| Year |
Citation |
Score |
| 2020 |
Lopatina T, Favaro E, Danilova L, Fertig EJ, Favorov AV, Kagohara LT, Martone T, Bussolati B, Romagnoli R, Albera R, Pecorari G, Brizzi MF, Camussi G, Gaykalova DA. Extracellular Vesicles Released by Tumor Endothelial Cells Spread Immunosuppressive and Transforming Signals Through Various Recipient Cells. Frontiers in Cell and Developmental Biology. 8: 698. PMID 33015029 DOI: 10.3389/Fcell.2020.00698 |
0.376 |
|
| 2020 |
Sakai A, Ando M, Fukusumi T, Ren S, Liu C, Qualliotine J, Haft S, Sadat S, Saito Y, Guo TW, Xu G, Sasik R, Fisch KM, Gutkind JS, Fertig EJ, et al. Aberrant expression of CPSF1 promotes head and neck squamous cell carcinoma via regulating alternative splicing. Plos One. 15: e0233380. PMID 32437477 DOI: 10.1371/Journal.Pone.0233380 |
0.412 |
|
| 2020 |
Erbe R, Kessler MD, Favorov AV, Easwaran H, Gaykalova DA, Fertig EJ. Matrix factorization and transfer learning uncover regulatory biology across multiple single-cell ATAC-seq data sets. Nucleic Acids Research. PMID 32392348 DOI: 10.1093/Nar/Gkaa349 |
0.312 |
|
| 2020 |
Lu Y, Shiau F, Yi W, Lu S, Wu Q, Pearson JD, Kallman A, Zhong S, Hoang T, Zuo Z, Zhao F, Zhang M, Tsai N, Zhuo Y, He S, ... ... Fertig EJ, et al. Single-Cell Analysis of Human Retina Identifies Evolutionarily Conserved and Species-Specific Mechanisms Controlling Development. Developmental Cell. PMID 32386599 DOI: 10.1016/J.Devcel.2020.04.009 |
0.311 |
|
| 2020 |
Kagohara LT, Zamuner F, Davis-Marcisak EF, Sharma G, Considine M, Allen J, Yegnasubramanian S, Gaykalova DA, Fertig EJ. Integrated single-cell and bulk gene expression and ATAC-seq reveals heterogeneity and early changes in pathways associated with resistance to cetuximab in HNSCC-sensitive cell lines. British Journal of Cancer. PMID 32362655 DOI: 10.1038/S41416-020-0851-5 |
0.318 |
|
| 2020 |
Malone MK, Smrekar K, Park S, Blakely B, Walter A, Nasta N, Park J, Considine M, Danilova LV, Pandey NB, Fertig EJ, Popel AS, Jin K. Cytokines secreted by stromal cells in TNBC microenvironment as potential targets for cancer therapy. Cancer Biology & Therapy. 1-10. PMID 32213106 DOI: 10.1080/15384047.2020.1739484 |
0.341 |
|
| 2020 |
Guo T, Zambo KDA, Zamuner FT, Ou T, Hopkins C, Kelley DZ, Wulf HA, Danilova L, Considine M, Sidransky D, Favorov A, Florea L, Fertig E, Gaykalova DA, Winkler E, et al. Chromatin structure regulates Cancer Specific Alternative Splicing Events in Primary HPV related Oropharyngeal squamous cell carcinoma. Epigenetics. PMID 32164487 DOI: 10.1080/15592294.2020.1741757 |
0.361 |
|
| 2020 |
Roussos Torres ET, Sidiropoulos DN, Davis-Marcisak E, Kagohara LT, Connolly RM, Stearns V, Jaffee EM, Fertig EJ. Characterization of the immune tumor microenvironment of HER2-positive breast cancer following treatment with entinostat and immune checkpoint inhibition. Journal of Clinical Oncology. 38: e15061-e15061. DOI: 10.1200/Jco.2020.38.15_Suppl.E15061 |
0.391 |
|
| 2020 |
Guo T, Zambo KDA, Zamuner FT, Ou T, Hopkins C, Kelley DZ, Wulf HA, Danilova LV, Considine M, Sidransky D, Favorov AV, Florea L, Fertig EJ, Gaykalova DA. Abstract A25: Chromatin structure regulates cancer-specific alternative splicing events in primary HPV-related oropharyngeal squamous cell carcinoma Clinical Cancer Research. 26. DOI: 10.1158/1557-3265.Aacrahns19-A25 |
0.368 |
|
| 2019 |
Flam EL, Danilova L, Kelley DZ, Stavrovskaya E, Guo T, Considine M, Qian J, Califano JA, Favorov A, Fertig EJ, Gaykalova DA. Differentially Methylated Super-Enhancers Regulate Target Gene Expression in Human Cancer. Scientific Reports. 9: 15034. PMID 31636280 DOI: 10.1038/S41598-019-51018-X |
0.42 |
|
| 2019 |
