- Chi, F, Griffiths, JI, Nath, A, Bild, AH. Paradoxical cancer cell proliferation after FGFR inhibition through decreased p21 signaling in FGFR1-amplified breast cancer cells. Breast Cancer Res. 2024;26 (1):54. doi: 10.1186/s13058-024-01808-7. PubMed PMID:38553760 PubMed Central PMC10979625.
- Farmaki, E, Nath, A, Emond, R, Karimi, KL, Grolmusz, VK, Cosgrove, PA et al.. ONC201/TIC10 enhances durability of mTOR inhibitor everolimus in metastatic ER+ breast cancer. Elife. 2023;12 :. doi: 10.7554/eLife.85898. PubMed PMID:37772709 PubMed Central PMC10541180.
- Liu, X, Griffiths, JI, Bishara, I, Liu, J, Bild, AH, Chang, JT et al.. Phylogenetic inference from single-cell RNA-seq data. Sci Rep. 2023;13 (1):12854. doi: 10.1038/s41598-023-39995-6. PubMed PMID:37553438 PubMed Central PMC10409753.
- Emond, R, Griffiths, JI, Grolmusz, VK, Nath, A, Chen, J, Medina, EF et al.. Cell facilitation promotes growth and survival under drug pressure in breast cancer. Nat Commun. 2023;14 (1):3851. doi: 10.1038/s41467-023-39242-6. PubMed PMID:37386030 PubMed Central PMC10310817.
- Burdett, NL, Willis, MO, Alsop, K, Hunt, AL, Pandey, A, Hamilton, PT et al.. Multiomic analysis of homologous recombination-deficient end-stage high-grade serous ovarian cancer. Nat Genet. 2023;55 (3):437-450. doi: 10.1038/s41588-023-01320-2. PubMed PMID:36849657 .
- Bishara, I, Chen, J, Griffiths, JI, Bild, AH, Nath, A. A machine learning framework for scRNA-seq UMI threshold optimization and accurate classification of cell types. Front Genet. 2022;13 :982019. doi: 10.3389/fgene.2022.982019. PubMed PMID:36506328 PubMed Central PMC9732024.
- Zhang, IY, Liu, S, Zhang, L, Liang, R, Fang, Q, Zhao, J et al.. RAGE ablation attenuates glioma progression and enhances tumor immune responses by suppressing galectin-3 expression. Neuro Oncol. 2023;25 (5):886-898. doi: 10.1093/neuonc/noac250. PubMed PMID:36394567 PubMed Central PMC10158202.
- Nath, A, Cosgrove, PA, Chang, JT, Bild, AH. Predicting clinical response to everolimus in ER+ breast cancers using machine-learning. Front Mol Biosci. 2022;9 :981962. doi: 10.3389/fmolb.2022.981962. PubMed PMID:36304922 PubMed Central PMC9592823.
- Nath, A, Cohen, AL, Bild, AH. ENDORSE: a prognostic model for endocrine therapy in estrogen-receptor-positive breast cancers. Mol Syst Biol. 2022;18 (6):e10558. doi: 10.15252/msb.202110558. PubMed PMID:35671075 PubMed Central PMC9172932.
- Liu, S, Song, Y, Zhang, IY, Zhang, L, Gao, H, Su, Y et al.. RAGE Inhibitors as Alternatives to Dexamethasone for Managing Cerebral Edema Following Brain Tumor Surgery. Neurotherapeutics. 2022;19 (2):635-648. doi: 10.1007/s13311-022-01207-w. PubMed PMID:35226341 PubMed Central PMC9226224.
- Mori, H, Saeki, K, Chang, G, Wang, J, Wu, X, Hsu, PY et al.. Influence of Estrogen Treatment on ESR1+ and ESR1- Cells in ER+ Breast Cancer: Insights from Single-Cell Analysis of Patient-Derived Xenograft Models. Cancers (Basel). 2021;13 (24):. doi: 10.3390/cancers13246375. PubMed PMID:34944995 PubMed Central PMC8699443.
- Pishas, KI, Cowley, KJ, Pandey, A, Hoang, T, Beach, JA, Luu, J et al.. Phenotypic Consequences of SLC25A40-ABCB1 Fusions beyond Drug Resistance in High-Grade Serous Ovarian Cancer. Cancers (Basel). 2021;13 (22):. doi: 10.3390/cancers13225644. PubMed PMID:34830797 PubMed Central PMC8616176.
