia-white-list-1"],"host_organization":"https://openalex.org/P4310315740","host_organization_name":"Landes Bioscience","host_organization_lineage":["https://openalex.org/P4310315740"],"host_organization_lineage_names":["Landes Bioscience"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Fly","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://www.tandfonline.com/doi/pdf/10.1080/19336934.2021.1978776?needAccess=true","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5046189936","display_name":"Vanika Gupta","orcid":"https://orcid.org/0000-0002-5636-1337","observed_orcids":["https://orcid.org/0000-0002-5636-1337"]},"institutions":[{"id":"https://openalex.org/I205783295","display_name":"Cornell University","ror":"https://ror.org/05bnh6r87","country_code":"US","type":"education","lineage":["https://openalex.org/I205783295"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Vanika Gupta","raw_affiliation_strings":["Cornell Institute of Host-Microbe Interactions and Disease, Cornell University, Ithaca, NY, USA","Department of Entomology, Cornell University, Ithaca, NY, USA"],"raw_orcid":"https://orcid.org/0000-0002-5636-1337","affiliations":[{"raw_affiliation_string":"Cornell Institute of Host-Microbe Interactions and Disease, Cornell University, Ithaca, NY, USA","institution_ids":["https://openalex.org/I205783295"]},{"raw_affiliation_string":"Department of Entomology, Cornell University, Ithaca, NY, USA","institution_ids":["https://openalex.org/I205783295"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5088000210","display_name":"Brian P. Lazzaro","orcid":"https://orcid.org/0000-0002-3881-0995","observed_orcids":["https://orcid.org/0000-0002-3881-0995"]},"institutions":[{"id":"https://openalex.org/I205783295","display_name":"Cornell University","ror":"https://ror.org/05bnh6r87","country_code":"US","type":"education","lineage":["https://openalex.org/I205783295"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Brian P. Lazzaro","raw_affiliation_strings":["Cornell Institute of Host-Microbe Interactions and Disease, Cornell University, Ithaca, NY, USA","Department of Entomology, Cornell University, Ithaca, NY, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Cornell Institute of Host-Microbe Interactions and Disease, Cornell University, Ithaca, NY, USA","institution_ids":["https://openalex.org/I205783295"]},{"raw_affiliation_string":"Department of Entomology, Cornell University, Ithaca, NY, USA","institution_ids":["https://openalex.org/I205783295"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5046189936"],"corresponding_institution_ids":["https://openalex.org/I205783295"],"apc_list":{"value":1860,"currency":"USD","value_usd":1860},"apc_paid":{"value":1860,"currency":"USD","value_usd":1860},"fwci":0.5489,"has_fulltext":false,"cited_by_count":13,"citation_normalized_percentile":{"value":0.58735017,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":93,"max":98},"biblio":{"volume":"16","issue":"1","first_page":"62","last_page":"67"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9824000000953674,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9824000000953674,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.010499999858438969,"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/T11970","display_name":"Molecular Biology Techniques and Applications","score":0.0019000000320374966,"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/nuclei-isolation","display_name":"nuclei isolation","score":0.8029999732971191},{"id":"https://openalex.org/keywords/cell-dissociation","display_name":"cell dissociation","score":0.8669999837875366},{"id":"https://openalex.org/keywords/mitochondrial-contamination","display_name":"mitochondrial contamination","score":0.7910000085830688},{"id":"https://openalex.org/keywords/transcriptome","display_name":"transcriptome","score":0.5809999704360962},{"id":"https://openalex.org/keywords/tissue-heterogeneity","display_name":"tissue heterogeneity","score":0.8109999895095825},{"id":"https://openalex.org/keywords/bulk-rna-sequencing","display_name":"bulk