Cross-oncopanel study reveals high sensitivity and accuracy with overall analytical performance depending on genomic regions

2021
journal article
article
18
dc.abstract.enTargeted sequencing using oncopanels requires comprehensive assessments of accuracy and detection sensitivity to ensure analytical validity. By employing reference materials characterized by the U.S. Food and Drug Administration-led SEquence Quality Control project phase2 (SEQC2) effort, we perform a cross-platform multi-lab evaluation of eight Pan-Cancer panels to assess best practices for oncopanel sequencing.pl
dc.affiliationPion Prorektora ds. badań naukowych : Małopolskie Centrum Biotechnologiipl
dc.contributor.authorGong, Binshengpl
dc.contributor.authorLi, Danpl
dc.contributor.authorKusko, Rebeccapl
dc.contributor.authorNovoradovskaya, Nataliapl
dc.contributor.authorZhang, Yifanpl
dc.contributor.authorWang, Shangzipl
dc.contributor.authorPabón-Peña, Carlospl
dc.contributor.authorZhang, Zhihongpl
dc.contributor.authorLai, Kevinpl
dc.contributor.authorCai, Wanshipl
dc.contributor.authorLoCoco, Jennifer S.pl
dc.contributor.authorLader, Ericpl
dc.contributor.authorRichmond, Todd A.pl
dc.contributor.authorMittal, Vinay K.pl
dc.contributor.authorLiu, Liang-Chunpl
dc.contributor.authorJohann, Donald J.pl
dc.contributor.authorWilley, James C.pl
dc.contributor.authorBushel, Pierre R.pl
dc.contributor.authorYu, Yingpl
dc.contributor.authorXu, Changpl
dc.contributor.authorChen, Guangchunpl
dc.contributor.authorBurgess, Danielpl
dc.contributor.authorCawley, Simonpl
dc.contributor.authorGiorda, Kristinapl
dc.contributor.authorHaseley, Nathanpl
dc.contributor.authorQiu, Fujunpl
dc.contributor.authorWilkins, Katherinepl
dc.contributor.authorArib, Hananepl
dc.contributor.authorAttwooll, Clairepl
dc.contributor.authorBabson, Kevinpl
dc.contributor.authorBao, Longlongpl
dc.contributor.authorBao, Wenjunpl
dc.contributor.authorLucas, Anne Bergstrompl
dc.contributor.authorBest, Hunterpl
dc.contributor.authorBhandari, Ambicapl
dc.contributor.authorBisgin, Halilpl
dc.contributor.authorBlackburn, Jamespl
dc.contributor.authorBlomquist, Thomas M.pl
dc.contributor.authorBoardman, Lisapl
dc.contributor.authorBurgher, Blakepl
dc.contributor.authorButler, Daniel J.pl
dc.contributor.authorChang, Chia-Jungpl
dc.contributor.authorChaubey, Alkapl
dc.contributor.authorChen, Taopl
dc.contributor.authorChierici, Marcopl
dc.contributor.authorChin, Christopher R.pl
dc.contributor.authorClose, Devinpl
dc.contributor.authorConroy, Jeffreypl
dc.contributor.authorCooley Coleman, Jessicapl
dc.contributor.authorCraig, Daniel J.pl
dc.contributor.authorCrawford, Erinpl
dc.contributor.authordel Pozo, Angelapl
dc.contributor.authorDeveson, Ira W.pl
dc.contributor.authorDuncan, Danielpl
dc.contributor.authorEterovic, Agda Karinapl
dc.contributor.authorFan, Xiaohuipl
dc.contributor.authorFoox, Jonathanpl
dc.contributor.authorFurlanello, Cesarepl
dc.contributor.authorGhosal, Abhisekpl
dc.contributor.authorGlenn, Seanpl
dc.contributor.authorGuan, Meijianpl
dc.contributor.authorHaag, Christinepl
dc.contributor.authorHang, Xinyipl
dc.contributor.authorHappe, Scottpl