Davis-Marcisak EF, Sherman TD, Orugunta P, Stein-O'Brien GL, Puram SV, Roussos Torres ET, Hopkins AC, Jaffee EM, Favorov AV, Afsari B, Goff LA, Fertig EJ. Differential variation analysis enables detection of tumor heterogeneity using single-cell RNA-sequencing data. Cancer Research. PMID 31337651 DOI: 10.1158/0008-5472.Can-18-3882 |
0.391 |
|
| 2019 |
Clark BS, Stein-O'Brien GL, Shiau F, Cannon GH, Davis-Marcisak E, Sherman T, Santiago CP, Hoang TV, Rajaii F, James-Esposito RE, Gronostajski RM, Fertig EJ, Goff LA, Blackshaw S. Single-Cell RNA-Seq Analysis of Retinal Development Identifies NFI Factors as Regulating Mitotic Exit and Late-Born Cell Specification. Neuron. PMID 31128945 DOI: 10.1016/J.Neuron.2019.04.010 |
0.328 |
|
| 2019 |
Hughes RM, Simons BW, Khan H, Miller R, Kugler V, Torquato S, Theodros D, Haffner MC, Lotan TL, Huang J, Davicioni E, An SS, Riddle RC, Thorek DL, Garraway IP, ... Fertig EJ, et al. Asporin Restricts Mesenchymal Stromal Cell Differentiation, Alters the Tumor Microenvironment, and Drives Metastatic Progression. Cancer Research. PMID 31123087 DOI: 10.1158/0008-5472.Can-18-2931 |
0.359 |
|
| 2019 |
Stein-O'Brien GL, Clark BS, Sherman T, Zibetti C, Hu Q, Sealfon R, Liu S, Qian J, Colantuoni C, Blackshaw S, Goff LA, Fertig EJ. Decomposing Cell Identity for Transfer Learning across Cellular Measurements, Platforms, Tissues, and Species. Cell Systems. 8: 395-411.e8. PMID 31121116 DOI: 10.1016/J.Cels.2019.04.004 |
0.305 |
|
| 2019 |
Ando M, Saito Y, Xu G, Bui NQ, Medetgul-Ernar K, Pu M, Fisch K, Ren S, Sakai A, Fukusumi T, Liu C, Haft S, Pang J, Mark A, Gaykalova DA, ... ... Fertig EJ, et al. Chromatin dysregulation and DNA methylation at transcription start sites associated with transcriptional repression in cancers. Nature Communications. 10: 2188. PMID 31097695 DOI: 10.1038/S41467-019-09937-W |
0.338 |
|
| 2019 |
Danilova L, Ho WJ, Zhu Q, Vithayathil TT, De Jesus-Acosta A, Azad NS, Laheru DA, Fertig EJ, Anders R, Jaffee EM, Yarchoan M. Programmed cell death ligand-1 (PD-L1) and CD8 expression profiling identify an immunologic subtype of pancreatic ductal adenocarcinomas with favorable survival. Cancer Immunology Research. PMID 31043417 DOI: 10.1158/2326-6066.Cir-18-0822 |
0.308 |
|
| 2019 |
Sherman TD, Kagohara LT, Cao R, Cheng R, Satriano M, Considine M, Krigsfeld G, Ranaweera R, Tang Y, Jablonski SA, Stein-O'Brien G, Gaykalova DA, Weiner LM, Chung CH, Fertig EJ. CancerInSilico: An R/Bioconductor package for combining mathematical and statistical modeling to simulate time course bulk and single cell gene expression data in cancer. Plos Computational Biology. 14: e1006935. PMID 31002670 DOI: 10.1371/Journal.Pcbi.1006935 |
0.341 |
|
| 2019 |
Tao Y, Kang B, Petkovich DA, Bhandari YR, In J, Stein-O'Brien G, Kong X, Xie W, Zachos N, Maegawa S, Vaidya H, Brown S, Chiu Yen RW, Shao X, Thakor J, ... ... Fertig E, et al. Aging-like Spontaneous Epigenetic Silencing Facilitates Wnt Activation, Stemness, and Braf-Induced Tumorigenesis. Cancer Cell. 35: 315-328.e6. PMID 30753828 DOI: 10.1016/J.Ccell.2019.01.005 |
0.305 |
|
| 2019 |
Zamuner FT, Vorontsov I, Flam E, Mukhina V, Danilova L, Ou T, Stavrovskaya E, Guo T, Windsor E, Kelley DZ, Parfenov M, Considine M, Fertig EJ, Favorov A, Gaykalova DA. Abstract 5206: Role of super-enhancers in HPV+ head and neck squamous cell carcinoma Cancer Research. 79: 5206-5206. DOI: 10.1158/1538-7445.Sabcs18-5206 |
0.377 |
|
| 2019 |
Davis-Marcisak EF, Orugunta P, Stein-O'Brien G, Puram SV, Torres ER, Hopkins A, Jaffee EM, Favorov AV, Afsari B, Goff LA, Fertig EJ. Abstract 4697: Expression variation analysis for tumor heterogeneity in single-cell RNA-sequencing data Cancer Research. DOI: 10.1158/1538-7445.Sabcs18-4697 |
0.324 |
|
| 2019 |
