{"id":"https://openalex.org/W3134916905","doi":"https://doi.org/10.17504/protocols.io.s4hegt6","title":"scPLATE-seq: simple, easily automated single-cell 3\u2019 transcriptome profiling v1","display_name":"scPLATE-seq: simple, easily automated single-cell 3\u2019 transcriptome profiling v1","publication_year":2018,"publication_date":"2018-08-29","ids":{"openalex":"https://openalex.org/W3134916905","doi":"https://doi.org/10.17504/protocols.io.s4hegt6","mag":"3134916905"},"language":"en","primary_location":{"id":"doi:10.17504/protocols.io.s4hegt6","doi":"https://doi.org/10.17504/protocols.io.s4hegt6","is_oa":true,"landing_page_url":"https://doi.org/10.17504/protocols.io.s4hegt6","pdf_url":"https://www.protocols.io/view/scplate-seq-simple-easily-automated-single-cell-3-s4hegt6.pdf","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"posted-content"},"volume":null,"type":"preprint","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.protocols.io/view/scplate-seq-simple-easily-automated-single-cell-3-s4hegt6.pdf","any_repository_has_fulltext":null},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5051033556","display_name":"Jeremy Worley","orcid":"https://orcid.org/0000-0003-4517-7080","observed_orcids":["https://orcid.org/0000-0003-4517-7080"]},"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":"Jeremy Worley*","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/A5026261277","display_name":"Hongxu Ding","orcid":"https://orcid.org/0000-0002-7846-9744","observed_orcids":["https://orcid.org/0000-0002-7846-9744"]},"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":"Hongxu Ding*","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/A5051115910","display_name":"Erin C. Bush","orcid":"https://orcid.org/0000-0001-7038-2321","observed_orcids":["https://orcid.org/0000-0001-7038-2321"]},"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":"Erin Bush","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/A5066080208","display_name":"Peter A. Sims","orcid":"https://orcid.org/0000-0002-3921-4837","observed_orcids":["https://orcid.org/0000-0002-3921-4837"]},"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":"Peter Sims","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/A5046245448","display_name":"Andrea Califano","orcid":"https://orcid.org/0000-0003-4742-3679","observed_orcids":["https://orcid.org/0000-0003-4742-3679"]},"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":"and Andrea Califano","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":true,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":1.0,"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"}},"topics":[{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":1.0,"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"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","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"}},{"id":"https://openalex.org/T11970","display_name":"Molecular Biology Techniques and Applications","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/single-cell-rna-sequencing","display_name":"single-cell RNA sequencing","score":0.9169999957084656},{"id":"https://openalex.org/keywords/unique-molecular-identifiers","display_name":"unique molecular identifiers","score":0.9990000128746033},{"id":"https://openalex.org/keywords/mrna-enrichment","display_name":"mRNA enrichment","score":0.8759999871253967},{"id":"https://openalex.org/keywords/automated-library-preparation","display_name":"automated library preparation","score":0.4790000021457672}],"concepts":[{"id":"https://openalex.org/C2776841711","wikidata":"https://www.wikidata.org/wiki/Q856","display_name":"Barcode","level":2,"score":0.7235754728317261},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6024330258369446},{"id":"https://openalex.org/C70437156","wikidata":"https://www.wikidata.org/wiki/Q7228652","display_name":"Pooling","level":2,"score":0.559224009513855},{"id":"https://openalex.org/C187191949","wikidata":"https://www.wikidata.org/wiki/Q1138496","display_name":"Profiling (computer programming)","level":2,"score":0.4945540130138397},{"id":"https://openalex.org/C154504017","wikidata":"https://www.wikidata.org/wiki/Q853614","display_name":"Identifier","level":2,"score":0.4254930913448334},{"id":"https://openalex.org/C2780385302","wikidata":"https://www.wikidata.org/wiki/Q367158","display_name":"Protocol (science)","level":3,"score":0.42063701152801514},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3710242509841919},{"id":"https://openalex.org/C9390403","wikidata":"https://www.wikidata.org/wiki/Q3966","display_name":"Computer hardware","level":1,"score":0.3389291763305664},{"id":"https://openalex.org/C149635348","wikidata":"https://www.wikidata.org/wiki/Q193040","display_name":"Embedded system","level":1,"score":0.3234262466430664},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.20021358132362366},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.19114375114440918},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.18125131726264954},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.1077335774898529},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.09617286920547485},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.0},{"id":"https://openalex.org/C204787440","wikidata":"https://www.wikidata.org/wiki/Q188504","display_name":"Alternative medicine","level":2,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.17504/protocols.io.s4hegt6","doi":"https://doi.org/10.17504/protocols.io.s4hegt6","is_oa":true,"landing_page_url":"https://doi.org/10.17504/protocols.io.s4hegt6","pdf_url":"https://www.protocols.io/view/scplate-seq-simple-easily-automated-single-cell-3-s4hegt6.pdf","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"posted-content"}],"best_oa_location":{"id":"doi:10.17504/protocols.io.s4hegt6","doi":"https://doi.org/10.17504/protocols.io.s4hegt6","is_oa":true,"landing_page_url":"https://doi.org/10.17504/protocols.io.s4hegt6","pdf_url":"https://www.protocols.io/view/scplate-seq-simple-easily-automated-single-cell-3-s4hegt6.pdf","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"posted-content"},"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3134916905.pdf","grobid_xml":"https://content.openalex.org/works/W3134916905.grobid-xml"},"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W3129257730","https://openalex.org/W3095569933","https://openalex.org/W2995739136","https://openalex.org/W4406165358","https://openalex.org/W4297877694","https://openalex.org/W4285417389","https://openalex.org/W6906524036","https://openalex.org/W3181208844","https://openalex.org/W7100968397","https://openalex.org/W4417085216"],"abstract_inverted_index":{"Since":[0],"2012,":[1],"numerous":[2],"single-cell":[3],"RNA":[4],"sequencing":[5],"(scRNA-seq)":[6],"technologies":[7],"have":[8],"been":[9,83],"introduced.":[10],"Most":[11],"involve":[12],"either":[13],"significant":[14],"startup":[15],"cost,":[16,109],"an":[17],"expert":[18],"operator,":[19],"or":[20],"expensive":[21],"library":[22,28],"preparation.":[23],"We":[24],"developed":[25],"a":[26,74],"plate-based":[27,101],"prep":[29],"that":[30,90],"incorporates":[31],"pre-amplification":[32,95],"pooling,":[33],"unique":[34],"molecular":[35],"identifiers":[36],"(UMIs),":[37],"and":[38,58],"mRNA":[39],"enrichment":[40],"using":[41,110],"silanol":[42],"coated":[43],"magnetic":[44],"beads.":[45],"Our":[46],"method,":[47],"which":[48],"builds":[49],"off":[50],"of":[51],"Bush":[52],"et":[53,60,122],"al.":[54,61,123],"(Nature":[55,62,124],"Communications,":[56,125],"2017)":[57],"Picelli":[59],"Protocols,":[63],"2014),":[64],"uses":[65],"readily":[66],"available":[67],"equipment,":[68],"is":[69],"easy":[70],"to":[71,85],"automate,and":[72],"costs":[73],"fraction":[75],"ofcommercial":[76],"kits.":[77],"In":[78],"addition,":[79],"our":[80],"method":[81,98],"has":[82],"optimized":[84],"reduce":[86],"barcode":[87],"cross":[88],"contamination":[89],"can":[91],"occur":[92],"in":[93],"pooled":[94],"reactions.":[96],"This":[97,127],"allows":[99],"for":[100],"3\u2019":[102],"scRNA-seq":[103],"with":[104],"UMIs":[105],"at":[106],"relatively":[107],"low":[108],"standard":[111],"lab":[112],"equipment.":[113],"NOTE":[114],"(2018/08/29):":[115],"we":[116],"are":[117],"currently":[118],"testing":[119],"optimizationsdescribedby":[120],"Bagnoli":[121],"2018).":[126],"protocol":[128],"may":[129],"be":[130],"updated":[131],"accordingly.":[132]},"counts_by_year":[],"updated_date":"2026-11-03T10:50:19.383937","created_date":"2021-03-15T00:00:00"}
