Browsing by Subject "LUNG-CANCER PATIENTS"

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  • Gong, BS; Li, D; Kusko, R; Novoradovskaya, N; Zhang, YF; Wang, SZ; Pabon-Pena, C; Zhang, ZH; Lai, K; Cai, WS; LoCoco, JS; Lader, E; Richmond, TA; Mittal, VK; Liu, LC; Johann, DJ; Willey, JC; Bushel, PR; Yu, Y; Xu, C; Chen, GC; Burgess, D; Cawley, S; Giorda, K; Haseley, N; Qiu, FJ; Wilkins, K; Arib, H; Attwooll, C; Babson, K; Bao, LL; Bao, WJ; Lucas, AB; Best, H; Bhandari, A; Bisgin, H; Blackburn, J; Blomquist, TM; Boardman, L; Burgher, B; Butler, DJ; Chang, CJ; Chaubey, A; Chen, T; Chierici, M; Chin, CR; Close, D; Conroy, J; Coleman, JC; Craig, DJ; Crawford, E; del Pozo, A; Deveson, IW; Duncan, D; Eterovic, AK; Fan, XH; Foox, J; Furlanello, C; Ghosal, A; Glenn, S; Guan, MJ; Haag, C; Hang, XY; Happe, S; Hennigan, B; Hipp, J; Hong, HX; Horvath, K; Hu, JH; Hung, LY; Jarosz, M; Kerkhof, J; Kipp, B; Kreil, DP; Lapunzina, P; Li, P; Li, QZ; Li, WH; Li, ZG; Liang, Y; Liu, SQ; Liu, ZC; Ma, C; Marella, N; Martin-Arenas, R; Megherbi, DB; Meng, QC; Mieczkowski, PA; Morrison, T; Muzny, D; Ning, BT; Parsons, BL; Paweletz, CP; Pirooznia, M; Qu, WB; Raymond, A; Rindler, P; Ringler, R; Sadikovic, B; Scherer, A; Schulze, E; Sebra, R; Shaknovich, R; Shi, Q; Shi, TL; Silla-Castro, JC; Smith, M; Lopez, MS; Song, P; Stetson, D; Strahl, M; Stuart, A; Supplee, J; Szankasi, P; Tan, HW; Tang, LY; Tao, YH; Thakkar, S; Thierry-Mieg, D; Thierry-Mieg, J; Thodima, VJ; Thomas, D; Tichy, B; Tom, N; Garcia, EV; Verma, S; Walker, K; Wang, C; Wang, JW; Wang, YX; Wen, ZN; Wirta, V; Wu, LH; Xiao, CL; Xiao, WZ; Xu, SB; Yang, M; Ying, JM; Yip, SH; Zhang, GL; Zhang, S; Zhao, MR; Zheng, YT; Zhou, XY; Mason, CE; Mercer, T; Tong, WD; Shi, LM; Jones, W; Xu, JS (2021)
    BackgroundTargeted 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.ResultsAll panels demonstrate high sensitivity across targeted high-confidence coding regions and variant types for the variants previously verified to have variant allele frequency (VAF) in the 5-20% range. Sensitivity is reduced by utilizing VAF thresholds due to inherent variability in VAF measurements. Enforcing a VAF threshold for reporting has a positive impact on reducing false positive calls. Importantly, the false positive rate is found to be significantly higher outside the high-confidence coding regions, resulting in lower reproducibility. Thus, region restriction and VAF thresholds lead to low relative technical variability in estimating promising biomarkers and tumor mutational burden.ConclusionThis comprehensive study provides actionable guidelines for oncopanel sequencing and clear evidence that supports a simplified approach to assess the analytical performance of oncopanels. It will facilitate the rapid implementation, validation, and quality control of oncopanels in clinical use.
  • Rajala, K.; Lehto, J. T.; Sutinen, E.; Kautiainen, H.; Myllärniemi, M.; Saarto, T. (2018)
    BackgroundIdiopathic pulmonary fibrosis (IPF) is a chronic disease with a high symptom burden and poor survival that influences patients' health-related quality of life (HRQOL). We aimed to evaluate IPF patients' symptoms and HRQOL in a well-documented clinical cohort during their last two years of life.MethodsIn April 2015, we sent the Modified Medical Research Council Dyspnea Scale (MMRC), the modified Edmonton Symptom Assessment Scale (ESAS) and a self-rating HRQOL questionnaire (RAND-36) to 300 IPF patients, of which 247 (82%) responded. Thereafter, follow-up questionnaires were sent every six months for two years.ResultsNinety-two patients died by August 2017. Among these patients, HRQOL was found to be considerably low already two years before death. The most prominent declines in HRQOL occurred in physical function, vitality, emotional role and social functioning (p