| Year |
Citation |
Score |
| 2022 |
Khalighi S, Joseph P, Babu D, Singh S, LaFramboise T, Guda K, Varadan V. SYSMut: decoding the functional significance of rare somatic mutations in cancer. Briefings in Bioinformatics. PMID 35804437 DOI: 10.1093/bib/bbac280 |
0.304 |
|
| 2021 |
Katabathula R, Joseph P, Singh S, Zhao S, Kumar B, Gaule P, Pan Q, Old M, Tuck DP, Varadan V. Multi-scale Pan-cancer Integrative Analyses Identify the STAT3-VSIR Axis as a key Immunosuppressive Mechanism in Head and Neck Cancer. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. PMID 34785584 DOI: 10.1158/1078-0432.CCR-21-1978 |
0.3 |
|
| 2020 |
Hill HE, Schiemann WP, Varadan V. Understanding breast cancer disparities-a multi-scale challenge. Annals of Translational Medicine. 8: 906. PMID 32793750 DOI: 10.21037/Atm.2020.04.37 |
0.376 |
|
| 2020 |
Seachrist DD, Hannigan MM, Ingles NN, Webb BM, Weber-Bonk KL, Yu P, Bebek G, Singh S, Sizemore ST, Varadan V, Licatalosi DD, Keri RA. --The transcriptional repressor BCL11A promotes breast cancer metastasis. The Journal of Biological Chemistry. PMID 32576660 DOI: 10.1074/Jbc.Ra120.014018 |
0.431 |
|
| 2020 |
Baslan T, Kendall J, Volyanskyy K, McNamara K, Cox H, D'Italia S, Ambrosio F, Riggs M, Rodgers L, Leotta A, Song J, Mao Y, Wu J, Shah R, Gularte-Mérida R, ... ... Varadan V, et al. Novel insights into breast cancer copy number genetic heterogeneity revealed by single-cell genome sequencing. Elife. 9. PMID 32401198 DOI: 10.7554/Elife.51480 |
0.418 |
|
| 2020 |
Beig N, Bera K, Prasanna P, Antunes J, Correa R, Singh S, Saeed Bamashmos A, Ismail M, Braman N, Verma R, Hill VB, Statsevych V, Ahluwalia MS, Varadan V, Madabhushi A, et al. Radiogenomic-based survival risk stratification of tumor habitat on Gd-T1w MRI is associated with biological processes in Glioblastoma. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. PMID 32079590 DOI: 10.1158/1078-0432.Ccr-19-2556 |
0.307 |
|
| 2020 |
Roberts MS, Sahni JM, Schrock MS, Piemonte KM, Weber-Bonk KL, Seachrist DD, Avril S, Anstine LJ, Singh S, Sizemore ST, Varadan V, Summers MK, Keri RA. LIN9 and NEK2 are core regulators of mitotic fidelity that can be therapeutically targeted to overcome taxane resistance. Cancer Research. PMID 32054769 DOI: 10.1158/0008-5472.Can-19-3466 |
0.358 |
|
| 2020 |
Baslan T, Kendall J, Volyanskyy K, McNamara K, Cox H, D'Italia S, Ambrosio F, Riggs M, Rodgers L, Leotta A, Song J, Mao Y, Wu J, Shah R, Gularte-Mérida R, ... ... Varadan V, et al. Author response: Novel insights into breast cancer copy number genetic heterogeneity revealed by single-cell genome sequencing Elife. DOI: 10.7554/Elife.51480.Sa2 |
0.392 |
|
| 2020 |
Hill HE, Singh S, Miskimen K, Silverman P, Barnholtz-Sloan J, Sloan A, Gilmore H, Varadan V. Abstract PD8-09: Genome-scale systems biology analyses reveal potentially targetable signaling networks in breast cancer brain metastases Cancer Research. DOI: 10.1158/1538-7445.Sabcs19-Pd8-09 |
0.35 |
|
| 2020 |
Braman N, Adoui ME, Vulchi M, Turk P, Etesami M, Fu P, Drisis S, Varadan V, Plecha D, Benjelloun M, Abraham J, Madabhushi A. Abstract P4-10-13: Validation of neural network approach for the prediction of HER2-targeted neoadjuvant chemotherapy response from pretreatment MRI: A multi-site study Cancer Research. 80. DOI: 10.1158/1538-7445.Sabcs19-P4-10-13 |
0.389 |
|
| 2019 |
