{"id":"https://openalex.org/W3089314931","doi":"https://doi.org/10.1167/tvst.9.10.24","title":"Semi-Automated Approach for Retinal Tissue Differentiation","display_name":"Semi-Automated Approach for Retinal Tissue Differentiation","publication_year":2020,"publication_date":"2020-09-23","ids":{"openalex":"https://openalex.org/W3089314931","doi":"https://doi.org/10.1167/tvst.9.10.24","mag":"3089314931","pmid":"https://pubmed.ncbi.nlm.nih.gov/33024617","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/7521179"},"language":"en","primary_location":{"id":"doi:10.1167/tvst.9.10.24","doi":"https://doi.org/10.1167/tvst.9.10.24","is_oa":true,"landing_page_url":"https://doi.org/10.1167/tvst.9.10.24","pdf_url":null,"source":{"id":"https://openalex.org/S2764591444","display_name":"Translational Vision Science & Technology","issn_l":"2164-2591","issn":["2164-2591"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","dongbi-d","doyens","jufo-1","ki-jl-1","medline","norway-1","oarl","poland-100","russia-white-list-2","vabb-shw"],"host_organization":"https://openalex.org/P4310315919","host_organization_name":"Association for Research in Vision and Ophthalmology","host_organization_lineage":["https://openalex.org/P4310315919"],"host_organization_lineage_names":["Association for Research in Vision and Ophthalmology"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Translational Vision Science & Technology","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1167/tvst.9.10.24","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5041097323","display_name":"Evgenii Kegeles","orcid":"https://orcid.org/0000-0003-2638-0454","observed_orcids":["https://orcid.org/0000-0003-2638-0454"]},"institutions":[{"id":"https://openalex.org/I1287163989","display_name":"Massachusetts Eye and Ear Infirmary","ror":"https://ror.org/04g3dn724","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1287163989"]},{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]},{"id":"https://openalex.org/I153845743","display_name":"Moscow Institute of Physics and Technology","ror":"https://ror.org/00v0z9322","country_code":"RU","type":"education","lineage":["https://openalex.org/I153845743"]}],"countries":["RU","US"],"is_corresponding":false,"raw_author_name":"Evgenii Kegeles","raw_affiliation_strings":["Moscow Institute of Physics and Technology, Dolgoprudniy, Russia","The Schepens Eye Research Institute of Massachusetts Eye and Ear, Department of Ophthalmology, Harvard Medical School, Boston, MA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Moscow Institute of Physics and Technology, Dolgoprudniy, Russia","institution_ids":["https://openalex.org/I153845743"]},{"raw_affiliation_string":"The Schepens Eye Research Institute of Massachusetts Eye and Ear, Department of Ophthalmology, Harvard Medical School, Boston, MA, USA","institution_ids":["https://openalex.org/I1287163989","https://openalex.org/I136199984"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059255868","display_name":"Tatiana Perepelkina","orcid":"https://orcid.org/0000-0002-3131-7110","observed_orcids":["https://orcid.org/0000-0002-3131-7110"]},"institutions":[{"id":"https://openalex.org/I1287163989","display_name":"Massachusetts Eye and Ear Infirmary","ror":"https://ror.org/04g3dn724","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1287163989"]},{"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":"Tatiana Perepelkina","raw_affiliation_strings":["The Schepens Eye Research Institute of Massachusetts Eye and Ear, Department of Ophthalmology, Harvard Medical School, Boston, MA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"The Schepens Eye Research Institute of Massachusetts Eye and Ear, Department of Ophthalmology, Harvard Medical School, Boston, MA, USA","institution_ids":["https://openalex.org/I1287163989","https://openalex.org/I136199984"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5083336047","display_name":"Petr Y. Baranov","orcid":"https://orcid.org/0000-0002-5526-7058","observed_orcids":["https://orcid.org/0000-0002-5526-7058"]},"institutions":[{"id":"https://openalex.org/I1287163989","display_name":"Massachusetts