- Griffiths, JI, Chen, J, Cosgrove, PA, O'Dea, A, Sharma, P, Ma, C et al.. Serial single-cell genomics reveals convergent subclonal evolution of resistance as early-stage breast cancer patients progress on endocrine plus CDK4/6 therapy. Nat Cancer. 2021;2 (6):658-671. doi: 10.1038/s43018-021-00215-7. PubMed PMID:34712959 PubMed Central PMC8547038.
- Huang, X, Qiao, Y, Brady, SW, Factor, RE, Downs-Kelly, E, Farrell, A et al.. Novel temporal and spatial patterns of metastatic colonization from breast cancer rapid-autopsy tumor biopsies. Genome Med. 2021;13 (1):170. doi: 10.1186/s13073-021-00989-6. PubMed PMID:34711268 PubMed Central PMC8555066.
- Piccolo, SR, Ence, ZE, Anderson, EC, Chang, JT, Bild, AH. Simplifying the development of portable, scalable, and reproducible workflows. Elife. 2021;10 :. doi: 10.7554/eLife.71069. PubMed PMID:34643507 PubMed Central PMC8514239.
- McQuerry, JA, Chen, J, Chang, JT, Bild, AH. Tepoxalin increases chemotherapy efficacy in drug-resistant breast cancer cells overexpressing the multidrug transporter gene ABCB1. Transl Oncol. 2021;14 (10):101181. doi: 10.1016/j.tranon.2021.101181. PubMed PMID:34298440 PubMed Central PMC8322466.
- Nath, A, Cosgrove, PA, Mirsafian, H, Christie, EL, Pflieger, L, Copeland, B et al.. Evolution of core archetypal phenotypes in progressive high grade serous ovarian cancer. Nat Commun. 2021;12 (1):3039. doi: 10.1038/s41467-021-23171-3. PubMed PMID:34031395 PubMed Central PMC8144406.
- Roosan, MR, Mambetsariev, I, Pharaon, R, Fricke, J, Husain, H, Reckamp, KL et al.. Usefulness of Circulating Tumor DNA in Identifying Somatic Mutations and Tracking Tumor Evolution in Patients With Non-small Cell Lung Cancer. Chest. 2021;160 (3):1095-1107. doi: 10.1016/j.chest.2021.04.016. PubMed PMID:33878340 PubMed Central PMC8449001.
- Liu, X, Gosline, SJC, Pflieger, LT, Wallet, P, Iyer, A, Guinney, J et al.. Knowledge-based classification of fine-grained immune cell types in single-cell RNA-Seq data. Brief Bioinform. 2021;22 (5):. doi: 10.1093/bib/bbab039. PubMed PMID:33681983 PubMed Central PMC8536868.
- Nath, A, Bild, AH. Leveraging Single-Cell Approaches in Cancer Precision Medicine. Trends Cancer. 2021;7 (4):359-372. doi: 10.1016/j.trecan.2021.01.007. PubMed PMID:33563578 PubMed Central PMC7969443.
- El-Chaar, NN, Smith, TE, Shrestha, G, Piccolo, SR, Harper, MK, Van Wagoner, RM et al.. Topsentinol L Trisulfate, a Marine Natural Product That Targets Basal-like and Claudin-Low Breast Cancers. Mar Drugs. 2021;19 (1):. doi: 10.3390/md19010041. PubMed PMID:33477536 PubMed Central PMC7831112.
- Reckamp, KL, McQuerry, JA, Mambetsariev, I, Pharaon, R, Yost, SE, Fricke, J et al.. Co-stimulatory and co-inhibitory immune markers in solid tumors with MET alterations. Future Sci OA. 2020;7 (2):FSO662. doi: 10.2144/fsoa-2020-0159. PubMed PMID:33437521 PubMed Central PMC7787173.
- Haynes, K, Yau, C, Bild, A, Laughney, A, Morsut, L, Yang, X et al.. How Has the COVID-19 Pandemic Changed How You Will Approach Research and Lab Work in the Future?. Cell Syst. 2020;11 (6):550-554. doi: 10.1016/j.cels.2020.11.011. PubMed PMID:33333028 PubMed Central PMC7833873.