Hirukawa A, Singh S, Wang J, Rennhack JP, Swiatnicki M, Sanguin-Gendreau V, Zuo D, Daldoul K, Lavoie C, Park M, Andrechek ER, Westbrook TF, Harris LN, Varadan V, Smith HW, et al. Reduction of Global H3K27me Enhances HER2/ErbB2 Targeted Therapy. Cell Reports. 29: 249-257.e8. PMID 31597089 DOI: 10.1016/J.Celrep.2019.08.105 |
0.406 |
|
| 2019 |
Smith HW, Hirukawa A, Sanguin-Gendreau V, Nandi I, Dufour CR, Zuo D, Tandoc K, Leibovitch M, Singh S, Rennhack JP, Swiatnicki M, Lavoie C, Papavasiliou V, Temps C, Carragher NO, ... ... Varadan V, et al. An ErbB2/c-Src axis links bioenergetics with PRC2 translation to drive epigenetic reprogramming and mammary tumorigenesis. Nature Communications. 10: 2901. PMID 31263101 DOI: 10.1038/S41467-019-10681-4 |
0.371 |
|
| 2019 |
Braman N, Prasanna P, Whitney J, Singh S, Beig N, Etesami M, Bates DDB, Gallagher K, Bloch BN, Vulchi M, Turk P, Bera K, Abraham J, Sikov WM, Somlo G, ... ... Varadan V, et al. Association of Peritumoral Radiomics With Tumor Biology and Pathologic Response to Preoperative Targeted Therapy for HER2 (ERBB2)-Positive Breast Cancer. Jama Network Open. 2: e192561. PMID 31002322 DOI: 10.1001/jamanetworkopen.2019.2561 |
0.3 |
|
| 2019 |
Blum AE, Venkitachalam S, Ravillah D, Chelluboyina AK, Kieber-Emmons AM, Ravi L, Kresak A, Chandar AK, Markowitz SD, Canto MI, Wang JS, Shaheen NJ, Guo Y, Shyr Y, Willis JE, ... ... Varadan V, et al. Systems Biology Analyses Reveal Hyperactivation of Transforming Growth Factor beta and JNK Signaling pathways in Esophageal Cancer. Gastroenterology. PMID 30768984 DOI: 10.1053/J.Gastro.2019.01.263 |
0.328 |
|
| 2018 |
Somasundaram S, Forrest ME, Moinova H, Cohen A, Varadan V, LaFramboise T, Markowitz S, Khalil AM. The DNMT1-associated lincRNA DACOR1 reprograms genome-wide DNA methylation in colon cancer. Clinical Epigenetics. 10: 127. PMID 30348202 DOI: 10.1186/S13148-018-0555-3 |
0.33 |
|
| 2018 |
Harbhajanka A, Chahar S, Miskimen K, Silverman P, Harris L, Williams N, Varadan V, Gilmore H. Clinicopathological, Immunohistochemical and molecular correlation of neural crest transcription factor SOX10 expression in triple negative breast carcinoma. Human Pathology. PMID 29894722 DOI: 10.1016/J.Humpath.2018.06.007 |
0.356 |
|
| 2018 |
Beig N, Patel J, Prasanna P, Hill V, Gupta A, Correa R, Bera K, Singh S, Partovi S, Varadan V, Ahluwalia M, Madabhushi A, Tiwari P. Radiogenomic analysis of hypoxia pathway is predictive of overall survival in Glioblastoma. Scientific Reports. 8: 7. PMID 29311558 DOI: 10.1038/S41598-017-18310-0 |
0.344 |
|
| 2018 |
Singh S, Harris L, Gilmore HL, Cheung YH, Dimitrova N, Varadan V. InFlo: A systems biology framework to discover molecular mechanisms underlying response to therapy. Journal of Clinical Oncology. 36: e12635-e12635. DOI: 10.1200/Jco.2018.36.15_Suppl.E12635 |
0.418 |
|
| 2018 |
Braman N, Prasanna P, Singh S, Beig N, Gilmore H, Etesami M, Bates D, Gallagher K, Bloch B, Somlo G, Sikov W, Harris L, Plecha D, Varadan V, Madabhushi A. Abstract P4-02-07: Radiogenomic analysis of HER2+ breast cancer reveals MRI features correlated with genomic immune index are predictive of neoadjuvant chemotherapy response Cancer Research. 78. DOI: 10.1158/1538-7445.Sabcs17-P4-02-07 |
0.428 |
|
| 2018 |
Braman N, Prasanna P, Singh S, Beig N, Gilmore H, Etesami M, Bates D, Gallagher K, Bloch B, Somlo G, Sikov W, Harris L, Plecha D, Varadan V, Madabhushi A. Abstract P4-02-06: Intratumoral and peritumoral MRI signatures of HER2-enriched subtype also predict pathological response to neoadjuvant chemotherapy in HER2+ breast cancers Cancer Research. 78. DOI: 10.1158/1538-7445.Sabcs17-P4-02-06 |