Torres ETR, Rafie C, Davis E, Kagohara LT, Fertig EJ, Jaffee EM. Abstract 5027: Sequencing the tumor microenvironment and myeloid derived suppressor cells to understand response to immunotherapy in primary HER2 positive breast cancer Cancer Research. 79: 5027-5027. DOI: 10.1158/1538-7445.Am2019-5027 |
0.373 |
|
| 2018 |
Aldeghaither DS, Zahavi DJ, Murray JC, Fertig EJ, Graham GT, Zhang Y, O'Connell A, Ma J, Jablonski SA, Weiner LM. A Mechanism of Resistance to Antibody-Targeted Immune Attack. Cancer Immunology Research. PMID 30563830 DOI: 10.1158/2326-6066.Cir-18-0266 |
0.323 |
|
| 2018 |
Kelley DZ, Flam EL, Guo T, Danilova LV, Zamuner F, Bohrson C, Considine M, Windsor EJ, Bishop JA, Zhang C, Koch WM, Sidransky D, Westra WH, Chung CH, Califano JA, ... ... Fertig EJ, et al. Functional characterization of alternatively spliced GSN in head and neck squamous cell carcinoma. Translational Research : the Journal of Laboratory and Clinical Medicine. PMID 30118659 DOI: 10.1016/J.Trsl.2018.07.007 |
0.401 |
|
| 2018 |
Ren S, Gaykalova D, Wang J, Guo T, Danilova L, Favorov A, Fertig E, Bishop J, Khan Z, Flam E, Wysocki PT, DeJong P, Ando M, Liu C, Sakai A, et al. Discovery and development of differentially methylated regions in human papillomavirus related oropharyngeal squamous cell carcinoma. International Journal of Cancer. PMID 30070359 DOI: 10.1002/Ijc.31778 |
0.329 |
|
| 2018 |
Ye IC, Fertig EJ, DiGiacomo JW, Considine M, Godet I, Gilkes DM. Molecular Portrait of Hypoxia in Breast Cancer: A Prognostic Signature and Novel HIF-regulated Genes. Molecular Cancer Research : McR. PMID 30037853 DOI: 10.1158/1541-7786.Mcr-18-0345 |
0.369 |
|
| 2018 |
Stein-O'Brien G, Kagohara LT, Li S, Thakar M, Ranaweera R, Ozawa H, Cheng H, Considine M, Schmitz S, Favorov AV, Danilova LV, Califano JA, Izumchenko E, Gaykalova DA, Chung CH, ... Fertig EJ, et al. Integrated time course omics analysis distinguishes immediate therapeutic response from acquired resistance. Genome Medicine. 10: 37. PMID 29792227 DOI: 10.1186/S13073-018-0545-2 |
0.3 |
|
| 2018 |
Dinalankara W, Ke Q, Xu Y, Ji L, Pagane N, Lien A, Matam T, Fertig EJ, Price ND, Younes L, Marchionni L, Geman D. Digitizing omics profiles by divergence from a baseline. Proceedings of the National Academy of Sciences of the United States of America. PMID 29666255 DOI: 10.1073/Pnas.1721628115 |
0.333 |
|
| 2018 |
Afsari B, Guo T, Considine M, Florea L, Kagohara LT, Stein-O'Brien GL, Kelley D, Flam E, Zambo KD, Ha PK, Geman D, Ochs MF, Califano JA, Gaykalova DA, Favorov AV, ... Fertig EJ, et al. Splice Expression Variation Analysis (SEVA) for Inter-tumor Heterogeneity of Gene Isoform Usage in Cancer. Bioinformatics (Oxford, England). PMID 29342249 DOI: 10.1093/Bioinformatics/Bty004 |
0.379 |
|
| 2018 |
Ren S, Gaykalova DA, Guo TW, Favorov AV, Fertig EJ, Khan Z, DeJong PM, Ando M, Liu C, Sakai A, Fukusumi T, Haft S, Sadat S, Gutkind JS, Koch WM, et al. Abstract 3320: Discovery and development of DNA methylation biomarkers in human papillomavirus related oropharyngeal squamous cell carcinoma Cancer Research. 78: 3320-3320. DOI: 10.1158/1538-7445.Am2018-3320 |
0.347 |
|
| 2017 |
Finegersh A, Kulich S, Guo T, Favorov AV, Fertig EJ, Danilova LV, Gaykalova DA, Califano JA, Duvvuri U. DNA methylation regulates TMEM16A/ANO1 expression through multiple CpG islands in head and neck squamous cell carcinoma. Scientific Reports. 7: 15173. PMID 29123240 DOI: 10.1038/S41598-017-15634-9 |
0.363 |
|
| 2017 |
Kagohara LT, Stein-O'Brien GL, Kelley D, Flam E, Wick HC, Danilova LV, Easwaran H, Favorov AV, Qian J, Gaykalova DA, Fertig EJ. Epigenetic regulation of gene expression in cancer: techniques, resources and analysis. Briefings in Functional Genomics. PMID 28968850 DOI: 10.1093/Bfgp/Elx018 |
0.373 |
|
| 2017 |