- Chi, F, Liu, J, Brady, SW, Cosgrove, PA, Nath, A, McQuerry, JA et al.. A `one-two punch' therapy strategy to target chemoresistance in estrogen receptor positive breast cancer. Transl Oncol. 2021;14 (1):100946. doi: 10.1016/j.tranon.2020.100946. PubMed PMID:33221681 PubMed Central PMC7689336.
- Griffiths, JI, Wallet, P, Pflieger, LT, Stenehjem, D, Liu, X, Cosgrove, PA et al.. Circulating immune cell phenotype dynamics reflect the strength of tumor-immune cell interactions in patients during immunotherapy. Proc Natl Acad Sci U S A. 2020;117 (27):16072-16082. doi: 10.1073/pnas.1918937117. PubMed PMID:32571915 PubMed Central PMC7355015.
- Grolmusz, VK, Chen, J, Emond, R, Cosgrove, PA, Pflieger, L, Nath, A et al.. Exploiting collateral sensitivity controls growth of mixed culture of sensitive and resistant cells and decreases selection for resistant cells in a cell line model. Cancer Cell Int. 2020;20 :253. doi: 10.1186/s12935-020-01337-1. PubMed PMID:32565737 PubMed Central PMC7301982.
- Zhao, D, Mambetsariev, I, Li, H, Chen, C, Fricke, J, Fann, P et al.. Association of molecular characteristics with survival in advanced non-small cell lung cancer patients treated with checkpoint inhibitors. Lung Cancer. 2020;146 :174-181. doi: 10.1016/j.lungcan.2020.05.025. PubMed PMID:32554069 PubMed Central PMC8158847.
- Griffiths, JI, Cohen, AL, Jones, V, Salgia, R, Chang, JT, Bild, AH et al.. Opportunities for improving cancer treatment using systems biology. Curr Opin Syst Biol. 2019;17 :41-50. doi: 10.1016/j.coisb.2019.10.018. PubMed PMID:32518857 PubMed Central PMC7282416.
- Mambetsariev, I, Wang, Y, Chen, C, Nadaf, S, Pharaon, R, Fricke, J et al.. Precision medicine and actionable alterations in lung cancer: A single institution experience. PLoS One. 2020;15 (2):e0228188. doi: 10.1371/journal.pone.0228188. PubMed PMID:32045431 PubMed Central PMC7012442.
- Kalvala, A, Wallet, P, Yang, L, Wang, C, Li, H, Nam, A et al.. Phenotypic Switching of Naïve T Cells to Immune-Suppressive Treg-Like Cells by Mutant KRAS. J Clin Med. 2019;8 (10):. doi: 10.3390/jcm8101726. PubMed PMID:31635338 PubMed Central PMC6832522.
- McQuerry, JA, Jenkins, DF, Yost, SE, Zhang, Y, Schmolze, D, Johnson, WE et al.. Pathway activity profiling of growth factor receptor network and stemness pathways differentiates metaplastic breast cancer histological subtypes. BMC Cancer. 2019;19 (1):881. doi: 10.1186/s12885-019-6052-z. PubMed PMID:31488082 PubMed Central PMC6727561.
- Ward Rashidi, MR, Mehta, P, Bregenzer, M, Raghavan, S, Fleck, EM, Horst, EN et al.. Engineered 3D Model of Cancer Stem Cell Enrichment and Chemoresistance. Neoplasia. 2019;21 (8):822-836. doi: 10.1016/j.neo.2019.06.005. PubMed PMID:31299607 PubMed Central PMC6624324.
- Yoo, JH, Brady, SW, Acosta-Alvarez, L, Rogers, A, Peng, J, Sorensen, LK et al.. The Small GTPase ARF6 Activates PI3K in Melanoma to Induce a Prometastatic State. Cancer Res. 2019;79 (11):2892-2908. doi: 10.1158/0008-5472.CAN-18-3026. PubMed PMID:31048499 PubMed Central PMC7197377.
- Christie, EL, Pattnaik, S, Beach, J, Copeland, A, Rashoo, N, Fereday, S et al.. Multiple ABCB1 transcriptional fusions in drug resistant high-grade serous ovarian and breast cancer. Nat Commun. 2019;10 (1):1295. doi: 10.1038/s41467-019-09312-9. PubMed PMID:30894541 PubMed Central PMC6426934.
