{"id":"https://openalex.org/W3000425833","doi":"https://doi.org/10.1101/2020.01.07.897405","title":"An Active Chemo-mechanical Model to Predict Adhesion and Microenvironmental Regulation of 3D Cell Shapes","display_name":"An Active Chemo-mechanical Model to Predict Adhesion and Microenvironmental Regulation of 3D Cell Shapes","publication_year":2020,"publication_date":"2020-01-07","ids":{"openalex":"https://openalex.org/W3000425833","doi":"https://doi.org/10.1101/2020.01.07.897405","mag":"3000425833"},"language":"en","primary_location":{"id":"doi:10.1101/2020.01.07.897405","doi":"https://doi.org/10.1101/2020.01.07.897405","is_oa":true,"landing_page_url":"https://doi.org/10.1101/2020.01.07.897405","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2020/01/07/2020.01.07.897405.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":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},"volume":null,"type":"preprint","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.biorxiv.org/content/biorxiv/early/2020/01/07/2020.01.07.897405.full.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100387351","display_name":"Xingyu Chen","orcid":"https://orcid.org/0000-0002-9725-7421","observed_orcids":["https://orcid.org/0000-0002-9725-7421"]},"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":"Xingyu Chen","raw_affiliation_strings":["Center for Engineering Mechanobiology, University of Pennsylvania, Philadelphia, PA 19104","Department of Materials Science and Engineering, University of Pennsylvania, Philadelphia, PA 19104","Center for Engineering Mechanobiology, University of Pennsylvania, Philadelphia, PA 904"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Engineering Mechanobiology, University of Pennsylvania, Philadelphia, PA 19104","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Department of Materials Science and Engineering, University of Pennsylvania, Philadelphia, PA 19104","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Center for Engineering Mechanobiology, University of Pennsylvania, Philadelphia, PA 904","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029664907","display_name":"Veronika te Boekhorst","orcid":"https://orcid.org/0000-0002-9473-5926","observed_orcids":["https://orcid.org/0000-0002-9473-5926"]},"institutions":[{"id":"https://openalex.org/I1343551460","display_name":"The University of Texas MD Anderson Cancer Center","ror":"https://ror.org/04twxam07","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1343551460"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Veronika te Boekhorst","raw_affiliation_strings":["Department of Genitourinary Medical Oncology, The University of Texas MD Anderson Cancer Center, Houston, TX 77030","Department of Genitourinary Medical Oncology, The University of Texas MD Anderson Cancer Center, Houston, TX 7700"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Genitourinary Medical Oncology, The University of Texas MD Anderson Cancer Center, Houston, TX 77030","institution_ids":["https://openalex.org/I1343551460"]},{"raw_affiliation_string":"Department of Genitourinary Medical Oncology, The University of Texas MD Anderson Cancer Center, Houston, TX 7700","institution_ids":["https://openalex.org/I1343551460"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046804270","display_name":"E\u00f3in McEvoy","orcid":"https://orcid.org/0000-0002-8804-8177","observed_orcids":["https://orcid.org/0000-0002-8804-8177"]},"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":"Eoin McEvoy","raw_affiliation_strings":["Center for Engineering Mechanobiology, University of Pennsylvania, Philadelphia, PA 19104","Department of Materials Science and Engineering, University of Pennsylvania, Philadelphia, PA 19104","Center for Engineering Mechanobiology, University of Pennsylvania, Philadelphia, PA 904"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Engineering Mechanobiology, University of Pennsylvania, Philadelphia, PA 19104","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Department of Materials Science and Engineering, University of Pennsylvania, Philadelphia, PA 19104","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Center for Engineering Mechanobiology, University of Pennsylvania, Philadelphia, PA 904","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026527299","display_name":"Peter Friedl","orcid":"https://orcid.org/0000-0002-0119-4041","observed_orcids":["https://orcid.org/0000-0002-0119-4041"]},"institutions":[{"id":"https://openalex.org/I1343551460","display_name":"The