Kelley DZ, Flam E, Izumchenko E, Danilova L, Wulf HA, Guo T, Singman DA, Afsari B, Skaist A, Considine M, Stavrovskaya E, Bishop JA, Westra WH, Khan Z, Koch WM, ... ... Fertig EJ, et al. Integrated analysis of whole-genome ChIP-Seq and RNA-Seq data of primary head and neck tumor samples associates HPV integration sites with open chromatin marks. Cancer Research. PMID 28947419 DOI: 10.1158/0008-5472.Can-17-0833 |
0.398 |
|
| 2017 |
Shuptrine CW, Ajina R, Fertig EJ, Jablonski SA, Kim Lyerly H, Hartman ZC, Weiner LM. An unbiased in vivo functional genomics screening approach in mice identifies novel tumor cell-based regulators of immune rejection. Cancer Immunology, Immunotherapy : Cii. PMID 28770278 DOI: 10.1007/S00262-017-2047-2 |
0.348 |
|
| 2017 |
Guo T, Sakai A, Afsari B, Considine M, Danilova L, Favorov AV, Yegnasubramanian S, Kelley DZ, Flam E, Ha PK, Khan Z, Wheelan SJ, Gutkind JS, Fertig EJ, Gaykalova DA, et al. A novel functional splice variant of AKT3 defined by analysis of alternative splice expression in HPV-positive oropharyngeal cancers. Cancer Research. PMID 28733453 DOI: 10.1158/0008-5472.Can-16-3106 |
0.403 |
|
| 2017 |
Ozawa H, Ranaweera R, Izumchenko E, Makarev E, Zhavoronkov A, Fertig EJ, Howard JD, Markovic A, Bedi A, Ravi R, Perez J, Le QT, Kong CS, Jordan RCK, Wang H, et al. SMAD4 loss is associated with cetuximab resistance and induction of MAPK/JNK activation in head and neck cancer cells. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. PMID 28522603 DOI: 10.1158/1078-0432.Ccr-16-1686 |
0.378 |
|
| 2017 |
Stein-O'Brien GL, Carey JL, Lee WS, Considine M, Favorov AV, Flam E, Guo T, Li S, Marchionni L, Sherman T, Sivy S, Gaykalova DA, McKay RD, Ochs MF, Colantuoni C, ... Fertig EJ, et al. PatternMarkers & GWCoGAPS for novel data-driven biomarkers via whole transcriptome NMF. Bioinformatics (Oxford, England). PMID 28174896 DOI: 10.1093/Bioinformatics/Btx058 |
0.317 |
|
| 2017 |
Gaykalova DA, Zizkova V, Guo T, Tiscareno I, Wei Y, Vatapalli R, Hennessey PT, Ahn J, Danilova L, Khan Z, Bishop JA, Gutkind JS, Koch WM, Westra WH, Fertig EJ, et al. Integrative computational analysis of transcriptional and epigenetic alterations implicates DTX1 as a putative tumor suppressor gene in HNSCC. Oncotarget. PMID 28146432 DOI: 10.18632/Oncotarget.14856 |
0.424 |
|
| 2017 |
Aldeghaither DS, Murray JC, Roth SM, Fertig EJ, Tang S, Jablonski SA, Weiner LM. Induction of tumor cell-based ADCC resistance to create new tumor cell survival and therapy resistance mechanisms. Journal of Clinical Oncology. 35: 130-130. DOI: 10.1200/Jco.2017.35.7_Suppl.130 |
0.362 |
|
| 2017 |
Leonard B, Humtsoe JO, Kim H, Ling S, Marchionni L, Fertig EJ, Considine M, Ha P. Abstract 64: Abnormal splicing events in adenoid cystic carcinoma Clinical Cancer Research. 23: 64-64. DOI: 10.1158/1557-3265.Aacrahns17-64 |
0.386 |
|
| 2017 |
Kagohara LT, Stein-O'Brien G, Li S, Thakar M, Ranaweera R, Considine M, Califano JA, Chung CH, Gaykalova D, Fertig EJ. Abstract 86: Time course analysis of gene expression and epigenetic interactions in acquired cetuximab resistance in head and neck squamous cell carcinoma Cancer Research. 77: 86-86. DOI: 10.1158/1538-7445.Am2017-86 |
0.342 |
|
| 2017 |
Aldeghaither DS, Murray JC, Roth SM, Fertig EJ, Tang S, Jablonski SA, Weiner LM. Abstract 633: Induction of ADCC resistance profoundly alters tumor cell phenotype and stress response Cancer Research. 77: 633-633. DOI: 10.1158/1538-7445.Am2017-633 |
0.362 |
|
| 2017 |
Afsari B, Guo T, Considine M, Kelley D, Flam E, Florea L, Ha P, Geman D, Ochs MF, Califano JA, Gaykalova DA, Favorov AV, Fertig EJ. Abstract 3577: Splice expression variation analysis (SEVA) for differential gene isoform usage in cancer Cancer Research. 77: 3577-3577. DOI: 10.1158/1538-7445.Am2017-3577 |
0.346 |
|
| 2017 |