- Chefetz, I, Grimley, E, Yang, K, Hong, L, Vinogradova, EV, Suciu, R et al.. A Pan-ALDH1A Inhibitor Induces Necroptosis in Ovarian Cancer Stem-like Cells. Cell Rep. 2019;26 (11):3061-3075.e6. doi: 10.1016/j.celrep.2019.02.032. PubMed PMID:30865894 PubMed Central PMC7061440.
- Bild, A, Teo, JL, Kahn, M. Enhanced Kat3A/Catenin transcription: a common mechanism of therapeutic resistance. Cancer Drug Resist. 2019;2 (3):917-932. doi: 10.20517/cdr.2019.32. PubMed PMID:32426696 PubMed Central PMC7234864.
- Brady, SW, McQuerry, JA, Qiao, Y, Piccolo, SR, Shrestha, G, Jenkins, DF et al.. Publisher Correction: Combating subclonal evolution of resistant cancer phenotypes. Nat Commun. 2018;9 (1):572. doi: 10.1038/s41467-017-02383-6. PubMed PMID:29402882 PubMed Central PMC5799176.
- Brady, SW, McQuerry, JA, Qiao, Y, Piccolo, SR, Shrestha, G, Jenkins, DF et al.. Combating subclonal evolution of resistant cancer phenotypes. Nat Commun. 2017;8 (1):1231. doi: 10.1038/s41467-017-01174-3. PubMed PMID:29093439 PubMed Central PMC5666005.
- McQuerry, JA, Chang, JT, Bowtell, DDL, Cohen, A, Bild, AH. Mechanisms and clinical implications of tumor heterogeneity and convergence on recurrent phenotypes. J Mol Med (Berl). 2017;95 (11):1167-1178. doi: 10.1007/s00109-017-1587-4. PubMed PMID:28871446 PubMed Central PMC6296823.
- Rahman, M, MacNeil, SM, Jenkins, DF, Shrestha, G, Wyatt, SR, McQuerry, JA et al.. Activity of distinct growth factor receptor network components in breast tumors uncovers two biologically relevant subtypes. Genome Med. 2017;9 (1):40. doi: 10.1186/s13073-017-0429-x. PubMed PMID:28446242 PubMed Central PMC5406893.
- Cohen, AL, Neumayer, L, Boucher, K, Factor, RE, Shrestha, G, Wade, M et al.. Window-of-Opportunity Study of Valproic Acid in Breast Cancer Testing a Gene Expression Biomarker. JCO Precis Oncol. 2017;1 :. doi: 10.1200/PO.16.00011. PubMed PMID:32913974 PubMed Central PMC7446454.
- Lam, S, Mandrekar, SJ, Gesthalter, Y, Allen Ziegler, KL, Seisler, DK, Midthun, DE et al.. A Randomized Phase IIb Trial of myo-Inositol in Smokers with Bronchial Dysplasia. Cancer Prev Res (Phila). 2016;9 (12):906-914. doi: 10.1158/1940-6207.CAPR-15-0254. PubMed PMID:27658890 PubMed Central PMC5136333.
- Shrestha, G, MacNeil, SM, McQuerry, JA, Jenkins, DF, Sharma, S, Bild, AH et al.. The value of genomics in dissecting the RAS-network and in guiding therapeutics for RAS-driven cancers. Semin Cell Dev Biol. 2016;58 :108-17. doi: 10.1016/j.semcdb.2016.06.012. PubMed PMID:27338857 PubMed Central PMC5951171.
- Piccolo, SR, Hoffman, LM, Conner, T, Shrestha, G, Cohen, AL, Marks, JR et al.. Integrative analyses reveal signaling pathways underlying familial breast cancer susceptibility. Mol Syst Biol. 2016;12 (3):860. doi: 10.15252/msb.20156506. PubMed PMID:26969729 PubMed Central PMC4812528.
- Piccolo, SR, Andrulis, IL, Cohen, AL, Conner, T, Moos, PJ, Spira, AE et al.. Gene-expression patterns in peripheral blood classify familial breast cancer susceptibility. BMC Med Genomics. 2015;8 :72. doi: 10.1186/s12920-015-0145-6. PubMed PMID:26538066 PubMed Central PMC4634735.