University of Texas MD Anderson Cancer Center","ror":"https://ror.org/04twxam07","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1343551460"]},{"id":"https://openalex.org/I2802934949","display_name":"Radboud University Medical Center","ror":"https://ror.org/05wg1m734","country_code":"NL","type":"funder","lineage":["https://openalex.org/I2802934949"]}],"countries":["NL","US"],"is_corresponding":false,"raw_author_name":"Peter Friedl","raw_affiliation_strings":["Department of Cell Biology, Radboud University Medical Centre, 6525GA Nijmegen, The Netherlands","Department of Genitourinary Medical Oncology, The University of Texas MD Anderson Cancer Center, Houston, TX 77030","Department of Genitourinary Medical Oncology, The University of Texas MD Anderson Cancer Center, Houston, TX 7700"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cell Biology, Radboud University Medical Centre, 6525GA Nijmegen, The Netherlands","institution_ids":["https://openalex.org/I2802934949"]},{"raw_affiliation_string":"Department of Genitourinary Medical Oncology, The University of Texas MD Anderson Cancer Center, Houston, TX 77030","institution_ids":["https://openalex.org/I1343551460"]},{"raw_affiliation_string":"Department of Genitourinary Medical Oncology, The University of Texas MD Anderson Cancer Center, Houston, TX 7700","institution_ids":["https://openalex.org/I1343551460"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5011906405","display_name":"Vivek B. Shenoy","orcid":"https://orcid.org/0000-0002-2645-1016","observed_orcids":["https://orcid.org/0000-0002-2645-1016"]},"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":true,"raw_author_name":"Vivek B. Shenoy","raw_affiliation_strings":["Center for Engineering Mechanobiology, University of Pennsylvania, Philadelphia, PA 19104","Department of Materials Science and Engineering, University of Pennsylvania, Philadelphia, PA 19104","Center for Engineering Mechanobiology, University of Pennsylvania, Philadelphia, PA 904"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Engineering Mechanobiology, University of Pennsylvania, Philadelphia, PA 19104","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Department of Materials Science and Engineering, University of Pennsylvania, Philadelphia, PA 19104","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Center for Engineering Mechanobiology, University of Pennsylvania, Philadelphia, PA 904","institution_ids":["https://openalex.org/I79576946"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5011906405"],"corresponding_institution_ids":["https://openalex.org/I79576946"],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":true,"cited_by_count":4,"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/T10379","display_name":"Cellular Mechanics and Interactions","score":1.0,"subfield":{"id":"https://openalex.org/subfields/1307","display_name":"Cell 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/T10379","display_name":"Cellular Mechanics and Interactions","score":1.0,"subfield":{"id":"https://openalex.org/subfields/1307","display_name":"Cell 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/T10831","display_name":"Cell Adhesion Molecules Research","score":0.0,"subfield":{"id":"https://openalex.org/subfields/2723","display_name":"Immunology and Allergy"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.0,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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/cell-shape","display_name":"cell shape","score":0.9139999747276306},{"id":"https://openalex.org/keywords/cell-adhesion","display_name":"cell adhesion","score":0.8009999990463257},{"id":"https://openalex.org/keywords/integrins","display_name":"integrins","score":0.6840000152587891},{"id":"https://openalex.org/keywords/cell-contractility","display_name":"cell contractility","score":0.6899999976158142},{"id":"https://openalex.org/keywords/mechanosensitive-signaling","display_name":"mechanosensitive signaling","score":0.8539999723434448},{"id":"https://openalex.org/keywords/3d-collagen-gel","display_name":"3D collagen gel","score":0.6909999847412109},{"id":"https://openalex.org/keywords/actin-fibers","display_name":"actin fibers","score":0.7559999823570251},{"id":"https://openalex.org/keywords/cortical-tension","display_name":"cortical tension","score":0.9359999895095825},{"id":"https://openalex.org/keywords/membrane-tension","display_name":"membrane