{"id":"https://openalex.org/W7222939170","doi":"https://doi.org/10.64898/2026.10.13.758934","title":"scRBP infers cell-specific RNA-binding protein regulons from single-cell transcriptomes at gene and isoform resolution","display_name":"scRBP infers cell-specific RNA-binding protein regulons from single-cell transcriptomes at gene and isoform resolution","publication_year":2026,"publication_date":"2026-10-19","ids":{"openalex":"https://openalex.org/W7222939170","doi":"https://doi.org/10.64898/2026.10.13.758934"},"language":"en","primary_location":{"id":"doi:10.64898/2026.10.13.758934","doi":"https://doi.org/10.64898/2026.10.13.758934","is_oa":true,"landing_page_url":"https://doi.org/10.64898/2026.10.13.758934","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2026/10/19/2026.10.13.758934.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","license_id":"https://openalex.org/licenses/cc-by-nc","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},"volume":null,"type":"preprint","is_traditional":true,"indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.biorxiv.org/content/biorxiv/early/2026/10/19/2026.10.13.758934.full.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5072028287","display_name":"Yunlong Ma","orcid":"https://orcid.org/0000-0002-1299-4802","observed_orcids":["https://orcid.org/0000-0002-1299-4802"]},"institutions":[{"id":"https://openalex.org/I1335321130","display_name":"Children's Hospital of Philadelphia","ror":"https://ror.org/01z7r7q48","country_code":"US","type":"funder","lineage":["https://openalex.org/I1335321130"]},{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Yunlong Ma","raw_affiliation_strings":["Departments of Psychiatry, Genetics, and Pediatrics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA","Lifespan Brain Institute at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","The Lurie Autism Institute (LAI) at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Departments of Psychiatry, Genetics, and Pediatrics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Lifespan Brain Institute at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I1335321130"]},{"raw_affiliation_string":"The Lurie Autism Institute (LAI) at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I1335321130"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101741349","display_name":"Miao Tang","orcid":"https://orcid.org/0009-0007-8380-3632","observed_orcids":["https://orcid.org/0009-0007-8380-3632","https://orcid.org/0000-0001-7085-5539"]},"institutions":[{"id":"https://openalex.org/I1335321130","display_name":"Children's Hospital of Philadelphia","ror":"https://ror.org/01z7r7q48","country_code":"US","type":"funder","lineage":["https://openalex.org/I1335321130"]},{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Miao Tang","raw_affiliation_strings":["Departments of Psychiatry, Genetics, and Pediatrics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA","Lifespan Brain Institute at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","The Lurie Autism Institute (LAI) at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Departments of Psychiatry, Genetics, and Pediatrics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Lifespan Brain Institute at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I1335321130"]},{"raw_affiliation_string":"The Lurie Autism Institute (LAI) at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I1335321130"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5159033295","display_name":"Vanshika Sriram","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I1335321130","display_name":"Children's Hospital of Philadelphia","ror":"https://ror.org/01z7r7q48","country_code":"US","type":"funder","lineage":["https://openalex.org/I1335321130"]},{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Vanshika Sriram","raw_affiliation_strings":["Departments of Psychiatry, Genetics, and Pediatrics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA","Lifespan Brain Institute at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","The Lurie Autism Institute (LAI) at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Departments of Psychiatry, Genetics, and Pediatrics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Lifespan Brain Institute at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I1335321130"]},{"raw_affiliation_string":"The Lurie Autism Institute (LAI) at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I1335321130"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5115589968","display_name":"Jingjing Li","orcid":"https://orcid.org/0000-0001-6025-9522","observed_orcids":["https://orcid.org/0000-0001-6025-9522","https://orcid.org/0000-0001-8000-7410"]},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jingjing Li","raw_affiliation_strings":["Department of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001960069","display_name":"Connor T. Jops","orcid":"https://orcid.org/0000-0003-3813-2407","observed_orcids":["https://orcid.org/0000-0003-3813-2407"]},"institutions":[{"id":"https://openalex.org/I1335321130","display_name":"Children's