dc.contributor.authorHennigan, Brittanypl
dc.contributor.authorHipp, Jenniferpl
dc.contributor.authorHong, Huixiaopl
dc.contributor.authorHorvath, Kylepl
dc.contributor.authorHu, Jianhongpl
dc.contributor.authorHung, Li-Yuanpl
dc.contributor.authorJarosz, Mirnapl
dc.contributor.authorKerkhof, Jenniferpl
dc.contributor.authorKipp, Benjaminpl
dc.contributor.authorKreil, David Philippl
dc.contributor.authorŁabaj, Paweł - 393494 pl
dc.contributor.authorLapunzina, Pablopl
dc.contributor.authorLi, Pengpl
dc.contributor.authorLi, Quan-Zhenpl
dc.contributor.authorLi, Weihuapl
dc.contributor.authorLi, Zhiguangpl
dc.contributor.authorLiang, Yupl
dc.contributor.authorLiu, Shaoqingpl
dc.contributor.authorLiu, Zhichaopl
dc.contributor.authorMa, Charlespl
dc.contributor.authorMarella, Narasimhapl
dc.contributor.authorMartín-Arenas, Rubénpl
dc.contributor.authorMegherbi, Dalila B.pl
dc.contributor.authorMeng, Qingchangpl
dc.contributor.authorMieczkowski, Piotr A.pl
dc.contributor.authorMorrison, Tompl
dc.contributor.authorMuzny, Donnapl
dc.contributor.authorNing, Baitangpl
dc.contributor.authorParsons, Barbara L.pl
dc.contributor.authorPaweletz, Cloud P.pl
dc.contributor.authorPirooznia, Mehdipl
dc.contributor.authorQu, Wubinpl
dc.contributor.authorRaymond, Ameliapl
dc.contributor.authorRindler, Paulpl
dc.contributor.authorRingler, Rebeccapl
dc.contributor.authorSadikovic, Bekimpl
dc.contributor.authorScherer, Andreaspl
dc.contributor.authorSchulze, Egbertpl
dc.contributor.authorSebra, Robertpl
dc.contributor.authorShaknovich, Ritapl
dc.contributor.authorShi, Qiangpl
dc.contributor.authorShi, Tieliupl
dc.contributor.authorSilla-Castro, Juan Carlospl
dc.contributor.authorSmith, Melissapl
dc.contributor.authorLópez, Mario Solíspl
dc.contributor.authorSong, Pingpl
dc.contributor.authorStetson, Danielpl
dc.contributor.authorStrahl, Mayapl
dc.contributor.authorStuart, Alanpl
dc.contributor.authorSupplee, Juliannapl
dc.contributor.authorSzankasi, Philippepl
dc.contributor.authorTan, Haowenpl
dc.contributor.authorTang, Lin-yapl
dc.contributor.authorTao, Yonghuipl
dc.contributor.authorThakkar, Shraddhapl
dc.contributor.authorThierry-Mieg, Daniellepl
dc.contributor.authorThierry-Mieg, Jeanpl
dc.contributor.authorThodima, Venkat J.pl
dc.contributor.authorThomas, Davidpl
dc.contributor.authorTichý, Borispl
dc.contributor.authorTom, Nikolapl
dc.contributor.authorGarcia, Elena Vallespinpl
dc.contributor.authorVerma, Sumanpl
dc.contributor.authorWalker, Kimbleypl
dc.contributor.authorWang, Charlespl
dc.contributor.authorWang, Junwenpl
dc.contributor.authorWang, Yexunpl
dc.contributor.authorWen, Zhiningpl
dc.contributor.authorWirta, Valtteripl
dc.contributor.authorWu, Leihongpl
dc.contributor.authorXiao, Chunlinpl
dc.contributor.authorXiao, Wenzhongpl
dc.contributor.authorXu, Shibeipl
dc.contributor.authorYang, Marypl
dc.contributor.authorYing, Jianmingpl
dc.contributor.authorYip, Shun H.pl
dc.contributor.authorZhang, Guangliangpl
dc.contributor.authorZhang, Sapl
dc.contributor.authorZhao, Meirupl
dc.contributor.authorZheng, Yuantingpl
dc.contributor.authorZhou, Xiaoyanpl
dc.contributor.authorMason, Christopher E.pl
