Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation

Search Page

Filters

My NCBI Filters

Text availability

Article attribute

Article type

Publication date

Search Results

175 results

Filters applied: . Clear all
Results are displayed in a computed author sort order. The Results By Year timeline is not available.
Page 1
Genomic Profiling of Childhood Tumor Patient-Derived Xenograft Models to Enable Rational Clinical Trial Design.
Rokita JL, Rathi KS, Cardenas MF, Upton KA, Jayaseelan J, Cross KL, Pfeil J, Egolf LE, Way GP, Farrel A, Kendsersky NM, Patel K, Gaonkar KS, Modi A, Berko ER, Lopez G, Vaksman Z, Mayoh C, Nance J, McCoy K, Haber M, Evans K, McCalmont H, Bendak K, Böhm JW, Marshall GM, Tyrrell V, Kalletla K, Braun FK, Qi L, Du Y, Zhang H, Lindsay HB, Zhao S, Shu J, Baxter P, Morton C, Kurmashev D, Zheng S, Chen Y, Bowen J, Bryan AC, Leraas KM, Coppens SE, Doddapaneni H, Momin Z, Zhang W, Sacks GI, Hart LS, Krytska K, Mosse YP, Gatto GJ, Sanchez Y, Greene CS, Diskin SJ, Vaske OM, Haussler D, Gastier-Foster JM, Kolb EA, Gorlick R, Li XN, Reynolds CP, Kurmasheva RT, Houghton PJ, Smith MA, Lock RB, Raman P, Wheeler DA, Maris JM. Rokita JL, et al. Among authors: pfeil j. Cell Rep. 2019 Nov 5;29(6):1675-1689.e9. doi: 10.1016/j.celrep.2019.09.071. Cell Rep. 2019. PMID: 31693904 Free PMC article.
Barriers to accessing public cancer genomic data.
Learned K, Durbin A, Currie R, Kephart ET, Beale HC, Sanders LM, Pfeil J, Goldstein TC, Salama SR, Haussler D, Vaske OM, Bjork IM. Learned K, et al. Among authors: pfeil j. Sci Data. 2019 Jun 20;6(1):98. doi: 10.1038/s41597-019-0096-4. Sci Data. 2019. PMID: 31222016 Free PMC article.
Comparative RNA-seq analysis aids in diagnosis of a rare pediatric tumor.
Sanders LM, Rangaswami A, Bjork I, Lam DL, Beale HC, Kephart ET, Durbin A, Learned K, Currie R, Lyle AG, Pfeil J, Shah AT, Lee AG, Leung SG, Behroozfard IH, Breese MR, Peralez J, Hazard FK, Lacayo N, Spunt SL, Haussler D, Salama SR, Sweet-Cordero EA, Vaske OM. Sanders LM, et al. Among authors: pfeil j. Cold Spring Harb Mol Case Stud. 2019 Oct 23;5(5):a004317. doi: 10.1101/mcs.a004317. Print 2019 Oct. Cold Spring Harb Mol Case Stud. 2019. PMID: 31645344 Free PMC article.
Comparative Tumor RNA Sequencing Analysis for Difficult-to-Treat Pediatric and Young Adult Patients With Cancer.
Vaske OM, Bjork I, Salama SR, Beale H, Tayi Shah A, Sanders L, Pfeil J, Lam DL, Learned K, Durbin A, Kephart ET, Currie R, Newton Y, Swatloski T, McColl D, Vivian J, Zhu J, Lee AG, Leung SG, Spillinger A, Liu HY, Liang WS, Byron SA, Berens ME, Resnick AC, Lacayo N, Spunt SL, Rangaswami A, Huynh V, Torno L, Plant A, Kirov I, Zabokrtsky KB, Rassekh SR, Deyell RJ, Laskin J, Marra MA, Sender LS, Mueller S, Sweet-Cordero EA, Goldstein TC, Haussler D. Vaske OM, et al. Among authors: pfeil j. JAMA Netw Open. 2019 Oct 2;2(10):e1913968. doi: 10.1001/jamanetworkopen.2019.13968. JAMA Netw Open. 2019. PMID: 31651965 Free PMC article.
Hydra: A mixture modeling framework for subtyping pediatric cancer cohorts using multimodal gene expression signatures.
Pfeil J, Sanders LM, Anastopoulos I, Lyle AG, Weinstein AS, Xue Y, Blair A, Beale HC, Lee A, Leung SG, Dinh PT, Shah AT, Breese MR, Devine WP, Bjork I, Salama SR, Sweet-Cordero EA, Haussler D, Vaske OM. Pfeil J, et al. PLoS Comput Biol. 2020 Apr 10;16(4):e1007753. doi: 10.1371/journal.pcbi.1007753. eCollection 2020 Apr. PLoS Comput Biol. 2020. PMID: 32275708 Free PMC article.
ProTECT-Prediction of T-Cell Epitopes for Cancer Therapy.
Rao AA, Madejska AA, Pfeil J, Paten B, Salama SR, Haussler D. Rao AA, et al. Among authors: pfeil j. Front Immunol. 2020 Nov 10;11:483296. doi: 10.3389/fimmu.2020.483296. eCollection 2020. Front Immunol. 2020. PMID: 33244314 Free PMC article.
The case for using mapped exonic non-duplicate reads when reporting RNA-sequencing depth: examples from pediatric cancer datasets.
Beale HC, Roger JM, Cattle MA, McKay LT, Thompson DKA, Learned K, Lyle AG, Kephart ET, Currie R, Lam DL, Sanders L, Pfeil J, Vivian J, Bjork I, Salama SR, Haussler D, Vaske OM. Beale HC, et al. Among authors: pfeil j. Gigascience. 2021 Mar 13;10(3):giab011. doi: 10.1093/gigascience/giab011. Gigascience. 2021. PMID: 33712853 Free PMC article.
Machine learning multi-omics analysis reveals cancer driver dysregulation in pan-cancer cell lines compared to primary tumors.
Sanders LM, Chandra R, Zebarjadi N, Beale HC, Lyle AG, Rodriguez A, Kephart ET, Pfeil J, Cheney A, Learned K, Currie R, Gitlin L, Vengerov D, Haussler D, Salama SR, Vaske OM. Sanders LM, et al. Among authors: pfeil j. Commun Biol. 2022 Dec 13;5(1):1367. doi: 10.1038/s42003-022-04075-4. Commun Biol. 2022. PMID: 36513728 Free PMC article.
Toil enables reproducible, open source, big biomedical data analyses.
Vivian J, Rao AA, Nothaft FA, Ketchum C, Armstrong J, Novak A, Pfeil J, Narkizian J, Deran AD, Musselman-Brown A, Schmidt H, Amstutz P, Craft B, Goldman M, Rosenbloom K, Cline M, O'Connor B, Hanna M, Birger C, Kent WJ, Patterson DA, Joseph AD, Zhu J, Zaranek S, Getz G, Haussler D, Paten B. Vivian J, et al. Among authors: pfeil j. Nat Biotechnol. 2017 Apr 11;35(4):314-316. doi: 10.1038/nbt.3772. Nat Biotechnol. 2017. PMID: 28398314 Free PMC article. No abstract available.
175 results