Hospital of Philadelphia","ror":"https://ror.org/01z7r7q48","country_code":"US","type":"funder","lineage":["https://openalex.org/I1335321130"]},{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Connor Jops","raw_affiliation_strings":["Departments of Psychiatry, Genetics, and Pediatrics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA","Lifespan Brain Institute at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","The Lurie Autism Institute (LAI) at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Departments of Psychiatry, Genetics, and Pediatrics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Lifespan Brain Institute at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I1335321130"]},{"raw_affiliation_string":"The Lurie Autism Institute (LAI) at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I1335321130"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5060154851","display_name":"Jade England","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I1335321130","display_name":"Children's Hospital of Philadelphia","ror":"https://ror.org/01z7r7q48","country_code":"US","type":"funder","lineage":["https://openalex.org/I1335321130"]},{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jade England","raw_affiliation_strings":["Departments of Psychiatry, Genetics, and Pediatrics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA","Lifespan Brain Institute at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","The Lurie Autism Institute (LAI) at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Departments of Psychiatry, Genetics, and Pediatrics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Lifespan Brain Institute at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I1335321130"]},{"raw_affiliation_string":"The Lurie Autism Institute (LAI) at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I1335321130"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041737053","display_name":"Daniel Vo","orcid":"https://orcid.org/0000-0003-2057-969X","observed_orcids":["https://orcid.org/0000-0003-2057-969X"]},"institutions":[{"id":"https://openalex.org/I1335321130","display_name":"Children's Hospital of Philadelphia","ror":"https://ror.org/01z7r7q48","country_code":"US","type":"funder","lineage":["https://openalex.org/I1335321130"]},{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Daniel Vo","raw_affiliation_strings":["Departments of Psychiatry, Genetics, and Pediatrics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA","Lifespan Brain Institute at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","The Lurie Autism Institute (LAI) at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Departments of Psychiatry, Genetics, and Pediatrics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Lifespan Brain Institute at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I1335321130"]},{"raw_affiliation_string":"The Lurie Autism Institute (LAI) at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I1335321130"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5159085016","display_name":"Yundan Liao","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I1335321130","display_name":"Children's Hospital of Philadelphia","ror":"https://ror.org/01z7r7q48","country_code":"US","type":"funder","lineage":["https://openalex.org/I1335321130"]},{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yundan Liao","raw_affiliation_strings":["Departments of Psychiatry, Genetics, and Pediatrics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA","Lifespan Brain Institute at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","The Lurie Autism Institute (LAI) at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Departments of Psychiatry, Genetics, and Pediatrics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Lifespan Brain Institute at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I1335321130"]},{"raw_affiliation_string":"The Lurie Autism Institute (LAI) at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I1335321130"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089425963","display_name":"Rachel L. Smith","orcid":"https://orcid.org/0009-0001-5318-219X","observed_orcids":["https://orcid.org/0009-0001-5318-219X"]},"institutions":[{"id":"https://openalex.org/I1335321130","display_name":"Children's Hospital of Philadelphia","ror":"https://ror.org/01z7r7q48","country_code":"US","type":"funder","lineage":["https://openalex.org/I1335321130"]},{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Rachel L. Smith","raw_affiliation_strings":["Departments of Psychiatry, Genetics, and Pediatrics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA","Lifespan Brain Institute at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","The Lurie Autism Institute (LAI) at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA"],"raw_orcid":"https://orcid.org/0009-0001-5318-219X","affiliations":[{"raw_affiliation_string":"Departments of Psychiatry, Genetics, and Pediatrics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Lifespan Brain Institute