Kelley DZ, Flam EL, Wulf HA, Guo T, Izumchenko E, Singman DA, Danilova LV, Stavrovskaya ED, Considine M, Bishop JA, Westra WH, Khan Z, Koch WM, Sidransky D, Wheelan S, ... ... Fertig EJ, et al. Abstract 2424: The in-parallel whole-genome ChIP-Seq analysis of primary tissues, patient derived xenografts, and cancer cell lines from HPV-relative HNSCC samples Cancer Research. 77: 2424-2424. DOI: 10.1158/1538-7445.Am2017-2424 |
0.335 |
|
| 2016 |
Fertig EJ, Ozawa H, Thakar M, Howard JD, Kagohara LT, Krigsfeld G, Ranaweera RS, Hughes RM, Perez J, Jones S, Favorov AV, Carey J, Stein-O'Brien G, Gaykalova DA, Ochs MF, et al. CoGAPS matrix factorization algorithm identifies transcriptional changes in AP-2alpha target genes in feedback from therapeutic inhibition of the EGFR network. Oncotarget. PMID 27650546 DOI: 10.18632/Oncotarget.12075 |
0.371 |
|
| 2016 |
Ling S, Rettig EM, Tan M, Chang X, Wang Z, Brait M, Bishop JA, Fertig EJ, Considine M, Wick MJ, Ha PK. Identification of methylated genes in salivary gland adenoid cystic carcinoma xenografts using global demethylation and methylation microarray screening. International Journal of Oncology. PMID 27212063 DOI: 10.3892/Ijo.2016.3532 |
0.362 |
|
| 2016 |
Guo T, Gaykalova DA, Considine M, Wheelan S, Pallavajjala A, Bishop JA, Westra WH, Ideker T, Koch WM, Khan Z, Fertig EJ, Califano JA. Characterization of functionally active gene fusions in human papillomavirus related oropharyngeal squamous cell carcinoma. International Journal of Cancer. PMID 26949921 DOI: 10.1002/Ijc.30081 |
0.381 |
|
| 2016 |
Stansfield JC, Rusay M, Shan R, Kelton C, Gaykalova DA, Fertig EJ, Califano JA, Ochs MF. Toward Signaling-Driven Biomarkers Immune to Normal Tissue Contamination. Cancer Informatics. 15: 15-21. PMID 26884679 DOI: 10.4137/Cin.S32468 |
0.392 |
|
| 2016 |
Rettig EM, Talbot C, Sausen M, Jones S, Bishop JA, Wood LD, Tokheim C, Niknafs N, Karchin R, Fertig E, Wheelan S, Marchionni L, Considine M, Fakhry C, Papadopoulos N, et al. Whole-Genome Sequencing of Salivary Gland Adenoid Cystic Carcinoma. Cancer Prevention Research (Philadelphia, Pa.). PMID 26862087 DOI: 10.1158/1940-6207.Capr-15-0316 |
0.38 |
|
| 2016 |
Shuptrine CW, Fertig EJ, Salcie-Gautreaux M, Weiner LM. Abstract A142: An in vivo functional genomics screen identifies molecular determinants of adaptive immune rejection Cancer Immunology Research. 4. DOI: 10.1158/2326-6074.Cricimteatiaacr15-A142 |
0.338 |
|
| 2016 |
Fertig EJ, Ozawa H, Thakar M, Howard J, Krigsfeld G, Favorov AV, Gaykalova DA, Ochs MF, Chung CH. Abstract 777: The CoGAPS matrix factorization algorithm infers feedback mechanisms from therapeutic inhibition of EGFR that increases expression of growth factor receptors Cancer Research. 76: 777-777. DOI: 10.1158/1538-7445.Am2016-777 |
0.344 |
|
| 2016 |
Gaykalova DA, Kelley D, Guo T, Bohrson C, Tiscareno I, Zizkova V, Considine M, Danilova L, Flam E, Bishop J, Ahn J, Merritt S, Goldsmith M, Zhang C, Koch W, ... ... Fertig E, et al. Abstract 2880: The discovery of novel GSN alternative splicing in head and neck squamous cell carcinoma Cancer Research. 76: 2880-2880. DOI: 10.1158/1538-7445.Am2016-2880 |
0.418 |
|
| 2015 |
Fertig EJ, Lee E, Pandey NB, Popel AS. Analysis of gene expression of secreted factors associated with breast cancer metastases in breast cancer subtypes. Scientific Reports. 5: 12133. PMID 26173622 DOI: 10.1038/Srep12133 |
0.318 |
|
| 2015 |
Cheng H, Fertig EJ, Ozawa H, Hatakeyama H, Howard JD, Perez J, Considine M, Thakar M, Ranaweera R, Krigsfeld G, Chung CH. Decreased SMAD4 expression is associated with induction of epithelial-to-mesenchymal transition and cetuximab resistance in head and neck squamous cell carcinoma. Cancer Biology & Therapy. 1-7. PMID 26046389 DOI: 10.1080/15384047.2015.1056418 |