tension","score":0.9750000238418579},{"id":"https://openalex.org/keywords/cell-elongation","display_name":"cell elongation","score":0.7910000085830688},{"id":"https://openalex.org/keywords/phase-diagram","display_name":"phase diagram","score":0.6729999780654907},{"id":"https://openalex.org/keywords/ht1080-cells","display_name":"HT1080 cells","score":0.8379999995231628},{"id":"https://openalex.org/keywords/microenvironment-regulation","display_name":"microenvironment regulation","score":0.5389999747276306}],"concepts":[{"id":"https://openalex.org/C4001165","wikidata":"https://www.wikidata.org/wiki/Q6804689","display_name":"Mechanosensitive channels","level":4,"score":0.7451287508010864},{"id":"https://openalex.org/C39133596","wikidata":"https://www.wikidata.org/wiki/Q5165683","display_name":"Contractility","level":2,"score":0.7005956172943115},{"id":"https://openalex.org/C189165786","wikidata":"https://www.wikidata.org/wiki/Q193825","display_name":"Extracellular matrix","level":2,"score":0.659019947052002},{"id":"https://openalex.org/C151166631","wikidata":"https://www.wikidata.org/wiki/Q904514","display_name":"Focal adhesion","level":3,"score":0.6132290959358215},{"id":"https://openalex.org/C142669718","wikidata":"https://www.wikidata.org/wiki/Q154626","display_name":"Cytoskeleton","level":3,"score":0.6032741665840149},{"id":"https://openalex.org/C195687474","wikidata":"https://www.wikidata.org/wiki/Q409715","display_name":"Integrin","level":3,"score":0.5760601758956909},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.5144341588020325},{"id":"https://openalex.org/C181104049","wikidata":"https://www.wikidata.org/wiki/Q11936292","display_name":"Mechanotransduction","level":2,"score":0.49330559372901917},{"id":"https://openalex.org/C2780171871","wikidata":"https://www.wikidata.org/wiki/Q6804676","display_name":"Mechanobiology","level":2,"score":0.489498496055603},{"id":"https://openalex.org/C84416704","wikidata":"https://www.wikidata.org/wiki/Q188666","display_name":"Adhesion","level":2,"score":0.46665430068969727},{"id":"https://openalex.org/C1491633281","wikidata":"https://www.wikidata.org/wiki/Q7868","display_name":"Cell","level":2,"score":0.46624651551246643},{"id":"https://openalex.org/C85789140","wikidata":"https://www.wikidata.org/wiki/Q187640","display_name":"Cell adhesion","level":3,"score":0.4639230966567993},{"id":"https://openalex.org/C12554922","wikidata":"https://www.wikidata.org/wiki/Q7100","display_name":"Biophysics","level":1,"score":0.45700231194496155},{"id":"https://openalex.org/C106487976","wikidata":"https://www.wikidata.org/wiki/Q685816","display_name":"Matrix (chemical analysis)","level":2,"score":0.4473619759082794},{"id":"https://openalex.org/C33947775","wikidata":"https://www.wikidata.org/wiki/Q271439","display_name":"Elongation","level":3,"score":0.43160057067871094},{"id":"https://openalex.org/C2781099445","wikidata":"https://www.wikidata.org/wiki/Q4121060","display_name":"Stress fiber","level":4,"score":0.4306633472442627},{"id":"https://openalex.org/C192562407","wikidata":"https://www.wikidata.org/wiki/Q228736","display_name":"Materials science","level":0,"score":0.32845163345336914},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.30930137634277344},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2501417398452759},{"id":"https://openalex.org/C62478195","wikidata":"https://www.wikidata.org/wiki/Q828130","display_name":"Signal transduction","level":2,"score":0.24585974216461182},{"id":"https://openalex.org/C112950240","wikidata":"https://www.wikidata.org/wiki/Q76005","display_name":"Ultimate tensile strength","level":2,"score":0.1259082853794098},{"id":"https://openalex.org/C170493617","wikidata":"https://www.wikidata.org/wiki/Q208467","display_name":"Receptor","level":2,"score":0.10411971807479858},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.07974636554718018},{"id":"https://openalex.org/C159985019","wikidata":"https://www.wikidata.org/wiki/Q181790","display_name":"Composite material","level":1,"score":0.06973767280578613},{"id":"https://openalex.org/C50254741","wikidata":"https://www.wikidata.org/wiki/Q62536","display_name":"Ion channel","level":3,"score":0.0},{"id":"https://openalex.org/C134018914","wikidata":"https://www.wikidata.org/wiki/Q162606","display_name":"Endocrinology","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1101/2020.01.07.897405","doi":"https://doi.org/10.1101/2020.01.07.897405","is_oa":true,"landing_page_url":"https://doi.org/10.1101/2020.01.07.897405","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2020/01/07/2020.01.07.897405.