0.386 |
|
| 2018 |
Cheung YH, Wu J, Varadan V, Dimitrova N. Abstract 3436: Early mutated genes and subsequent mutational trajectory in breast cancer subtypes Cancer Research. 78: 3436-3436. DOI: 10.1158/1538-7445.Am2018-3436 |
0.374 |
|
| 2017 |
Doherty MR, Cheon H, Junk DJ, Vinayak S, Varadan V, Telli ML, Ford JM, Stark GR, Jackson MW. Interferon-beta represses cancer stem cell properties in triple-negative breast cancer. Proceedings of the National Academy of Sciences of the United States of America. PMID 29229854 DOI: 10.1073/Pnas.1713728114 |
0.416 |
|
| 2017 |
Sahni JM, Gayle SS, Webb B, Weber-Bonk KL, Seachrist DD, Singh S, Sizemore ST, Restrepo NA, Bebek G, Scacheri P, Varadan V, Summers MK, Keri RA. Mitotic vulnerability in triple-negative breast cancer associated with LIN9 is targetable with BET inhibitors. Cancer Research. PMID 28807940 DOI: 10.1158/0008-5472.Can-17-1571 |
0.432 |
|
| 2017 |
Agrawal V, Cheung YH, Keswarpu P, Somlo G, Abu-Khalaf M, Sikov WM, Varadan V, Harris L, Dimitrova N. RNA-Seq to reveal mitochondrial gene fusions in breast cancer. Journal of Clinical Oncology. 35: e13019-e13019. DOI: 10.1200/Jco.2017.35.15_Suppl.E13019 |
0.379 |
|
| 2017 |
Singh S, Gilmore H, Somlo G, Abu-Khalaf M, Sikov W, Harris L, Varadan V. Abstract P1-05-09: Association of co-amplicons with immune infiltration in subtypes of HER2-Positive breast cancer Cancer Research. 77. DOI: 10.1158/1538-7445.Sabcs16-P1-05-09 |
0.424 |
|
| 2017 |
Baar J, Abraham J, Silverman P, Budd G, Vinayak S, Varadan V, Moore H, Montero A, Fu P. Abstract OT2-01-10: Pilot study of carboplatin, nab-paclitaxel and pembrolizumab for metastatic triple-negative breast cancer (ongoing clinical trial) Cancer Research. 77. DOI: 10.1158/1538-7445.Sabcs16-Ot2-01-10 |
0.401 |
|
| 2017 |
Singh S, Gilmore H, Abu-Khalaf M, Somlo G, Sikov W, Harris L, Varadan V. Abstract 419: Integrative analysis of multi-omics tumor profiles identifies pathways associated with resistance to anti-HER2 therapy in early stage breast cancer Cancer Research. 77: 419-419. DOI: 10.1158/1538-7445.Am2017-419 |
0.402 |
|
| 2017 |
Beig N, Patel J, Prasanna P, Partovi S, Varadan V, Madabhushi A, Tiwari P. Radiogenomic analysis of hypoxia pathway reveals computerized MRI descriptors predictive of overall survival in glioblastoma Proceedings of Spie. 10134. DOI: 10.1117/12.2255694 |
0.382 |
|
| 2016 |
Dimitrova N, Nagaraj AB, Razi A, Singh S, Kamalakaran S, Banerjee N, Joseph P, Mankovich A, Mittal P, DiFeo A, Varadan V. InFlo: a novel systems biology framework identifies cAMP-CREB1 axis as a key modulator of platinum resistance in ovarian cancer. Oncogene. PMID 27819677 DOI: 10.1038/Onc.2016.398 |
0.41 |
|
| 2016 |
Blum A, Venkitachalam S, Guo Y, Kieber-Emmons AM, Ravi L, Chandar AK, Iyer PG, Canto MI, Wang JS, Shaheen NJ, Barnholtz-Sloan JS, Markowitz SD, Willis JE, Shyr Y, Chak A, ... Varadan V, et al. RNA Sequencing Identifies Transcriptionally-Viable Gene Fusions in Esophageal Adenocarcinomas. Cancer Research. PMID 27503924 DOI: 10.1158/0008-5472.Can-16-0979 |
0.372 |
|
| 2016 |
Razi A, Afghah F, Singh S, Varadan V. Network-Based Enriched Gene Subnetwork Identification: A Game-Theoretic Approach. Biomedical Engineering and Computational Biology. 7: 1-14. PMID 27081328 DOI: 10.4137/BECB.S38244 |