0.39 |
|
| 2015 |
Gaykalova DA, Manola JB, Ozawa H, Zizkova V, Morton K, Bishop JA, Sharma R, Zhang C, Michailidi C, Considine M, Tan M, Fertig EJ, Hennessey PT, Ahn J, Koch WM, et al. NF-κB and stat3 transcription factor signatures differentiate HPV-positive and HPV-negative head and neck squamous cell carcinoma. International Journal of Cancer. Journal International Du Cancer. PMID 25857630 DOI: 10.1002/Ijc.29558 |
0.322 |
|
| 2015 |
Gajula RP, Chettiar ST, Williams RD, Nugent K, Kato Y, Wang H, Malek R, Taparra K, Cades J, Annadanam A, Yoon AR, Fertig E, Firulli BA, Mazzacurati L, Burns TF, et al. Structure-function studies of the bHLH phosphorylation domain of TWIST1 in prostate cancer cells. Neoplasia (New York, N.Y.). 17: 16-31. PMID 25622896 DOI: 10.1016/J.Neo.2014.10.009 |
0.32 |
|
| 2015 |
Michailidi C, Noordhuis M, Hadar T, Marchioni L, Fertig E, Agrawal N, Westra W, Koch W, Califano J, Velculescu V, Sidransky D, Guerrero-Preston R. Abstract B1-62: Bumphunting analysis identifies PAX5 promoter methylation and p53 somatic mutations in genomic instability pathways linked to very poor survival in head and neck cancer Cancer Research. 75. DOI: 10.1158/1538-7445.Compsysbio-B1-62 |
0.322 |
|
| 2015 |
Guo T, Gaykalova D, Considine M, Bishop JA, Westra WH, Khan Z, Fertig E, Califano JA. Abstract 4807: Discovery of novel alternative splicing events in human papillomavirus-related oropharyngeal squamous cell carcinoma Cancer Research. 75: 4807-4807. DOI: 10.1158/1538-7445.Am2015-4807 |
0.399 |
|
| 2014 |
Fortin JP, Labbe A, Lemire M, Zanke BW, Hudson TJ, Fertig EJ, Greenwood CM, Hansen KD. Functional normalization of 450k methylation array data improves replication in large cancer studies. Genome Biology. 15: 503. PMID 25599564 DOI: 10.1186/S13059-014-0503-2 |
0.313 |
|
| 2014 |
Afsari B, Geman D, Fertig EJ. Learning dysregulated pathways in cancers from differential variability analysis. Cancer Informatics. 13: 61-7. PMID 25392694 DOI: 10.4137/Cin.S14066 |
0.345 |
|
| 2014 |
Chung CH, Zhang Q, Kong CS, Harris J, Fertig EJ, Harari PM, Wang D, Redmond KP, Shenouda G, Trotti A, Raben D, Gillison ML, Jordan RC, Le QT. p16 protein expression and human papillomavirus status as prognostic biomarkers of nonoropharyngeal head and neck squamous cell carcinoma. Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology. 32: 3930-8. PMID 25267748 DOI: 10.1200/Jco.2013.54.5228 |
0.32 |
|
| 2014 |
Zhang K, Jones L, Lim S, Maher CA, Adkins D, Lewis J, Kimple RJ, Fertig EJ, Chung CH, Van Tine BA, Ellis MJ, Herrlich A, Michel LS. Loss of Trop2 causes ErbB3 activation through a neuregulin-1-dependent mechanism in the mesenchymal subtype of HNSCC. Oncotarget. 5: 9281-94. PMID 25238142 DOI: 10.18632/Oncotarget.2423 |
0.385 |
|
| 2014 |
Lee E, Fertig EJ, Jin K, Sukumar S, Pandey NB, Popel AS. Breast cancer cells condition lymphatic endothelial cells within pre-metastatic niches to promote metastasis. Nature Communications. 5: 4715. PMID 25178650 DOI: 10.1038/Ncomms5715 |
0.325 |
|
| 2014 |
Chung CH, Lee JW, Slebos RJ, Howard JD, Perez J, Kang H, Fertig EJ, Considine M, Gilbert J, Murphy BA, Nallur S, Paranjape T, Jordan RC, Garcia J, Burtness B, et al. A 3'-UTR KRAS-variant is associated with cisplatin resistance in patients with recurrent and/or metastatic head and neck squamous cell carcinoma. Annals of Oncology : Official Journal of the European Society For Medical Oncology / Esmo. 25: 2230-6. PMID 25081901 DOI: 10.1093/Annonc/Mdu367 |
0.32 |
|
| 2014 |
Guerrero-Preston R, Michailidi C, Marchionni L, Pickering CR, Frederick MJ, Myers JN, Yegnasubramanian S, Hadar T, Noordhuis MG, Zizkova V, Fertig E, Agrawal N, Westra W, Koch W, Califano J, et al. Key tumor suppressor genes inactivated by "greater promoter" methylation and somatic mutations in head and neck cancer. Epigenetics : Official Journal of the Dna Methylation Society. 9: 1031-46. PMID 24786473 DOI: 10.4161/Epi.29025 |