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":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"}],"best_oa_location":{"id":"doi:10.1101/2020.01.07.897405","doi":"https://doi.org/10.1101/2020.01.07.897405","is_oa":true,"landing_page_url":"https://doi.org/10.1101/2020.01.07.897405","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2020/01/07/2020.01.07.897405.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":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","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/W3000425833.pdf","grobid_xml":"https://content.openalex.org/works/W3000425833.grobid-xml"},"referenced_works_count":28,"referenced_works":["https://openalex.org/W1551787508","https://openalex.org/W1588280167","https://openalex.org/W1964681850","https://openalex.org/W1968783143","https://openalex.org/W1975083049","https://openalex.org/W1984474513","https://openalex.org/W1995160678","https://openalex.org/W1995977950","https://openalex.org/W2014392784","https://openalex.org/W2026632078","https://openalex.org/W2037023035","https://openalex.org/W2054635074","https://openalex.org/W2072709258","https://openalex.org/W2073511180","https://openalex.org/W2086310075","https://openalex.org/W2109594092","https://openalex.org/W2110344693","https://openalex.org/W2115062156","https://openalex.org/W2129926378","https://openalex.org/W2130103532","https://openalex.org/W2134208433","https://openalex.org/W2138035663","https://openalex.org/W2146337514","https://openalex.org/W2157537726","https://openalex.org/W2269083653","https://openalex.org/W2270498673","https://openalex.org/W2549069335","https://openalex.org/W2588279759"],"related_works":["https://openalex.org/W4221045674","https://openalex.org/W2092050304","https://openalex.org/W1982149574","https://openalex.org/W2169011454","https://openalex.org/W2753459966","https://openalex.org/W2738465414","https://openalex.org/W2582174445","https://openalex.org/W3017513556","https://openalex.org/W1999891964","https://openalex.org/W2608882818"],"abstract_inverted_index":{"Abstract":[0],"Cell":[1],"shapes":[2,34,171],"are":[3,166,196],"known":[4],"to":[5,15,48,186,198],"regulate":[6,59,187],"cytoskeletal":[7],"organization,":[8],"stiffness":[9,119],"and":[10,17,27,52,94,97,117,126,155,182,189,206],"the":[11,24,32,53,56,65,80,85,95,100,103,111,124,133,146,150,156,170,194,216],"ability":[12],"of":[13,23,55,82,87,99,105,122,152,158,172,179,193,212],"cells":[14,66,174],"migrate":[16],"proliferate.":[18],"Yet":[19],"a":[20,44,210],"quantitative":[21],"understanding":[22],"fundamental":[25],"biochemical":[26,159],"biophysical":[28],"mechanisms":[29],"that":[30,64,108,161],"determine":[31],"cell":[33,60,112,143,213],"is":[35],"currently":[36],"not":[37],"available.":[38],"In":[39],"this":[40],"study,":[41],"we":[42,138],"developed":[43],"chemo-mechanical":[45],"feedback":[46],"model":[47,195],"predict":[49],"how":[50],"adhesions":[51,154,188],"properties":[54],"3D":[57,68],"microenvironment":[58],"shapes.":[61],"We":[62],"find":[63],"in":[67,145,176,200,215],"collagen":[69,177],"matrices":[70],"remain":[71],"round":[72],"or":[73],"adopt":[74],"an":[75],"elongated":[76],"shape":[77,144],"depending":[78],"on":[79,132,209],"density":[81,96,151],"active":[83,153],"integrins,":[84],"level":[86,157],"contractility":[88],"regulated":[89],"by":[90,115,149,168],"mechanosensitive":[91],"signaling":[92,160],"pathways":[93],"mechanics":[98],"matrix.":[101],"While":[102],"formation":[104],"actin":[106],"fibers":[107],"run":[109],"along":[110],"body":[113],"mediated":[114],"integrins":[116],"matrix":[118],"drive":[120],"elongation":[121],"cells,":[123],"cortical":[125],"membrane":[127],"tension":[128],"resist":[129],"elongation.":[130],"Based":[131],"competition":[134],"between":[135],"these":[136],"mechanisms,":[137],"derive":[139],"phase":[140],"diagrams":[141],"for":[142],"space":[147],"spanned":[148],"controls":[162],"contractility.":[163,190],"Our":[164],"predictions":[165,192],"validated":[167],"studying":[169],"HT1080":[173],"cultured":[175],"gels":[178],"varying":[180],"densities":[181],"using":[183],"pharmacological":[184],"treatments":[185],"The":[191],"found":[197],"be":[199],"excellent":[201],"agreement":[202],"with":[203],"our":[204],"experiments":[205],"data":[207],"reported":[208],"number":[211],"types":[214],"literature.":[217]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":1}],"updated_date":"2026-10-27T15:51:10.671819","created_date":"2020-01-23T00:00:00"}