- Rahman, M, Jackson, LK, Johnson, WE, Li, DY, Bild, AH, Piccolo, SR et al.. Alternative preprocessing of RNA-Sequencing data in The Cancer Genome Atlas leads to improved analysis results. Bioinformatics. 2015;31 (22):3666-72. doi: 10.1093/bioinformatics/btv377. PubMed PMID:26209429 PubMed Central PMC4804769.
- MacNeil, SM, Johnson, WE, Li, DY, Piccolo, SR, Bild, AH. Inferring pathway dysregulation in cancers from multiple types of omic data. Genome Med. 2015;7 (1):61. doi: 10.1186/s13073-015-0189-4. PubMed PMID:26170901 PubMed Central PMC4499940.
- Shen, Y, Rahman, M, Piccolo, SR, Gusenleitner, D, El-Chaar, NN, Cheng, L et al.. ASSIGN: context-specific genomic profiling of multiple heterogeneous biological pathways. Bioinformatics. 2015;31 (11):1745-53. doi: 10.1093/bioinformatics/btv031. PubMed PMID:25617415 PubMed Central PMC4443674.
- El-Chaar, NN, Piccolo, SR, Boucher, KM, Cohen, AL, Chang, JT, Moos, PJ et al.. Genomic classification of the RAS network identifies a personalized treatment strategy for lung cancer. Mol Oncol. 2014;8 (7):1339-54. doi: 10.1016/j.molonc.2014.05.005. PubMed PMID:24908424 PubMed Central PMC4450766.
- Zhang, H, Cohen, AL, Krishnakumar, S, Wapnir, IL, Veeriah, S, Deng, G et al.. Patient-derived xenografts of triple-negative breast cancer reproduce molecular features of patient tumors and respond to mTOR inhibition. Breast Cancer Res. 2014;16 (2):R36. doi: 10.1186/bcr3640. PubMed PMID:24708766 PubMed Central PMC4053092.
- Bild, AH, Chang, JT, Johnson, WE, Piccolo, SR. A field guide to genomics research. PLoS Biol. 2014;12 (1):e1001744. doi: 10.1371/journal.pbio.1001744. PubMed PMID:24409093 PubMed Central PMC3883637.
- Piccolo, SR, Withers, MR, Francis, OE, Bild, AH, Johnson, WE. Multiplatform single-sample estimates of transcriptional activation. Proc Natl Acad Sci U S A. 2013;110 (44):17778-83. doi: 10.1073/pnas.1305823110. PubMed PMID:24128763 PubMed Central PMC3816418.
- Cohen, AL, Piccolo, SR, Cheng, L, Soldi, R, Han, B, Johnson, WE et al.. Genomic pathway analysis reveals that EZH2 and HDAC4 represent mutually exclusive epigenetic pathways across human cancers. BMC Med Genomics. 2013;6 :35. doi: 10.1186/1755-8794-6-35. PubMed PMID:24079712 PubMed Central PMC3850967.
- Steiling, K, van den Berge, M, Hijazi, K, Florido, R, Campbell, J, Liu, G et al.. A dynamic bronchial airway gene expression signature of chronic obstructive pulmonary disease and lung function impairment. Am J Respir Crit Care Med. 2013;187 (9):933-42. doi: 10.1164/rccm.201208-1449OC. PubMed PMID:23471465 PubMed Central PMC3707363.
- Beane, J, Cheng, L, Soldi, R, Zhang, X, Liu, G, Anderlind, C et al.. SIRT1 pathway dysregulation in the smoke-exposed airway epithelium and lung tumor tissue. Cancer Res. 2012;72 (22):5702-11. doi: 10.1158/0008-5472.CAN-12-1043. PubMed PMID:22986747 PubMed Central PMC4053174.
- Piccolo, SR, Sun, Y, Campbell, JD, Lenburg, ME, Bild, AH, Johnson, WE et al.. A single-sample microarray normalization method to facilitate personalized-medicine workflows. Genomics. 2012;100 (6):337-44. doi: 10.1016/j.ygeno.2012.08.003. PubMed PMID:22959562 PubMed Central PMC3508193.