dc.contributor.authorMercer, Timothypl
dc.contributor.authorTong, Weidapl
dc.contributor.authorShi, Lemingpl
dc.contributor.authorJones, Wendellpl
dc.contributor.authorXu, Joshuapl
dc.date.accessioned2021-10-21T07:28:52Z
dc.date.available2021-10-21T07:28:52Z
dc.date.issued2021pl
dc.date.openaccess0
dc.description.accesstimew momencie opublikowania
dc.description.versionostateczna wersja wydawcy
dc.description.volume22pl
dc.identifier.articleid109pl
dc.identifier.doi10.1186/s13059-021-02315-0pl
dc.identifier.eissn1474-760Xpl
dc.identifier.projectROD UJ / OPpl
dc.identifier.urihttps://ruj.uj.edu.pl/xmlui/handle/item/281248
dc.languageengpl
dc.language.containerengpl
dc.rightsUdzielam licencji. Uznanie autorstwa 4.0 Międzynarodowa*
dc.rights.licenceCC-BY
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/legalcode.pl*
dc.share.typeotwarte czasopismo
dc.subtypeArticlepl
dc.titleCross-oncopanel study reveals high sensitivity and accuracy with overall analytical performance depending on genomic regionspl
dc.title.journalGenome Biologypl
dc.typeJournalArticlepl
dspace.entity.typePublication
dc.abstract.enpl
Targeted sequencing using oncopanels requires comprehensive assessments of accuracy and detection sensitivity to ensure analytical validity. By employing reference materials characterized by the U.S. Food and Drug Administration-led SEquence Quality Control project phase2 (SEQC2) effort, we perform a cross-platform multi-lab evaluation of eight Pan-Cancer panels to assess best practices for oncopanel sequencing.
dc.affiliationpl
Pion Prorektora ds. badań naukowych : Małopolskie Centrum Biotechnologii
dc.contributor.authorpl
Gong, Binsheng
dc.contributor.authorpl
Li, Dan
dc.contributor.authorpl
Kusko, Rebecca
dc.contributor.authorpl
Novoradovskaya, Natalia
dc.contributor.authorpl
Zhang, Yifan
dc.contributor.authorpl
Wang, Shangzi
dc.contributor.authorpl
Pabón-Peña, Carlos
dc.contributor.authorpl
Zhang, Zhihong
dc.contributor.authorpl
Lai, Kevin
dc.contributor.authorpl
Cai, Wanshi
dc.contributor.authorpl
LoCoco, Jennifer S.
dc.contributor.authorpl
Lader, Eric
dc.contributor.authorpl
Richmond, Todd A.
dc.contributor.authorpl
Mittal, Vinay K.
dc.contributor.authorpl
Liu, Liang-Chun
dc.contributor.authorpl
Johann, Donald J.
dc.contributor.authorpl
Willey, James C.
dc.contributor.authorpl
Bushel, Pierre R.
dc.contributor.authorpl
Yu, Ying
dc.contributor.authorpl
Xu, Chang
dc.contributor.authorpl
Chen, Guangchun
dc.contributor.authorpl
Burgess, Daniel
dc.contributor.authorpl
Cawley, Simon
dc.contributor.authorpl
Giorda, Kristina
dc.contributor.authorpl
Haseley, Nathan
dc.contributor.authorpl
Qiu, Fujun
dc.contributor.authorpl
Wilkins, Katherine
dc.contributor.authorpl
Arib, Hanane
dc.contributor.authorpl
Attwooll, Claire
dc.contributor.authorpl
Babson, Kevin
dc.contributor.authorpl
Bao, Longlong
dc.contributor.authorpl
Bao, Wenjun
dc.contributor.authorpl
Lucas, Anne Bergstrom
dc.contributor.authorpl
Best, Hunter
dc.contributor.authorpl
Bhandari, Ambica
dc.contributor.authorpl
Bisgin, Halil
dc.contributor.authorpl
Blackburn, James
dc.contributor.authorpl
Blomquist, Thomas M.