Eye and Ear Infirmary","ror":"https://ror.org/04g3dn724","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1287163989"]},{"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":true,"raw_author_name":"Petr Baranov","raw_affiliation_strings":["The Schepens Eye Research Institute of Massachusetts Eye and Ear, Department of Ophthalmology, Harvard Medical School, Boston, MA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"The Schepens Eye Research Institute of Massachusetts Eye and Ear, Department of Ophthalmology, Harvard Medical School, Boston, MA, USA","institution_ids":["https://openalex.org/I1287163989","https://openalex.org/I136199984"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5083336047"],"corresponding_institution_ids":["https://openalex.org/I1287163989","https://openalex.org/I136199984"],"apc_list":{"value":1850,"currency":"USD","value_usd":1850},"apc_paid":{"value":1850,"currency":"USD","value_usd":1850},"fwci":0.4053,"has_fulltext":false,"cited_by_count":7,"citation_normalized_percentile":{"value":0.53406776,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"9","issue":"10","first_page":"24","last_page":"24"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10691","display_name":"Retinal Development and Disorders","score":0.7172999978065491,"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/T10691","display_name":"Retinal Development and Disorders","score":0.7172999978065491,"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/T10505","display_name":"Pluripotent Stem Cells Research","score":0.26930001378059387,"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/T11438","display_name":"Retinal Imaging and Analysis","score":0.0017000000225380063,"subfield":{"id":"https://openalex.org/subfields/2741","display_name":"Radiology, Nuclear Medicine and Imaging"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/retinal-differentiation","display_name":"retinal differentiation","score":0.9309999942779541},{"id":"https://openalex.org/keywords/retinal-organoids","display_name":"retinal organoids","score":0.7179999947547913},{"id":"https://openalex.org/keywords/robotic-liquid-handling","display_name":"robotic liquid handling","score":0.6169999837875366},{"id":"https://openalex.org/keywords/automated-image-analysis","display_name":"automated image analysis","score":0.7730000019073486},{"id":"https://openalex.org/keywords/mouse-embryonic-stem-cells","display_name":"mouse embryonic stem cells","score":0.8619999885559082},{"id":"https://openalex.org/keywords/human-embryonic-stem-cells","display_name":"human embryonic stem cells","score":0.9330000281333923},{"id":"https://openalex.org/keywords/retinal-ganglion-cells","display_name":"retinal ganglion cells","score":0.8040000200271606},{"id":"https://openalex.org/keywords/forskolin","display_name":"forskolin","score":0.9089999794960022},{"id":"https://openalex.org/keywords/differentiation-efficiency","display_name":"differentiation efficiency","score":0.6980000138282776}],"concepts":[{"id":"https://openalex.org/C2780827179","wikidata":"https://www.wikidata.org/wiki/Q422001","display_name":"Retinal","level":2,"score":0.679592490196228},{"id":"https://openalex.org/C145103041","wikidata":"https://www.wikidata.org/wiki/Q1151519","display_name":"Embryonic stem cell","level":3,"score":0.6086196899414062},{"id":"https://openalex.org/C107459253","wikidata":"https://www.wikidata.org/wiki/Q674925","display_name":"Induced pluripotent stem cell","level":4,"score":0.5521624088287354},{"id":"https://openalex.org/C2777093970","wikidata":"https://www.wikidata.org/wiki/Q169342","display_name":"Retina","level":2,"score":0.5278021097183228},{"id":"https://openalex.org/C148738053","wikidata":"https://www.wikidata.org/wiki/Q210861","display_name":"Cellular differentiation","level":3,"score":0.49317115545272827},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.43303412199020386},{"id":"https://openalex.org/C147494362","wikidata":"https://www.wikidata.org/wiki/Q2078905","display_name":"Troubleshooting","level":2,"score":0.41544854640960693},{"id":"https://openalex.org/C2777624874","wikidata":"https://www.wikidata.org/wiki/Q927337","display_name":"Retinal