RNA-seq","score":0.7570000290870667}],"concepts":[{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.7797081470489502},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6757192611694336},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.6167593002319336},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.5373690724372864},{"id":"https://openalex.org/C1491633281","wikidata":"https://www.wikidata.org/wiki/Q7868","display_name":"Cell","level":2,"score":0.5081808567047119},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.49802112579345703},{"id":"https://openalex.org/C2780723820","wikidata":"https://www.wikidata.org/wiki/Q1934178","display_name":"Nucleus","level":2,"score":0.48674464225769043},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.4863455891609192},{"id":"https://openalex.org/C2780104201","wikidata":"https://www.wikidata.org/wiki/Q130888","display_name":"Drosophila melanogaster","level":3,"score":0.44234055280685425},{"id":"https://openalex.org/C112190416","wikidata":"https://www.wikidata.org/wiki/Q2124450","display_name":"RNA extraction","level":4,"score":0.4294922351837158},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3728909492492676},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3142167925834656}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002467","descriptor_name":"Cell Nucleus","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004330","descriptor_name":"Drosophila","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D005216","descriptor_name":"Fat Body","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":6,"locations":[{"id":"doi:10.1080/19336934.2021.1978776","doi":"https://doi.org/10.1080/19336934.2021.1978776","is_oa":true,"landing_page_url":"https://doi.org/10.1080/19336934.2021.1978776","pdf_url":"https://www.tandfonline.com/doi/pdf/10.1080/19336934.2021.1978776?needAccess=true","source":{"id":"https://openalex.org/S36681318","display_name":"Fly","issn_l":"1933-6934","issn":["1933-6934","1933-6942"],"is_oa":false,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","dongbi-c","jufo-1","medline","norway-1","oarl","poland-70","russia-white-list-1"],"host_organization":"https://openalex.org/P4310315740","host_organization_name":"Landes Bioscience","host_organization_lineage":["https://openalex.org/P4310315740"],"host_organization_lineage_names":["Landes Bioscience"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Fly","raw_type":"journal-article"},{"id":"doi:10.1101/2021.01.27.428429","doi":"https://doi.org/10.1101/2021.01.27.428429","is_oa":true,"landing_page_url":"https://doi.org/10.1101/2021.01.27.428429","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2021/01/28/2021.01.27.428429.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},{"id":"pmh:oai:europepmc.org:7393758","doi":null,"is_oa":true,"landing_page_url":"http://europepmc.org/pmc/articles/PMC8500699","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,"listed_in":[],"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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:8500699","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8500699","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Fly (Austin)","raw_type":"Text"},{"id":"pmid:34612794","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34612794","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":"Fly","raw_type":"Journal Article"},{"id":"pmh:oai:doaj.org/article:1f014a0e07654ff6a3b1fcd95d1e144e","doi":null,"is_oa":false,"landing_page_url":"https://doaj.org/article/1f014a0e07654ff6a3b1fcd95d1e144e","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Fly, Vol 16, Iss 1, Pp 62-67 (2022)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1080/19336934.2021.1978776","doi":"https://doi.org/10.1080/19336934.2021.1978776","is_oa":true,"landing_page_url":"https://doi.org/10.1080/19336934.2021.1978776","pdf_url":"https://www.tandfonline.com/doi/pdf/10.1080/19336934.2021.1978776?needAccess=true","source":{"id":"https://openalex.org/S36681318","display_name":"Fly","issn_l":"1933-6934","issn":["1933-6934","1933-6942"],"is_oa":false,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","dongbi-c","jufo-1","medline","norway-1","oarl","poland-70","russia-white-list-1"],"host_organization":"https://openalex.org/P4310315740","host_organization_name":"Landes Bioscience","host_organization_lineage":["https://openalex.org/P4310315740"],"host_organization_lineage_names":["Landes