0.356 |
|
| 2016 |
Venkitachalam S, Revoredo L, Varadan V, Fecteau RE, Ravi L, Lutterbaugh J, Markowitz SD, Willis JE, Gerken TA, Guda K. Biochemical and functional characterization of glycosylation-associated mutational landscapes in colon cancer. Scientific Reports. 6: 23642. PMID 27004849 DOI: 10.1038/Srep23642 |
0.395 |
|
| 2016 |
Varadan V, Sandoval M, Harris LN. Biomarkers for Predicting Response to Anti- HER2 Agents. Advances in Experimental Medicine and Biology. 882: 155-67. PMID 26987534 DOI: 10.1007/978-3-319-22909-6_6 |
0.378 |
|
| 2016 |
Goel S, Wang Q, Watt AC, Tolaney SM, Dillon DA, Li W, Ramm S, Palmer AC, Yuzugullu H, Varadan V, Tuck D, Harris LN, Wong KK, Liu XS, Sicinski P, et al. Overcoming Therapeutic Resistance in HER2-Positive Breast Cancers with CDK4/6 Inhibitors. Cancer Cell. 29: 255-269. PMID 26977878 DOI: 10.1016/J.Ccell.2016.02.006 |
0.366 |
|
| 2016 |
Varadan V, Gilmore HL, Miskimen KL, Tuck DP, Parsai S, Awadallah A, Krop I, Winer EP, Bossuyt V, Somlo G, Abu-Khalaf MM, Fenton MA, Sikov W, Harris L. Immune Signatures Following Single Dose Trastuzumab Predict Pathologic Response to Preoperative Trastuzumab and Chemotherapy in HER2-Positive Early Breast Cancer. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. PMID 26842237 DOI: 10.1158/1078-0432.Ccr-15-2021 |
0.389 |
|
| 2016 |
Braman N, Prasanna P, Plecha D, Gilmore HL, Harris L, Varadan V, Madabhushi A. Computerized textural analysis of DCE-MRI to enable identification of HER2-enriched breast cancers. Journal of Clinical Oncology. 34: 598-598. DOI: 10.1200/Jco.2016.34.15_Suppl.598 |
0.402 |
|
| 2016 |
Agrawal V, Varadan V, Banerjee N, Miskimen K, Vadodkar A, Abu-Khalaf M, Sikov W, Harris L, Dimitrova N. Abstract P6-03-08: Novel recurrent lncRNA fusions detected in breast cancer using RNA-Seq technology in a neoadjuvant setting Cancer Research. 76. DOI: 10.1158/1538-7445.Sabcs15-P6-03-08 |
0.451 |
|
| 2016 |
Varadan V, Singh S, Gilmore H, Parsai S, Somlo G, Abu-Khalaf M, Sikov W, Harris LN. Abstract 304: HER2 basal tumors have frequent mutation of HER3 and are more resistant to HER2-targeted therapy Cancer Research. 76: 304-304. DOI: 10.1158/1538-7445.Am2016-304 |
0.42 |
|
| 2016 |
Blum A, Varadan V, Venkitachalam S, Guo Y, Kieber-Emmons AM, Ravi L, Chandar AK, Iyer P, Canto MI, Wang J, Shaheen N, Barnholtz-Sloan J, Markowitz S, Willis J, Shyr Y, et al. 758 Transcriptome Sequencing Identifies Potentially Functional Gene Fusions in Esophageal Adenocarcinomas Gastroenterology. 150: S153-S154. DOI: 10.1016/S0016-5085(16)30613-8 |
0.331 |
|
| 2015 |
Razi A, Banerjee N, Dimitrova N, Varadan V. Non-linear Bayesian framework to determine the transcriptional effects of cancer-associated genomic aberrations. Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual Conference. 2015: 6514-8. PMID 26737785 DOI: 10.1109/EMBC.2015.7319885 |
0.343 |
|
| 2015 |
Razi A, Afghah F, Varadan V. Identifying gene subnetworks associated with clinical outcome in ovarian cancer using Network Based Coalition Game. Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual Conference. 2015: 6509-13. PMID 26737784 DOI: 10.1109/EMBC.2015.7319884 |
0.334 |
|
| 2015 |