at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I1335321130"]},{"raw_affiliation_string":"The Lurie Autism Institute (LAI) at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I1335321130"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071696583","display_name":"Michael P. Margolis","orcid":"https://orcid.org/0000-0002-3706-8960","observed_orcids":["https://orcid.org/0000-0002-3706-8960"]},"institutions":[{"id":"https://openalex.org/I161318765","display_name":"University of California, Los Angeles","ror":"https://ror.org/046rm7j60","country_code":"US","type":"education","lineage":["https://openalex.org/I161318765"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Michael Margolis","raw_affiliation_strings":["Department of Human Genetics, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90095, USA","Department of Psychiatry and Biobehavioral Sciences, Semel Institute, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90024, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Human Genetics, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90095, USA","institution_ids":["https://openalex.org/I161318765"]},{"raw_affiliation_string":"Department of Psychiatry and Biobehavioral Sciences, Semel Institute, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90024, USA","institution_ids":["https://openalex.org/I161318765"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074055600","display_name":"Ophir Shalem","orcid":"https://orcid.org/0000-0002-2267-0801","observed_orcids":["https://orcid.org/0000-0002-2267-0801"]},"institutions":[{"id":"https://openalex.org/I1335321130","display_name":"Children's Hospital of Philadelphia","ror":"https://ror.org/01z7r7q48","country_code":"US","type":"funder","lineage":["https://openalex.org/I1335321130"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ophir Shalem","raw_affiliation_strings":["Center for Cellular and Molecular Therapeutics, Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Cellular and Molecular Therapeutics, Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I1335321130"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5134573824","display_name":"Michael J. Ziller","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I22465464","display_name":"University of M\u00fcnster","ror":"https://ror.org/00pd74e08","country_code":"DE","type":"education","lineage":["https://openalex.org/I22465464"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Michael J. Ziller","raw_affiliation_strings":["Center for Soft Nanoscience, University of M\u00fcnster, 48149 M\u00fcnster, Germany","Department of Psychiatry, University of M\u00fcnster, 48149 M\u00fcnster, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Soft Nanoscience, University of M\u00fcnster, 48149 M\u00fcnster, Germany","institution_ids":["https://openalex.org/I22465464"]},{"raw_affiliation_string":"Department of Psychiatry, University of M\u00fcnster, 48149 M\u00fcnster, Germany","institution_ids":["https://openalex.org/I22465464"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5028366922","display_name":"Celine K. Vuong","orcid":"https://orcid.org/0000-0002-8269-0660","observed_orcids":["https://orcid.org/0000-0002-8269-0660"]},"institutions":[{"id":"https://openalex.org/I161318765","display_name":"University of California, Los Angeles","ror":"https://ror.org/046rm7j60","country_code":"US","type":"education","lineage":["https://openalex.org/I161318765"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Celine K. Vuong","raw_affiliation_strings":["Department of Psychiatry and Biobehavioral Sciences, Semel Institute, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90024, USA","Intellectual and Developmental Disabilities Research Center, Semel Institute, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90095, USA","Semel Institute for Neuroscience and Human Behavior, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90095, USA"],"raw_orcid":"https://orcid.org/0000-0002-8269-0660","affiliations":[{"raw_affiliation_string":"Department of Psychiatry and Biobehavioral Sciences, Semel Institute, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90024, USA","institution_ids":["https://openalex.org/I161318765"]},{"raw_affiliation_string":"Intellectual and Developmental Disabilities Research Center, Semel Institute, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90095, USA","institution_ids":["https://openalex.org/I161318765"]},{"raw_affiliation_string":"Semel Institute for Neuroscience and Human Behavior, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90095, USA","institution_ids":["https://openalex.org/I161318765"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081375674","display_name":"Luis de la Torre-Ubieta","orcid":"https://orcid.org/0000-0001-8059-6243","observed_orcids":["https://orcid.org/0000-0001-8059-6243"]},"institutions":[{"id":"https://openalex.org/I161318765","display_name":"University of California, Los Angeles","ror":"https://ror.org/046rm7j60","country_code":"US","type":"education","lineage":["https://openalex.org/I161318765"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Luis de la Torre