Bioscience"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Fly","raw_type":"journal-article"},"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G4490252613","display_name":"Genetic Network Linking Immunity to Energetic Stress and Metabolism","funder_award_id":"R01AI083932","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G5075369716","display_name":"Mechanisms and Evolutionary Consequences of a Reproduction-Immunity Tradeoff","funder_award_id":"R01AI141385","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G722969027","display_name":"Cellular basis for diverse multifunction of Drosophila fat body tissue","funder_award_id":"R03AI144882","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320332415","display_name":"College of Veterinary Medicine, Cornell University","ror":"https://ror.org/05bnh6r87"},{"id":"https://openalex.org/F4320337355","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3204449787.pdf","grobid_xml":"https://content.openalex.org/works/W3204449787.grobid-xml"},"referenced_works_count":18,"referenced_works":["https://openalex.org/W1989528739","https://openalex.org/W2000760885","https://openalex.org/W2018111576","https://openalex.org/W2019552331","https://openalex.org/W2107498496","https://openalex.org/W2587204086","https://openalex.org/W2608845725","https://openalex.org/W2734414396","https://openalex.org/W2746479894","https://openalex.org/W2791004613","https://openalex.org/W2887637986","https://openalex.org/W2895857801","https://openalex.org/W2904043980","https://openalex.org/W2906213364","https://openalex.org/W2949177718","https://openalex.org/W3015184839","https://openalex.org/W3087003196","https://openalex.org/W4281691676"],"related_works":["https://openalex.org/W4280653388","https://openalex.org/W4280529104","https://openalex.org/W7115687852","https://openalex.org/W3165613911","https://openalex.org/W4318476519","https://openalex.org/W2897395006","https://openalex.org/W4321377414","https://openalex.org/W4380759778","https://openalex.org/W4385788239","https://openalex.org/W7214627451"],"abstract_inverted_index":{"ABSTRACT":[0],"Gene":[1],"expression":[2,28],"profiles":[3],"are":[4,88,126],"typically":[5],"described":[6],"at":[7,18],"the":[8,11,19,22,26,41,59],"level":[9,20],"of":[10,21,29,50,58,73,122,155,162],"tissue":[12,102],"or,":[13],"often":[14],"in":[15],"Drosophila":[16,117],",":[17],"whole":[23],"organism.":[24],"Collapsing":[25],"gene":[27],"entire":[30],"tissues":[31],"into":[32],"single":[33,143,177],"measures":[34],"averages":[35],"over":[36],"potentially":[37,182],"important":[38,93,112],"heterogeneity":[39],"among":[40],"cells":[42,61,75,85,124],"that":[43,46,62,82,125],"make":[44,63],"up":[45,64],"tissue.":[47,66],"The":[48,95,116],"advent":[49],"single-cell":[51],"RNA-sequencing":[52],"technology":[53],"(sc-RNAseq)":[54],"allows":[55],"transcriptomic":[56],"evaluation":[57],"individual":[60],"a":[65,70,100,139],"However,":[67],"sc-RNAseq":[68],"requires":[69],"high-quality":[71],"suspension":[72],"viable":[74],"or":[76],"nuclei,":[77],"and":[78,86,108,158,181],"cell":[79,132,178],"dissociation":[80],"methods":[81],"yield":[83],"healthy":[84],"nuclei":[87,146,169,179],"still":[89],"lacking":[90],"for":[91,104,114,147,176,186],"many":[92],"tissues.":[94],"insect":[96],"fat":[97,119,144],"body":[98,120,145],"is":[99,110,152],"polyfunctional":[101],"responsible":[103],"diverse":[105],"physiological":[106],"processes":[107],"therefore":[109],"an":[111,135],"target":[113],"sc-RNAseq.":[115],"adult":[118],"consists":[121],"fragile":[123],"difficult":[127],"to":[128,141,167],"dissociate":[129],"while":[130],"maintaining":[131],"viability.":[133],"As":[134],"alternative,":[136],"we":[137],"developed":[138],"method":[140,151,173],"isolate":[142],"RNA-seq.":[148,188],"Our":[149,172],"isolation":[150],"largely":[153],"free":[154],"mitochondrial":[156],"contamination":[157],"yields":[159],"higher":[160],"capture":[161],"transcripts":[163],"per":[164],"nucleus":[165],"compared":[166],"other":[168],"preparation":[170],"methods.":[171],"works":[174],"well":[175],"sequencing":[180],"can":[183],"be":[184],"implemented":[185],"bulk":[187]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":2},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":2}],"updated_date":"2026-11-04T10:54:05.112534","created_date":"2021-10-11T00:00:00"}