- Poerschke, RL, Franklin, MR, Bild, AH, Moos, PJ. Major differences among chemopreventive organoselenocompounds in the sustained elevation of cytoprotective genes. J Biochem Mol Toxicol. 2012;26 (9):344-53. doi: 10.1002/jbt.21427. PubMed PMID:22807314 PubMed Central PMC4551423.
- Cohen, AL, Soldi, R, Zhang, H, Gustafson, AM, Wilcox, R, Welm, BE et al.. A pharmacogenomic method for individualized prediction of drug sensitivity. Mol Syst Biol. 2011;7 :513. doi: 10.1038/msb.2011.47. PubMed PMID:21772261 PubMed Central PMC3159972.
- Potti, A, Mukherjee, S, Petersen, R, Dressman, HK, Bild, A, Koontz, J et al.. Retraction: A genomic strategy to refine prognosis in early-stage non-small-cell lung cancer. N Engl J Med 2006;355:570-80. N Engl J Med. 2011;364 (12):1176. doi: 10.1056/NEJMc1101915. PubMed PMID:21366430 .
- Potti, A, Dressman, HK, Bild, A, Riedel, RF, Chan, G, Sayer, R et al.. Retraction: Genomic signatures to guide the use of chemotherapeutics. Nat Med. 2011;17 (1):135. doi: 10.1038/nm0111-135. PubMed PMID:21217686 .
- Gustafson, AM, Soldi, R, Anderlind, C, Scholand, MB, Qian, J, Zhang, X et al.. Airway PI3K pathway activation is an early and reversible event in lung cancer development. Sci Transl Med. 2010;2 (26):26ra25. doi: 10.1126/scitranslmed.3000251. PubMed PMID:20375364 PubMed Central PMC3694402.
- Tejpar, S, Bertagnolli, M, Bosman, F, Lenz, HJ, Garraway, L, Waldman, F et al.. Prognostic and predictive biomarkers in resected colon cancer: current status and future perspectives for integrating genomics into biomarker discovery. Oncologist. 2010;15 (4):390-404. doi: 10.1634/theoncologist.2009-0233. PubMed PMID:20350999 PubMed Central PMC3227961.
- Bild, AH, Parker, JS, Gustafson, AM, Acharya, CR, Hoadley, KA, Anders, C et al.. An integration of complementary strategies for gene-expression analysis to reveal novel therapeutic opportunities for breast cancer. Breast Cancer Res. 2009;11 (4):R55. doi: 10.1186/bcr2344. PubMed PMID:19638211 PubMed Central PMC2750116.
- Chang, JT, Carvalho, C, Mori, S, Bild, AH, Gatza, ML, Wang, Q et al.. A genomic strategy to elucidate modules of oncogenic pathway signaling networks. Mol Cell. 2009;34 (1):104-14. doi: 10.1016/j.molcel.2009.02.030. PubMed PMID:19362539 PubMed Central PMC2694616.
- Mori, S, Rempel, RE, Chang, JT, Yao, G, Lagoo, AS, Potti, A et al.. Utilization of pathway signatures to reveal distinct types of B lymphoma in the Emicro-myc model and human diffuse large B-cell lymphoma. Cancer Res. 2008;68 (20):8525-34. doi: 10.1158/0008-5472.CAN-08-1329. PubMed PMID:18922927 PubMed Central PMC3617051.
- Dressman, HK, Berchuck, A, Chan, G, Zhai, J, Bild, A, Sayer, R et al.. An integrated genomic-based approach to individualized treatment of patients with advanced-stage ovarian cancer. J Clin Oncol. 2007;25 (5):517-25. doi: 10.1200/JCO.2006.06.3743. PubMed PMID:17290060 .
- Dressman, HK, Bild, A, Garst, J, Harpole, D Jr, Potti, A. Genomic signatures in non-small-cell lung cancer: targeting the targeted therapies. Curr Oncol Rep. 2006;8 (4):252-7. doi: 10.1007/s11912-006-0029-1. PubMed PMID:17254524 .
- Potti, A, Dressman, HK, Bild, A, Riedel, RF, Chan, G, Sayer, R et al.. Genomic signatures to guide the use of chemotherapeutics. Nat Med. 2006;12 (11):1294-300. doi: 10.1038/nm1491. PubMed PMID:17057710 .