Varadan V, Kamalakaran S, Gilmore H, Banerjee N, Janevski A, Miskimen KL, Williams N, Basavanhalli A, Madabhushi A, Lezon-Geyda K, Bossuyt V, Lannin DR, Abu-Khalaf M, Sikov W, Dimitrova N, et al. Brief-exposure to preoperative bevacizumab reveals a TGF-β signature predictive of response in HER2-negative breast cancers. International Journal of Cancer. Journal International Du Cancer. PMID 26284485 DOI: 10.1002/Ijc.29808 |
0.419 |
|
| 2015 |
Varadan V, Singh S, Nosrati A, Ravi L, Lutterbaugh J, Barnholtz-Sloan JS, Markowitz SD, Willis JE, Guda K. ENVE: a novel computational framework characterizes copy-number mutational landscapes in colorectal cancers from African American patients. Genome Medicine. 7: 69. PMID 26269717 DOI: 10.1186/S13073-015-0192-9 |
0.357 |
|
| 2015 |
Guda K, Veigl ML, Varadan V, Nosrati A, Ravi L, Lutterbaugh J, Beard L, Willson JK, Sedwick WD, Wang ZJ, Molyneaux N, Miron A, Adams MD, Elston RC, Markowitz SD, et al. Reply to Ashktorab et al.: Mutational landscape of colon cancers in African Americans. Proceedings of the National Academy of Sciences of the United States of America. 112: E2853. PMID 25941411 DOI: 10.1073/Pnas.1505059112 |
0.325 |
|
| 2015 |
Guda K, Veigl ML, Varadan V, Nosrati A, Ravi L, Lutterbaugh J, Beard L, Willson JK, Sedwick WD, Wang ZJ, Molyneaux N, Miron A, Adams MD, Elston RC, Markowitz SD, et al. Novel recurrently mutated genes in African American colon cancers. Proceedings of the National Academy of Sciences of the United States of America. 112: 1149-54. PMID 25583493 DOI: 10.1073/Pnas.1417064112 |
0.334 |
|
| 2015 |
Avril S, Varadan V, Miskimen K, Gollamudi J, Abu-Khalaf MM, Somlo G, Sikov WM, Harris L, Vinayak S. Association of tumor infiltrating lymphocytes (TILs) with pathologic response in baseline and post-brief exposure HER2+ breast cancer biopsies from BrUOG-211B. Journal of Clinical Oncology. 33: 619-619. DOI: 10.1200/Jco.2015.33.15_Suppl.619 |
0.376 |
|
| 2015 |
Affan AM, Varadan V, Gilmore HL, Miskimen K, Jeon YJ, Parsai S, Ronai Z, Harris L. SLC1A5 to predict outcome with chemotherapy in early triple-negative breast cancer. Journal of Clinical Oncology. 33: 2530-2530. DOI: 10.1200/Jco.2015.33.15_Suppl.2530 |
0.363 |
|
| 2015 |
Williams NO, Thompson CL, Parsai S, Varadan V, Miskimen K, Barnholtz-Sloan J, Silverman P, Vinayak S, Rogers LR, Sloan AE, Harris L, Gilmore HL. Tumor infiltrating lymphocytes associated with brain metastasis in breast cancer. Journal of Clinical Oncology. 33: 2059-2059. DOI: 10.1200/Jco.2015.33.15_Suppl.2059 |
0.441 |
|
| 2015 |
Williams N, Varadan V, Vadodkar A, Miskimen K, Kim S, Vinayak S, Silverman P, Barnholtz-Sloan J, Sloan A, Thompson C, Rogers L, Gilmore H, Harris L. Abstract P6-16-03: Intrinsic subtypes and MRI patterns in brain metastasis associated with breast cancer Cancer Research. 75. DOI: 10.1158/1538-7445.Sabcs14-P6-16-03 |
0.477 |
|
| 2015 |
Vadodkar AS, Varadan V, Miskimen K, Bossuyt V, Abu-khalaf M, Krop I, Winer E, Harris L. Abstract P3-06-24: Brief exposure to trastuzumab prior to preoperative chemotherapy confirms predictors of response to treatment Cancer Research. 75. DOI: 10.1158/1538-7445.Sabcs14-P3-06-24 |
0.429 |
|
| 2015 |
Gilmore H, Varadan V, Williams N, Thompson CL, Kim S, Hsu P, Miskimen K, Palkar A, Vinayak S, Lindner R, Harris L. Abstract P3-04-07: Androgen receptor expression in triple negative breast cancer Cancer Research. 75. DOI: 10.1158/1538-7445.Sabcs14-P3-04-07 |
0.411 |
|
| 2015 |