ganglion cell","level":3,"score":0.4137813150882721},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.40257030725479126},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.37112951278686523},{"id":"https://openalex.org/C169760540","wikidata":"https://www.wikidata.org/wiki/Q207011","display_name":"Neuroscience","level":1,"score":0.2312639355659485},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002454","descriptor_name":"Cell Differentiation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002460","descriptor_name":"Cell Line","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009940","descriptor_name":"Organoids","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012160","descriptor_name":"Retina","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D039904","descriptor_name":"Pluripotent Stem Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1167/tvst.9.10.24","doi":"https://doi.org/10.1167/tvst.9.10.24","is_oa":true,"landing_page_url":"https://doi.org/10.1167/tvst.9.10.24","pdf_url":null,"source":{"id":"https://openalex.org/S2764591444","display_name":"Translational Vision Science & Technology","issn_l":"2164-2591","issn":["2164-2591"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","dongbi-d","doyens","jufo-1","ki-jl-1","medline","norway-1","oarl","poland-100","russia-white-list-2","vabb-shw"],"host_organization":"https://openalex.org/P4310315919","host_organization_name":"Association for Research in Vision and Ophthalmology","host_organization_lineage":["https://openalex.org/P4310315919"],"host_organization_lineage_names":["Association for Research in Vision and Ophthalmology"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Translational Vision Science & Technology","raw_type":"journal-article"},{"id":"pmh:oai:pubmedcentral.nih.gov:7521179","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7521179","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":"Transl Vis Sci Technol","raw_type":"Text"},{"id":"pmid:33024617","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33024617","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":"Translational vision science & technology","raw_type":"Journal Article"}],"best_oa_location":{"id":"doi:10.1167/tvst.9.10.24","doi":"https://doi.org/10.1167/tvst.9.10.24","is_oa":true,"landing_page_url":"https://doi.org/10.1167/tvst.9.10.24","pdf_url":null,"source":{"id":"https://openalex.org/S2764591444","display_name":"Translational Vision Science & Technology","issn_l":"2164-2591","issn":["2164-2591"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","dongbi-d","doyens","jufo-1","ki-jl-1","medline","norway-1","oarl","poland-100","russia-white-list-2","vabb-shw"],"host_organization":"https://openalex.org/P4310315919","host_organization_name":"Association for Research in Vision and Ophthalmology","host_organization_lineage":["https://openalex.org/P4310315919"],"host_organization_lineage_names":["Association for Research in Vision and Ophthalmology"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Translational Vision Science & Technology","raw_type":"journal-article"},"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G9000913113","display_name":"Core Grant for Vision Research","funder_award_id":"P30EY003790","funder_id":"https://openalex.org/F4320337350","funder_display_name":"National Eye Institute"}],"funders":[{"id":"https://openalex.org/F4320337350","display_name":"National Eye