dc.contributor.authorpl
Boardman, Lisa
dc.contributor.authorpl
Burgher, Blake
dc.contributor.authorpl
Butler, Daniel J.
dc.contributor.authorpl
Chang, Chia-Jung
dc.contributor.authorpl
Chaubey, Alka
dc.contributor.authorpl
Chen, Tao
dc.contributor.authorpl
Chierici, Marco
dc.contributor.authorpl
Chin, Christopher R.
dc.contributor.authorpl
Close, Devin
dc.contributor.authorpl
Conroy, Jeffrey
dc.contributor.authorpl
Cooley Coleman, Jessica
dc.contributor.authorpl
Craig, Daniel J.
dc.contributor.authorpl
Crawford, Erin
dc.contributor.authorpl
del Pozo, Angela
dc.contributor.authorpl
Deveson, Ira W.
dc.contributor.authorpl
Duncan, Daniel
dc.contributor.authorpl
Eterovic, Agda Karina
dc.contributor.authorpl
Fan, Xiaohui
dc.contributor.authorpl
Foox, Jonathan
dc.contributor.authorpl
Furlanello, Cesare
dc.contributor.authorpl
Ghosal, Abhisek
dc.contributor.authorpl
Glenn, Sean
dc.contributor.authorpl
Guan, Meijian
dc.contributor.authorpl
Haag, Christine
dc.contributor.authorpl
Hang, Xinyi
dc.contributor.authorpl
Happe, Scott
dc.contributor.authorpl
Hennigan, Brittany
dc.contributor.authorpl
Hipp, Jennifer
dc.contributor.authorpl
Hong, Huixiao
dc.contributor.authorpl
Horvath, Kyle
dc.contributor.authorpl
Hu, Jianhong
dc.contributor.authorpl
Hung, Li-Yuan
dc.contributor.authorpl
Jarosz, Mirna
dc.contributor.authorpl
Kerkhof, Jennifer
dc.contributor.authorpl
Kipp, Benjamin
dc.contributor.authorpl
Kreil, David Philip
dc.contributor.authorpl
Łabaj, Paweł - 393494
dc.contributor.authorpl
Lapunzina, Pablo
dc.contributor.authorpl
Li, Peng
dc.contributor.authorpl
Li, Quan-Zhen
dc.contributor.authorpl
Li, Weihua
dc.contributor.authorpl
Li, Zhiguang
dc.contributor.authorpl
Liang, Yu
dc.contributor.authorpl
Liu, Shaoqing
dc.contributor.authorpl
Liu, Zhichao
dc.contributor.authorpl
Ma, Charles
dc.contributor.authorpl
Marella, Narasimha
dc.contributor.authorpl
Martín-Arenas, Rubén
dc.contributor.authorpl
Megherbi, Dalila B.
dc.contributor.authorpl
Meng, Qingchang
dc.contributor.authorpl
Mieczkowski, Piotr A.
dc.contributor.authorpl
Morrison, Tom
dc.contributor.authorpl
Muzny, Donna
dc.contributor.authorpl
Ning, Baitang
dc.contributor.authorpl
Parsons, Barbara L.
dc.contributor.authorpl
Paweletz, Cloud P.