Varadan V, Miskimen KLS, Parsai S, Krop IE, Winer EP, Bossuyt V, Abu-Khalaf M, Sikov W, Harris LN. Abstract 2836: A discovery and validation set of breast cancer preoperative clinical trials show an increase in immune score upon brief-exposure to trastuzumab (T) and the HER2-enriched subtype predict response to combination chemotherapy and T Cancer Research. 75: 2836-2836. DOI: 10.1158/1538-7445.Am2015-2836 |
0.379 |
|
| 2015 |
Blum A, Varadan V, Guo Y, Kieber-Emmons AM, Ravi L, Chandar AK, Canto MI, Wang JS, Shaheen NJ, Barnholtz-Sloan J, Willis J, Markowitz S, Shyr Y, Chak A, Guda K. 377 Discovery of Novel Gene-Fusions in Esophageal Adenocarcinoma Using Next-Gen RNA Sequencing Gastroenterology. 148: S-78. DOI: 10.1016/S0016-5085(15)30271-7 |
0.316 |
|
| 2014 |
Varadan V, Palkar A, Miskimen KLS, Williams NO, Morton M, Maximuk S, Vinayak S, Rogers LR, Sloan AE, Barnholtz-Sloan J, Gilmore HL, Harris L. Biologic pathways associated with breast cancer metastases to the brain. Journal of Clinical Oncology. 32: 11038-11038. DOI: 10.1200/Jco.2014.32.15_Suppl.11038 |
0.431 |
|
| 2014 |
Rogers L, Varadan V, Palkar A, Miskimen K, Williams N, Morton M, Maximuk S, Vinayak S, Sloan A, Barnholtz-Sloan J, Gilmore H, Harris L. BM-28 * BIOLOGICAL PATHWAYS ASSOCIATED WITH BREAST CANCER METASTASIS TO THE BRAIN Neuro-Oncology. 16: v38-v38. DOI: 10.1093/Neuonc/Nou240.28 |
0.438 |
|
| 2013 |
Wrzeszczynski KO, Varadan V, Kamalakaran S, Levine DA, Dimitrova N, Lucito R. Integrative prediction of gene function and platinum-free survival from genomic and epigenetic features in ovarian cancer. Methods in Molecular Biology (Clifton, N.J.). 1049: 35-51. PMID 23913207 DOI: 10.1007/978-1-62703-547-7_4 |
0.43 |
|
| 2013 |
Williams N, Varadan V, Vadodkar A, Miskimen K, Gilmore HL, Beckloff N, Edelheit S, Prabhakar D, Janevski A, Banerjee N, Kamalakaran S, Abu-Khalaf MM, Sikov WM, Dimitrova N, Harris L. TGFb signature at 2 weeks to predict response to preoperative therapy (PT) with bevacizumab (B) and chemotherapy (CT) in early breast cancer (EBC). Journal of Clinical Oncology. 31: 1046-1046. DOI: 10.1200/Jco.2013.31.15_Suppl.1046 |
0.385 |
|
| 2013 |
Varadan V, Miskimen K, Kamalakaran S, Janevski A, Banerjee N, Williams N, Abu-Khalaf M, Sikov W, Dimitrova N, Harris L. Abstract 4566: RNA-seq identifies a TGF-β signature that predicts response to preoperative bevacizumab in breast cancer. Cancer Research. 73: 4566-4566. DOI: 10.1158/1538-7445.Am2013-4566 |
0.394 |
|
| 2013 |
Banerjee N, Varadan V, Kamalakaran S, Janevski A, Miskimen K, Williams N, Abu-Khalaf M, Sikov W, Harris LN, Dimitrova N. Abstract 1828: RNA-seq reveals association of pCR and changes in lncRNA expression in pre-operative bevacizumab treatment of breast cancer. Cancer Research. 73: 1828-1828. DOI: 10.1158/1538-7445.Am2013-1828 |
0.429 |
|
| 2013 |
Varadan V, Agrawal V, Kamalakaran S, Banerjee N, Miskimen K, Vadodkar A, Abu-Khalaf M, Sikov W, Harris L, Dimitrova N. Abstract P4-04-07: Heterogeneous gene fusions detected by RNASeq show enrichment of insulin signaling pathway genes in breast cancer Cancer Research. 73. DOI: 10.1158/0008-5472.Sabcs13-P4-04-07 |
0.469 |
|
| 2013 |
Banerjee N, Chothani S, Kamalakaran S, Varadan V, Miskimen K, Vadodkar A, Abu-Khalaf M, Sikov W, Harris L, Dimitrova N. Abstract P4-04-02: RNA-seq reveals functional lncRNAs associated with estrogen-receptor status in breast cancer Cancer Research. 73. DOI: 10.1158/0008-5472.Sabcs13-P4-04-02 |
0.382 |
|
| 2013 |