0.389 |
|
| 2014 |
Li R, Ochs MF, Ahn SM, Hennessey P, Tan M, Soudry E, Gaykalova DA, Uemura M, Brait M, Shao C, Westra W, Bishop J, Fertig EJ, Califano JA. Expression microarray analysis reveals alternative splicing of LAMA3 and DST genes in head and neck squamous cell carcinoma. Plos One. 9: e91263. PMID 24675808 DOI: 10.1371/Journal.Pone.0091263 |
0.379 |
|
| 2014 |
Sun W, Gaykalova DA, Ochs MF, Mambo E, Arnaoutakis D, Liu Y, Loyo M, Agrawal N, Howard J, Li R, Ahn S, Fertig E, Sidransky D, Houghton J, Buddavarapu K, et al. Activation of the NOTCH pathway in head and neck cancer. Cancer Research. 74: 1091-104. PMID 24351288 DOI: 10.1158/0008-5472.Can-13-1259 |
0.362 |
|
| 2014 |
Considine M, Parker HS, Wei Y, Xia XX, Cope L, Ochs MF, Fertig EJ. Abstract LB-317: Interactive pipeline for reproducible genomics analyses Cancer Research. 74. DOI: 10.1158/1538-7445.Am2014-Lb-317 |
0.358 |
|
| 2014 |
Afsari B, Fertig EJ, Younes L, Geman D, Marchionni L. Abstract 5342: Hardwiring mechanism into predicting cancer phenotypes by computational learning Cancer Research. 74: 5342-5342. DOI: 10.1158/1538-7445.Am2014-5342 |
0.337 |
|
| 2014 |
Loyo M, Kagohara LT, Sun W, Tan M, Fertig E, Ochs M, Izumchenko E, Brait M, Califano J, Sidransky D. Abstract 527: Analysis of the interaction between microRNAs and Notch pathway members in HNSCC (head and neck squamous cell carcinoma) Cancer Research. 74: 527-527. DOI: 10.1158/1538-7445.Am2014-527 |
0.305 |
|
| 2014 |
Gaykalova DA, Manola J, Ozawa H, Morton K, Bishop J, Considine M, Sharma R, Zhang C, Fertig E, Tan M, Hennessey P, Ahn J, Koch W, Khan Z, Chung CH, et al. Abstract 3409: Transcription factor signature of head and neck squamous cell carcinoma Cancer Research. 74: 3409-3409. DOI: 10.1158/1538-7445.Am2014-3409 |
0.369 |
|
| 2014 |
Guerrero-Preston R, Michailidi C, Marchionni L, Pickering C, Frederick M, Myers J, Yegnasubramanian S, Hadar T, Noordhuis M, Fertig E, Agrawal N, Westra W, Koch W, Califano J, Velculescu V, et al. Abstract 2482: Key tumor suppressor genes inactivated by promoter methylation and somatic mutations in head and neck cancer Cancer Research. 74: 2482-2482. DOI: 10.1158/1538-7445.Am2014-2482 |
0.399 |
|
| 2014 |
Ozawa H, Cheng H, Fertig EJ, Howard JD, Markovic A, Hughes R, Perez J, Quon H, Chung CH. Abstract 2474: Smad4 loss induces cetuximab resistance and increased metastatic potential in head and neck squamous cell carcinoma Cancer Research. 74: 2474-2474. DOI: 10.1158/1538-7445.Am2014-2474 |
0.36 |
|
| 2013 |
Fertig EJ, Markovic A, Danilova LV, Gaykalova DA, Cope L, Chung CH, Ochs MF, Califano JA. Preferential activation of the hedgehog pathway by epigenetic modulations in HPV negative HNSCC identified with meta-pathway analysis. Plos One. 8: e78127. PMID 24223768 DOI: 10.1371/Journal.Pone.0078127 |
0.367 |
|
| 2013 |
Gajula RP, Chettiar ST, Williams RD, Thiyagarajan S, Kato Y, Aziz K, Wang R, Gandhi N, Wild AT, Vesuna F, Ma J, Salih T, Cades J, Fertig E, Biswal S, et al. The twist box domain is required for Twist1-induced prostate cancer metastasis. Molecular Cancer Research : McR. 11: 1387-400. PMID 23982216 DOI: 10.1158/1541-7786.Mcr-13-0218-T |
0.347 |
|
| 2013 |
Fertig EJ, Favorov AV, Ochs MF. Identifying context-specific transcription factor targets from prior knowledge and gene expression data. Ieee Transactions On Nanobioscience. 12: 142-9. PMID 23694699 DOI: 10.1109/Tnb.2013.2263390 |
0.349 |
|
| 2013 |