Ubieta","raw_affiliation_strings":["Department of Psychiatry and Biobehavioral Sciences, Semel Institute, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90024, USA","Intellectual and Developmental Disabilities Research Center, Semel Institute, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90095, USA","Semel Institute for Neuroscience and Human Behavior, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90095, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Psychiatry and Biobehavioral Sciences, Semel Institute, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90024, USA","institution_ids":["https://openalex.org/I161318765"]},{"raw_affiliation_string":"Intellectual and Developmental Disabilities Research Center, Semel Institute, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90095, USA","institution_ids":["https://openalex.org/I161318765"]},{"raw_affiliation_string":"Semel Institute for Neuroscience and Human Behavior, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90095, USA","institution_ids":["https://openalex.org/I161318765"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5159078481","display_name":"Michael Gandal","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I1335321130","display_name":"Children's Hospital of Philadelphia","ror":"https://ror.org/01z7r7q48","country_code":"US","type":"funder","lineage":["https://openalex.org/I1335321130"]},{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Michael J. Gandal","raw_affiliation_strings":["Departments of Psychiatry, Genetics, and Pediatrics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA","Lifespan Brain Institute at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","The Lurie Autism Institute (LAI) at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Departments of Psychiatry, Genetics, and Pediatrics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Lifespan Brain Institute at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I1335321130"]},{"raw_affiliation_string":"The Lurie Autism Institute (LAI) at Penn Med and the Children\u2019s Hospital of Philadelphia, Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I1335321130"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5072028287"],"corresponding_institution_ids":["https://openalex.org/I1335321130","https://openalex.org/I79576946"],"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/T10604","display_name":"RNA Research and Splicing","score":0.8622999787330627,"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/T10604","display_name":"RNA Research and Splicing","score":0.8622999787330627,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.12349999696016312,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.004399999976158142,"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/rna-binding-proteins","display_name":"RNA-binding proteins","score":0.9879999756813049},{"id":"https://openalex.org/keywords/single-cell-transcriptomics","display_name":"single-cell transcriptomics","score":0.7950000166893005},{"id":"https://openalex.org/keywords/post-transcriptional-regulation","display_name":"post-transcriptional regulation","score":0.7929999828338623},{"id":"https://openalex.org/keywords/3-untranslated-region","display_name":"3' untranslated region","score":0.5730000138282776},{"id":"https://openalex.org/keywords/introns","display_name":"introns","score":0.4690000116825104},{"id":"https://openalex.org/keywords/eclip","display_name":"eCLIP","score":0.8289999961853027},{"id":"https://openalex.org/keywords/rare-variant-association","display_name":"rare variant association","score":0.6499999761581421}],"concepts":[{"id":"https://openalex.org/C62361671","wikidata":"https://www.wikidata.org/wiki/Q1754612","display_name":"Regulon","level":4,"score":0.9520000219345093},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7272999882698059},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.6173999905586243},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5953999757766724},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.5874000191688538},{"id":"https://openalex.org/C53345823","wikidata":"https://www.wikidata.org/wiki/Q5531554","display_name":"Gene isoform","level":3,"score":0.5697000026702881},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.5659999847412109},{"id":"https://openalex.org/C194583182","wikidata":"https://www.wikidata.org/wiki/Q21114084","display_name":"Alternative splicing","level":4,"score":0.5343000292778015},{"id":"https://openalex.org/C66746571","wikidata":"https://www.wikidata.org/wiki/Q1134833","display_name":"ENCODE","level":3,"score":0.44510000944137573},{"id":"https://openalex.org/C165864922","wikidata":"https://www.wikidata.org/wiki/Q411391","display_name":"Regulation of gene expression","level":3,"score":0.43720000982284546},{"id":"https://openalex.org/C173396325","wikidata":"https://www.wikidata.org/wiki/Q1501275","display_name":"Gene knockdown","level":3,"score":0.42719998955726624},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.4260999858379364},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.4099000096321106},{"id":"https://openalex.org/C179926584","wikidata":"https://www.wikidata.org/wiki/Q207714","display_name":"Transcription (linguistics)","level":2,"score":0.3961000144481659},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.38839998841285706},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.34459999203681946},{"id":"https://openalex.org/C54458228","wikidata":"https://www.wikidata.org/wiki/Q237218","display_name":"RNA splicing","level":4,"score":0.33149999380111694},{"id":"https://openalex.org/C18431079","wikidata":"https://www.wikidata.org/wiki/Q1502169","display_name":"Gene expression profiling","level":4,"score":0.3084000051021576},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.29589998722076416},{"id":"https://openalex.org/C21592294","wikidata":"https://www.wikidata.org/wiki/Q3238407","display_name":"Regulatory sequence","level":4,"score":0.2685999870300293},{"id":"https://openalex.org/C33498276","wikidata":"https://www.wikidata.org/wiki/Q2138797","display_name":"Regulator gene","level":4,"score":0.2671999931335449},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.26249998807907104}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.64898/2026.10.13.758934","doi":"https://doi.org/10.64898/2026.10.13.758934","is_oa":true,"landing_page_url":"https://doi.org/10.64898/2026.10.13.758934","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2026/10/19/2026.10.13.758934.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","license_id":"https://openalex.org/licenses/cc-by-nc","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},{"id":"pmh:oai:pubmedcentral.nih.gov:13738410","doi":null,"is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC13738410/","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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"bioRxiv","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.64898/2026.10.13.758934","doi":"https://doi.org/10.64898/2026.10.13.758934","is_oa":true,"landing_page_url":"https://doi.org/10.64898/2026.10.13.758934","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2026/10/19/2026.10.13.758934.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","license_id":"https://openalex.org/licenses/cc-by-nc","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/3","score":0.46810001134872437,"display_name":"Good health and well-being"}],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W7222939170.pdf","grobid_xml":"https://content.openalex.org/works/W7222939170.grobid-xml"},"referenced_works_count":1,"referenced_works":["https://openalex.org/W4220838582"],"related_works":["https://openalex.org/W3119035005","https://openalex.org/W4417095454","https://openalex.org/W4391920714","https://openalex.org/W4402356789","https://openalex.org/W4408609692","https://openalex.org/W4297265143","https://openalex.org/W4413100943","https://openalex.org/W2953051245","https://openalex.org/W4214861262","https://openalex.org/W4416666646"],"abstract_inverted_index":{"ABSTRACT":[0],"Single-cell":[1],"regulatory":[2],"network":[3],"inference":[4],"remains":[5],"dominated":[6],"by":[7,43],"transcription":[8],"factors,":[9],"despite":[10],"RNA-binding":[11],"proteins":[12],"(RBPs)":[13],"orchestrating":[14],"major":[15],"aspects":[16],"of":[17],"transcriptional":[18],"regulation.":[19],"We":[20],"present":[21],"scRBP,":[22],"a":[23],"framework":[24],"that":[25],"infers":[26],"motif-supported":[27],"RBP":[28,114],"regulons":[29],"from":[30,96],"short-":[31],"and":[32,38,56,59,84,127,141],"long-read":[33],"single-cell":[34],"transcriptomes":[35],"at":[36,82],"gene":[37,83],"isoform":[39,85],"resolution,":[40],"resolves":[41],"targets":[42,76,107],"transcript":[44],"region":[45],"(5\u2032UTR,":[46],"CDS,":[47],"intron,":[48],"3\u2032UTR),":[49],"scores":[50],"regulon":[51],"activity":[52],"in":[53],"individual":[54],"cells,":[55],"tests":[57],"common-":[58],"rare-variant":[60],"association":[61],"against":[62],"matched":[63],"empirical":[64],"nulls.":[65],"From":[66],"20,746":[67],"motifs":[68],"for":[69],"616":[70],"RBPs,":[71],"scRBP":[72,130],"recovered":[73],"experimentally":[74],"defined":[75],"across":[77,117],"223":[78],"ENCODE":[79],"eCLIP":[80],"datasets":[81],"level.":[86],"Across":[87,123],"30":[88],"tissues,":[89],"transcript-region":[90],"preferences":[91],"separated":[92],"3\u2032UTR-associated":[93],"stability":[94],"factors":[95],"intron-dominant":[97],"splicing":[98],"regulators.":[99],"In":[100],"published":[101],"genome-scale":[102],"CRISPRi":[103],"Perturb-seq":[104],"data,":[105],"scRBP-inferred":[106],"were":[108],"over-represented":[109],"among":[110],"genes":[111],"responding":[112],"to":[113,139],"knockdown":[115],"(1.4-2.5-fold":[116],"161":[118],"RBPs;":[119],"FDR<2\u00d710":[120],"\u22124":[121],").":[122],"6.2":[124],"million":[125],"cells":[126],"50":[128],"traits,":[129],"prioritized":[131],"cell-specific":[132],"post-transcriptional":[133],"programs":[134],"linking":[135],"human":[136],"genetic":[137],"risk":[138],"development":[140],"disease.":[142]},"counts_by_year":[],"updated_date":"2026-11-08T12:12:28.789561","created_date":"2026-10-20T00:00:00"}