Williams N, Varadan V, Miskimen K, Vadodkar A, Poruban D, Edelheit S, Gilmore H, Maximuk S, Sinclair N, Lezon-Geyda K, Abu-Khalaf M, Sikov W, Harris L. Abstract P1-08-16: Deep sequencing of breast tumor biopsies reveals an association between pathologic complete response and reduction of TP53 clonal abundance upon brief exposure to therapy Cancer Research. 73. DOI: 10.1158/0008-5472.Sabcs13-P1-08-16 |
0.406 |
|
| 2013 |
Varadan V, Agrawal V, Harris L, Dimitrova N. Identification and characterization of gene fusions in breast cancer - A non-trivial pursuit 2013 Ieee Global Conference On Signal and Information Processing, Globalsip 2013 - Proceedings. 109-112. DOI: 10.1109/GlobalSIP.2013.6736827 |
0.334 |
|
| 2012 |
Tang MH, Varadan V, Kamalakaran S, Zhang MQ, Dimitrova N, Hicks J. Major chromosomal breakpoint intervals in breast cancer co-localize with differentially methylated regions. Frontiers in Oncology. 2: 197. PMID 23293768 DOI: 10.3389/Fonc.2012.00197 |
0.394 |
|
| 2012 |
Varadan V, Kamalakaran S, Janevski A, Banerjee N, Lezon-Geyda K, Bossuyt V, Flowers-Poole D, Sinclair NF, Abu-Khalaf MM, Sikov WM, Dimitrova N, Harris L. Next-generation RNA sequencing reveals transcriptomic changes after brief exposure to preoperative nab-paclitaxel, bevacizumab, and trastuzumab. Journal of Clinical Oncology. 30: 10508-10508. DOI: 10.1200/Jco.2012.30.15_Suppl.10508 |
0.383 |
|
| 2012 |
Cutter N, Vigliotti M, Lum E, Wrzeszczynski KO, Varadan V, Dimitrova N, Levine DA, Lucito R. Abstract 1047: Suppression of the chromatin remodeling protein CHD3 and platinum resistance in ovarian cancer Cancer Research. 72: 1047-1047. DOI: 10.1158/1538-7445.Am2012-1047 |
0.423 |
|
| 2012 |
Varadan V, Kamalakaran S, Janevski A, Banerjee N, Lezon-Geyda K, Miskimen K, Bossuyt V, Abu-Khalaf M, Sikov W, Dimitrova N, Harris L. Abstract PD05-05: RNA-seq identifies unique transcriptomic changes after brief exposure to preoperative nab-paclitaxel (N), bevacizumab (B) or trastuzumab (T) and reveals down-regulation of TGF-β signaling associated with response to bevacizumab Cancer Research. 72. DOI: 10.1158/0008-5472.Sabcs12-Pd05-05 |
0.385 |
|
| 2012 |
Banerjee N, Maity S, Varadan V, Janevski A, Kamalakaran S, Sikov W, Abu-Khalaf M, Bossuyt V, Lannin D, Harris L, Cornfeld D, Dimitrova N. Abstract P4-01-02: Association of DCE-MRI texture features with molecular phenotypes and neoadjuvant therapy response in breast cancer Cancer Research. 72. DOI: 10.1158/0008-5472.Sabcs12-P4-01-02 |
0.411 |
|
| 2012 |
Varadan V, Mittal P, Vaske CJ, Benz SC. The integration of biological pathway knowledge in cancer genomics: A review of existing computational approaches Ieee Signal Processing Magazine. 29: 35-50. DOI: 10.1109/Msp.2011.943037 |
0.341 |
|
| 2011 |
Kamalakaran S, Lezon-Geyda K, Varadan V, Banerjee N, Lannin DR, Rizack T, Sikov WM, Abu-Khalaf MM, Janevski A, Harris L. Evaluation of ER/PR and HER2 status by RNA sequencing in tissue core biopsies from preoperative clinical trial specimens. Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology. 29: 46. PMID 27957964 DOI: 10.1200/Jco.2011.29.27_Suppl.46 |
0.309 |
|
| 2011 |
Wrzeszczynski KO, Varadan V, Byrnes J, Lum E, Kamalakaran S, Levine DA, Dimitrova N, Zhang MQ, Lucito R. Identification of tumor suppressors and oncogenes from genomic and epigenetic features in ovarian cancer. Plos One. 6: e28503. PMID 22174824 DOI: 10.1371/Journal.Pone.0028503 |
0.433 |
|
| 2011 |