Bauman JE, Arias-Pulido H, Lee SJ, Fekrazad MH, Ozawa H, Fertig E, Howard J, Bishop J, Wang H, Olson GT, Spafford MJ, Jones DV, Chung CH. A phase II study of temsirolimus and erlotinib in patients with recurrent and/or metastatic, platinum-refractory head and neck squamous cell carcinoma. Oral Oncology. 49: 461-7. PMID 23384718 DOI: 10.1016/J.Oraloncology.2012.12.016 |
0.303 |
|
| 2013 |
Gajula R, Chettiar S, Williams R, Thiyagarajan S, Aziz K, Gandhi N, Wild A, Salih T, Kato Y, Cades J, Fertig E, Chung C, Herman J, Hales R, Rudin C, et al. Abstract B45: The Twist box domain is required for Twist1-induced metastasis of prostate cancer cells Cancer Research. 73. DOI: 10.1158/1538-7445.Tim2013-B45 |
0.364 |
|
| 2013 |
Howard JD, Cheng H, Ratner E, Fertig EJ, Perez J, Quon H, Considine M, Ochs M, Weidhaas J, Chung CH. Abstract 3100: MicroRNA profiling reveals miR-205 upregulation is associated with head and neck squamous cell carcinoma and modulates E2F1 signaling. Cancer Research. 73: 3100-3100. DOI: 10.1158/1538-7445.Am2013-3100 |
0.307 |
|
| 2013 |
Fertig EJ, Markovic A, Danilova LV, Gaykalova DA, Cope L, Chung CH, Califano JA, Ochs MF. Abstract 2901: An integrated matrix factorization algorithm for DNA methylation and gene expression identi es HNSCC clinical subtypes and GLI1 signaling speci c to HPV-negative HNSCC. Cancer Research. 73: 2901-2901. DOI: 10.1158/1538-7445.Am2013-2901 |
0.309 |
|
| 2013 |
Gajula RP, Chettiar ST, Williams RD, Thiyagarajan S, Kato Y, Aziz K, Wang R, Gandhi N, Wild AT, Vesuna F, Ma J, Salih T, Cades J, Fertig E, Biswal S, et al. Abstract 1493: The Twist box is required for Twist1-induced prostate cancer metastasis. Cancer Research. 73: 1493-1493. DOI: 10.1158/1538-7445.Am2013-1493 |
0.369 |
|
| 2012 |
Bedi A, Chang X, Noonan K, Pham V, Bedi R, Fertig EJ, Considine M, Califano JA, Borrello I, Chung CH, Sidransky D, Ravi R. Inhibition of TGF-β enhances the in vivo antitumor efficacy of EGF receptor-targeted therapy. Molecular Cancer Therapeutics. 11: 2429-39. PMID 22927667 DOI: 10.1158/1535-7163.Mct-12-0101-T |
0.326 |
|
| 2012 |
Fertig EJ, Ren Q, Cheng H, Hatakeyama H, Dicker AP, Rodeck U, Considine M, Ochs MF, Chung CH. Gene expression signatures modulated by epidermal growth factor receptor activation and their relationship to cetuximab resistance in head and neck squamous cell carcinoma. Bmc Genomics. 13: 160. PMID 22549044 DOI: 10.1186/1471-2164-13-160 |
0.33 |
|
| 2012 |
Cheng H, Fertig E, Ozawa H, Hatakeyama H, Considine M, Perez J, Ochs M, Chung CH. Abstract 1889: Smad4 inactivation correlates with EMT and cetuximab resistance in head and neck squamous cell carcinoma Cancer Research. 72: 1889-1889. DOI: 10.1158/1538-7445.Am2012-1889 |
0.361 |
|
| 2009 |
Fertig EJ, Baek SJ, Hunt BR, Ott E, Szunyogh I, Aravéquia JA, Kalnay E, Li H, Liu J. Observation bias correction with an ensemble Kalman filter Tellus, Series a: Dynamic Meteorology and Oceanography. 61: 210-226. DOI: 10.1111/J.1600-0870.2008.00378.X |
0.499 |
|
| 2008 |
Liu J, Fertig EJ, Li H, Kalnay E, Hunt BR, Kostelich EJ, Szunyogh I, Todling R. Comparison between Local Ensemble Transform Kalman Filter and PSAS in the NASA finite volume GCM - Perfect model experiments Nonlinear Processes in Geophysics. 15: 645-659. DOI: 10.5194/Npg-15-645-2008 |
0.509 |
|
| 2007 |
Fertig EJ, Hunt BR, Ott E, Szunyogh I. Assimilating non-local observations with a local ensemble Kalman filter Tellus, Series a: Dynamic Meteorology and Oceanography. 59: 719-730. DOI: 10.1111/J.1600-0870.2007.00260.X |
0.502 |
|
| 2007 |
Fertig EJ, Harlim J, Hunt BR. A comparative study of 4D-VAR and a 4D Ensemble Kalman Filter: Perfect model simulations with Lorenz-96 Tellus, Series a: Dynamic Meteorology and Oceanography. 59: 96-100. DOI: 10.1111/J.1600-0870.2006.00205.X |
0.655 |
|
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