- Bild, AH, Potti, A, Nevins, JR. Linking oncogenic pathways with therapeutic opportunities. Nat Rev Cancer. 2006;6 (9):735-41. doi: 10.1038/nrc1976. PubMed PMID:16915294 .
- Potti, A, Mukherjee, S, Petersen, R, Dressman, HK, Bild, A, Koontz, J et al.. A genomic strategy to refine prognosis in early-stage non-small-cell lung cancer. N Engl J Med. 2006;355 (6):570-80. doi: 10.1056/NEJMoa060467. PubMed PMID:16899777 .
- Edelman, E, Porrello, A, Guinney, J, Balakumaran, B, Bild, A, Febbo, PG et al.. Analysis of sample set enrichment scores: assaying the enrichment of sets of genes for individual samples in genome-wide expression profiles. Bioinformatics. 2006;22 (14):e108-16. doi: 10.1093/bioinformatics/btl231. PubMed PMID:16873460 .
- Dressman, HK, Hans, C, Bild, A, Olson, JA, Rosen, E, Marcom, PK et al.. Gene expression profiles of multiple breast cancer phenotypes and response to neoadjuvant chemotherapy. Clin Cancer Res. 2006;12 (3 Pt 1):819-26. doi: 10.1158/1078-0432.CCR-05-1447. PubMed PMID:16467094 .
- Bild, AH, Yao, G, Chang, JT, Wang, Q, Potti, A, Chasse, D et al.. Oncogenic pathway signatures in human cancers as a guide to targeted therapies. Nature. 2006;439 (7074):353-7. doi: 10.1038/nature04296. PubMed PMID:16273092 .
- Potti, A, Bild, A, Dressman, HK, Lewis, DA, Nevins, JR, Ortel, TL et al.. Gene-expression patterns predict phenotypes of immune-mediated thrombosis. Blood. 2006;107 (4):1391-6. doi: 10.1182/blood-2005-07-2669. PubMed PMID:16263789 PubMed Central PMC1895419.
- Bild, A, Febbo, PG. Application of a priori established gene sets to discover biologically important differential expression in microarray data. Proc Natl Acad Sci U S A. 2005;102 (43):15278-9. doi: 10.1073/pnas.0507477102. PubMed PMID:16230612 PubMed Central PMC1266131.
- Delong, M, Yao, G, Wang, Q, Dobra, A, Black, EP, Chang, JT et al.. DIG--a system for gene annotation and functional discovery. Bioinformatics. 2005;21 (13):2957-9. doi: 10.1093/bioinformatics/bti467. PubMed PMID:15870167 .
- Pittman, J, Huang, E, Dressman, H, Horng, CF, Cheng, SH, Tsou, MH et al.. Integrated modeling of clinical and gene expression information for personalized prediction of disease outcomes. Proc Natl Acad Sci U S A. 2004;101 (22):8431-6. doi: 10.1073/pnas.0401736101. PubMed PMID:15152076 PubMed Central PMC420411.
- Huang, E, Ishida, S, Pittman, J, Dressman, H, Bild, A, Kloos, M et al.. Gene expression phenotypic models that predict the activity of oncogenic pathways. Nat Genet. 2003;34 (2):226-30. doi: 10.1038/ng1167. PubMed PMID:12754511 .
- Huang, E, Cheng, SH, Dressman, H, Pittman, J, Tsou, MH, Horng, CF et al.. Gene expression predictors of breast cancer outcomes. Lancet. 2003;361 (9369):1590-6. doi: 10.1016/S0140-6736(03)13308-9. PubMed PMID:12747878 .
- Bild, AH, Mendoza, FJ, Gibson, EM, Huang, M, Villanueva, J, Garrington, TP et al.. MEKK1-induced apoptosis requires TRAIL death receptor activation and is inhibited by AKT/PKB through inhibition of MEKK1 cleavage. Oncogene. 2002;21 (43):6649-56. doi: 10.1038/sj.onc.1205819. PubMed PMID:12242663 .
- Bild, AH, Turkson, J, Jove, R. Cytoplasmic transport of Stat3 by receptor-mediated endocytosis. EMBO J. 2002;21 (13):3255-63. doi: 10.1093/emboj/cdf351. PubMed PMID:12093727 PubMed Central PMC126099.
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