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Sources of variation in baseline gene expression levels from toxicogenomics study control animals across multiple laboratories.
Boedigheimer MJ, Wolfinger RD, Bass MB, Bushel PR, Chou JW, Cooper M, Corton JC, Fostel J, Hester S, Lee JS, Liu F, Liu J, Qian HR, Quackenbush J, Pettit S, Thompson KL. Boedigheimer MJ, et al. Among authors: thompson kl. BMC Genomics. 2008 Jun 12;9:285. doi: 10.1186/1471-2164-9-285. BMC Genomics. 2008. PMID: 18549499 Free PMC article.
Use of a mixed tissue RNA design for performance assessments on multiple microarray formats.
Thompson KL, Rosenzweig BA, Pine PS, Retief J, Turpaz Y, Afshari CA, Hamadeh HK, Damore MA, Boedigheimer M, Blomme E, Ciurlionis R, Waring JF, Fuscoe JC, Paules R, Tucker CJ, Fare T, Coffey EM, He Y, Collins PJ, Jarnagin K, Fujimoto S, Ganter B, Kiser G, Kaysser-Kranich T, Sina J, Sistare FD. Thompson KL, et al. Nucleic Acids Res. 2005 Dec 23;33(22):e187. doi: 10.1093/nar/gni186. Nucleic Acids Res. 2005. PMID: 16377776 Free PMC article.
Two approaches for estimating the lower limit of quantitation (LLOQ) of microRNA levels assayed as exploratory biomarkers by RT-qPCR.
Wolfinger RD, Beedanagari S, Boitier E, Chen T, Couttet P, Ellinger-Ziegelbauer H, Guillemain G, Mariet C, Mouritzen P, O'Lone R, Pine PS, Sharapova T, Yan J, Yuen PS, Thompson KL. Wolfinger RD, et al. Among authors: thompson kl. BMC Biotechnol. 2018 Feb 2;18(1):6. doi: 10.1186/s12896-018-0415-4. BMC Biotechnol. 2018. PMID: 29391006 Free PMC article.
The MicroArray Quality Control (MAQC) project shows inter- and intraplatform reproducibility of gene expression measurements.
MAQC Consortium; Shi L, Reid LH, Jones WD, Shippy R, Warrington JA, Baker SC, Collins PJ, de Longueville F, Kawasaki ES, Lee KY, Luo Y, Sun YA, Willey JC, Setterquist RA, Fischer GM, Tong W, Dragan YP, Dix DJ, Frueh FW, Goodsaid FM, Herman D, Jensen RV, Johnson CD, Lobenhofer EK, Puri RK, Schrf U, Thierry-Mieg J, Wang C, Wilson M, Wolber PK, Zhang L, Amur S, Bao W, Barbacioru CC, Lucas AB, Bertholet V, Boysen C, Bromley B, Brown D, Brunner A, Canales R, Cao XM, Cebula TA, Chen JJ, Cheng J, Chu TM, Chudin E, Corson J, Corton JC, Croner LJ, Davies C, Davison TS, Delenstarr G, Deng X, Dorris D, Eklund AC, Fan XH, Fang H, Fulmer-Smentek S, Fuscoe JC, Gallagher K, Ge W, Guo L, Guo X, Hager J, Haje PK, Han J, Han T, Harbottle HC, Harris SC, Hatchwell E, Hauser CA, Hester S, Hong H, Hurban P, Jackson SA, Ji H, Knight CR, Kuo WP, LeClerc JE, Levy S, Li QZ, Liu C, Liu Y, Lombardi MJ, Ma Y, Magnuson SR, Maqsodi B, McDaniel T, Mei N, Myklebost O, Ning B, Novoradovskaya N, Orr MS, Osborn TW, Papallo A, Patterson TA, Perkins RG, Peters EH, Peterson R, Philips KL, Pine PS, Pusztai L, Qian F, Ren H, Rosen M, Rosenzweig BA, Samaha RR, Schena M, Schroth GP, Shchegrova S, Smith DD, Staedtler F, Su … See abstract for full author list ➔ MAQC Consortium, et al. Among authors: thompson kl. Nat Biotechnol. 2006 Sep;24(9):1151-61. doi: 10.1038/nbt1239. Nat Biotechnol. 2006. PMID: 16964229 Free PMC article.
Summarizing performance for genome scale measurement of miRNA: reference samples and metrics.
Pine PS, Lund SP, Parsons JR, Vang LK, Mahabal AA, Cinquini L, Kelly SC, Kincaid H, Crichton DJ, Spira A, Liu G, Gower AC, Pass HI, Goparaju C, Dubinett SM, Krysan K, Stass SA, Kukuruga D, Van Keuren-Jensen K, Courtright-Lim A, Thompson KL, Rosenzweig BA, Sorbara L, Srivastava S, Salit ML. Pine PS, et al. Among authors: thompson kl. BMC Genomics. 2018 Mar 6;19(1):180. doi: 10.1186/s12864-018-4496-1. BMC Genomics. 2018. PMID: 29510677 Free PMC article.
Overview on the application of transcription profiling using selected nephrotoxicants for toxicology assessment.
Kramer JA, Pettit SD, Amin RP, Bertram TA, Car B, Cunningham M, Curtiss SW, Davis JW, Kind C, Lawton M, Naciff JM, Oreffo V, Roman RJ, Sistare FD, Stevens J, Thompson K, Vickers AE, Wild S, Afshari CA. Kramer JA, et al. Environ Health Perspect. 2004 Mar;112(4):460-4. doi: 10.1289/ehp.6673. Environ Health Perspect. 2004. PMID: 15033596 Free PMC article. Review.
184 results