Institute","ror":"https://ror.org/03wkg3b53"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":33,"referenced_works":["https://openalex.org/W881471371","https://openalex.org/W1522174931","https://openalex.org/W1994009311","https://openalex.org/W2021814062","https://openalex.org/W2060132811","https://openalex.org/W2074314696","https://openalex.org/W2104764481","https://openalex.org/W2165368554","https://openalex.org/W2308032647","https://openalex.org/W2347205644","https://openalex.org/W2409724652","https://openalex.org/W2603622659","https://openalex.org/W2607618862","https://openalex.org/W2613179652","https://openalex.org/W2744009175","https://openalex.org/W2745820973","https://openalex.org/W2751345613","https://openalex.org/W2774232875","https://openalex.org/W2794320752","https://openalex.org/W2799444748","https://openalex.org/W2800311356","https://openalex.org/W2803499747","https://openalex.org/W2803685378","https://openalex.org/W2808015476","https://openalex.org/W2810706933","https://openalex.org/W2882986564","https://openalex.org/W2884995137","https://openalex.org/W2921173483","https://openalex.org/W2944750493","https://openalex.org/W2962809976","https://openalex.org/W2972429036","https://openalex.org/W3087102910","https://openalex.org/W4247909289"],"related_works":["https://openalex.org/W3209745993","https://openalex.org/W4377245694","https://openalex.org/W2897805221","https://openalex.org/W4399622714","https://openalex.org/W2963249323","https://openalex.org/W2924677623","https://openalex.org/W3011342794","https://openalex.org/W2997185824","https://openalex.org/W3087564859","https://openalex.org/W3155424632"],"abstract_inverted_index":{"Purpose:":[0],"Three-dimensional":[1],"strategy":[2],"for":[3,63,75,155,229,264],"the":[4,11,22,32,40,48,52,81,98,110,146,159,208,211,244],"differentiation":[5,102,116,168,205,224],"of":[6,100,115,127,140,161,172,210,246,255],"pluripotent":[7],"stem":[8,56,70],"cells":[9],"to":[10,17,37,187,202,206,222,232,251],"retina":[12],"has":[13],"been":[14],"widely":[15],"used":[16,51,221],"study":[18,233],"retinal":[19,65,76,101,173,192,203,236],"development,":[20],"although":[21],"cell":[23,57,60,71,256,266],"production":[24,257],"and":[25,67,170,231,249],"drug":[26],"discovery":[27],"applications":[28],"are":[29],"limited":[30],"by":[31],"throughput.":[33],"Here":[34],"we":[35,50,83,108],"attempted":[36],"scale":[38],"up":[39],"protocol":[41],"using":[42,88,117],"a":[43,141,188],"semiautomated":[44,142],"approach.":[45],"Methods:":[46],"For":[47],"experiments":[49],"Rx-GFP":[53],"mouse":[54,104],"embryonic":[55,69],"(mES)":[58],"reporter":[59],"line,":[61],"specific":[62,74],"early":[64],"development":[66],"human":[68,247],"line":[72],"Brn3b-tdTomato,":[73],"ganglion":[77],"cells.":[78],"To":[79,96],"increase":[80,190,207],"throughput,":[82],"implemented":[84],"automated":[85,124,216],"media":[86],"exchange":[87],"Thermo":[89,93],"WellWash":[90],"Versa":[91],"with":[92,132],"RapidStack":[94],"robot.":[95],"analyze":[97],"rate":[99],"in":[103,167,191,258],"stem-cell":[105],"derived":[106],"organoids":[107,157],"imaged":[109],"plates":[111],"at":[112],"day":[113,184],"10":[114],"Life":[118],"Technologies":[119],"EVOS":[120],"Fl":[121],"Auto.":[122],"The":[123,138],"image":[125,176,217],"analysis":[126,177,218],"fluorescent":[128],"images":[129],"was":[130],"performed":[131],"custom":[133],"Python":[134],"OpenCV":[135],"script.":[136],"Results:":[137],"implementation":[139],"approach":[143,198,242],"significantly":[144],"reduced":[145],"operator":[147],"time":[148],"needed:":[149],"34":[150],"minutes":[151],"versus":[152],"two":[153],"hours":[154],"960":[156],"over":[158],"course":[160],"25":[162],"days":[163],"without":[164],"any":[165],"change":[166],"pattern":[169],"quantity":[171],"differentiation.":[174,237],"Automated":[175],"showed":[178],"that":[179,215],"Forskolin":[180],"treatment":[181],"starting":[182],"from":[183],"1":[185],"leads":[186],"significant":[189],"field":[193],"induction":[194],"efficiency.":[195],"Conclusions:":[196],"Semiautomated":[197],"can":[199,219],"be":[200,220],"applied":[201],"tissue":[204],"throughput":[209],"protocol.":[212],"We":[213],"demonstrated":[214],"evaluate":[223],"efficiency,":[225],"as":[226,228],"well":[227],"troubleshooting":[230],"factors":[234],"affecting":[235],"Translational":[238],"Relevance:":[239],"Using":[240],"robotic":[241],"reduces":[243],"risk":[245],"error":[248],"allows":[250],"perform":[252],"all":[253],"cycle":[254],"enclosed":[259],"conditions,":[260],"which":[261],"is":[262],"critical":[263],"GMP":[265],"manufacture.":[267]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":4}],"updated_date":"2026-10-31T12:09:11.096373","created_date":"2020-10-01T00:00:00"}