dc.contributor.authorpl
Pirooznia, Mehdi
dc.contributor.authorpl
Qu, Wubin
dc.contributor.authorpl
Raymond, Amelia
dc.contributor.authorpl
Rindler, Paul
dc.contributor.authorpl
Ringler, Rebecca
dc.contributor.authorpl
Sadikovic, Bekim
dc.contributor.authorpl
Scherer, Andreas
dc.contributor.authorpl
Schulze, Egbert
dc.contributor.authorpl
Sebra, Robert
dc.contributor.authorpl
Shaknovich, Rita
dc.contributor.authorpl
Shi, Qiang
dc.contributor.authorpl
Shi, Tieliu
dc.contributor.authorpl
Silla-Castro, Juan Carlos
dc.contributor.authorpl
Smith, Melissa
dc.contributor.authorpl
López, Mario Solís
dc.contributor.authorpl
Song, Ping
dc.contributor.authorpl
Stetson, Daniel
dc.contributor.authorpl
Strahl, Maya
dc.contributor.authorpl
Stuart, Alan
dc.contributor.authorpl
Supplee, Julianna
dc.contributor.authorpl
Szankasi, Philippe
dc.contributor.authorpl
Tan, Haowen
dc.contributor.authorpl
Tang, Lin-ya
dc.contributor.authorpl
Tao, Yonghui
dc.contributor.authorpl
Thakkar, Shraddha
dc.contributor.authorpl
Thierry-Mieg, Danielle
dc.contributor.authorpl
Thierry-Mieg, Jean
dc.contributor.authorpl
Thodima, Venkat J.
dc.contributor.authorpl
Thomas, David
dc.contributor.authorpl
Tichý, Boris
dc.contributor.authorpl
Tom, Nikola
dc.contributor.authorpl
Garcia, Elena Vallespin
dc.contributor.authorpl
Verma, Suman
dc.contributor.authorpl
Walker, Kimbley
dc.contributor.authorpl
Wang, Charles
dc.contributor.authorpl
Wang, Junwen
dc.contributor.authorpl
Wang, Yexun
dc.contributor.authorpl
Wen, Zhining
dc.contributor.authorpl
Wirta, Valtteri
dc.contributor.authorpl
Wu, Leihong
dc.contributor.authorpl
Xiao, Chunlin
dc.contributor.authorpl
Xiao, Wenzhong
dc.contributor.authorpl
Xu, Shibei
dc.contributor.authorpl
Yang, Mary
dc.contributor.authorpl
Ying, Jianming
dc.contributor.authorpl
Yip, Shun H.
dc.contributor.authorpl
Zhang, Guangliang
dc.contributor.authorpl
Zhang, Sa
dc.contributor.authorpl
Zhao, Meiru
dc.contributor.authorpl
Zheng, Yuanting
dc.contributor.authorpl
Zhou, Xiaoyan
dc.contributor.authorpl
Mason, Christopher E.
dc.contributor.authorpl
Mercer, Timothy
dc.contributor.authorpl
Tong, Weida
dc.contributor.authorpl
Shi, Leming
dc.contributor.authorpl
Jones, Wendell
dc.contributor.authorpl
Xu, Joshua
dc.date.accessioned
2021-10-21T07:28:52Z
dc.date.available
2021-10-21T07:28:52Z
dc.date.issuedpl
2021
dc.date.openaccess
0
dc.description.accesstime
w momencie opublikowania
dc.description.version
ostateczna wersja wydawcy
dc.description.volumepl
22
dc.identifier.articleidpl
109
dc.identifier.doipl
10.1186/s13059-021-02315-0
dc.identifier.eissnpl
1474-760X
dc.identifier.projectpl
ROD UJ / OP
dc.identifier.uri
https://ruj.uj.edu.pl/xmlui/handle/item/281248
dc.languagepl
eng
dc.language.containerpl
eng
dc.rights*
Udzielam licencji. Uznanie autorstwa 4.0 Międzynarodowa
dc.rights.licence
CC-BY
dc.rights.uri*
http://creativecommons.org/licenses/by/4.0/legalcode.pl
dc.share.type
otwarte czasopismo
dc.subtypepl
Article
dc.titlepl
Cross-oncopanel study reveals high sensitivity and accuracy with overall analytical performance depending on genomic regions
dc.title.journalpl
Genome Biology
dc.typepl
JournalArticle
dspace.entity.type
Publication
Affiliations

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