Kamalakaran S, Varadan V, Giercksky Russnes HE, Levy D, Kendall J, Janevski A, Riggs M, Banerjee N, Synnestvedt M, Schlichting E, KÃ¥resen R, Shama Prasada K, Rotti H, Rao R, Rao L, et al. DNA methylation patterns in luminal breast cancers differ from non-luminal subtypes and can identify relapse risk independent of other clinical variables. Molecular Oncology. 5: 77-92. PMID 21169070 DOI: 10.1016/J.Molonc.2010.11.002 |
0.414 |
|
| 2011 |
Wrzeszczynski KO, Varadan V, Kamalakaran S, Levine DA, Dimitrova N, Zhang MQ, Lucito R. Abstract 30: Identification of genomic and epigenetic features of tumor suppressors and oncogenes in ovarian cancer Cancer Research. 71: 30-30. DOI: 10.1158/1538-7445.Am2011-30 |
0.446 |
|
| 2011 |
Banerjee N, Kamalakaran S, Varadan V, Janevski A, Lezon-Geyda K, Bossuyt V, Flowers D, Sikov W, Abu-Khalaf M, Rizack T, Harris L, Dimitrova N. P3-06-04: Sno/miRNA Expression Via Next Generation Sequencing: Variation in Patients before and after Treatment. Cancer Research. 71. DOI: 10.1158/0008-5472.Sabcs11-P3-06-04 |
0.327 |
|
| 2011 |
Varadan V, Kamalakaran S, Janevski A, Banerjee N, Lezon-Geyda K, Bossuyt V, Flowers D, Sikov W, Abu-Khalaf M, Rizack T, Dimitrova N, Harris L. P3-06-01: Next Generation RNA Sequencing Reveals Changes in Gene Expression and Alternative Splicing upon Brief Exposure to Therapy in Early Breast Cancer. Cancer Research. 71. DOI: 10.1158/0008-5472.Sabcs11-P3-06-01 |
0.469 |
|
| 2010 |
Kim H, Watkinson J, Varadan V, Anastassiou D. Multi-cancer computational analysis reveals invasion-associated variant of desmoplastic reaction involving INHBA, THBS2 and COL11A1. Bmc Medical Genomics. 3: 51. PMID 21047417 DOI: 10.1186/1755-8794-3-51 |
0.656 |
|
| 2010 |
Banerjee N, Janevski A, Kamalakaran S, Varadan V, Lucito R, Dimitrova N. Pathway and network analysis probing epigenetic influences on chemosensitivity in ovarian cancer 2010 Ieee International Workshop On Genomic Signal Processing and Statistics, Gensips 2010. DOI: 10.1109/GENSIPS.2010.5719670 |
0.32 |
|
| 2010 |
Kim H, Watkinson J, Varadan V, Anastassiou D. Multi-Cancer Computational Analysis Reveals Metastasis-Associated Variant of Desmoplastic Reaction Involving INHBA and THBS2 Nature Precedings. DOI: 10.1038/Npre.2010.4503.1 |
0.645 |
|
| 2009 |
Janevski A, Kamalakaran S, Banerjee N, Varadan V, Dimitrova N. PAPAyA: a platform for breast cancer biomarker signature discovery, evaluation and assessment. Bmc Bioinformatics. 10: S7. PMID 19761577 DOI: 10.1186/1471-2105-10-S9-S7 |
0.382 |
|
| 2009 |
Varadan V, Kamalakaran S, Russnes HG, Levy D, Kendall J, Janevski A, Riggs M, Banerjee N, Synnestvedt M, Schlichting E, Kåresen R, Lucito R, Wigler M, Dimitrova N, Naume B, et al. Genome-Wide DNA Methylation Profiles of Breast Tumors Reveal Loci Associated with Relapse Risk. Cancer Research. 69: 4046-4046. DOI: 10.1158/0008-5472.Sabcs-09-4046 |
0.428 |
|
| 2009 |
Kamalakaran S, Russnes HG, Janevski A, Levy D, Kendall J, Varadan V, Riggs M, Banerjee N, Synnestvedt M, Schlichting E, Kåresen R, Lucito R, Wigler M, Dimitrova N, Naume B, et al. Subtype Dependent Alterations of the DNA Methylation Landscape in Breast Cancer. Cancer Research. 69: 1144-1144. DOI: 10.1158/0008-5472.Sabcs-09-1144 |
0.432 |
|
| 2009 |
Banerjee N, Varadan V, Kamalakaran S, Janevski A. Towards identification of thematic overlaps in gene sets 2009 Ieee International Workshop On Genomic Signal Processing and Statistics, Gensips 2009. DOI: 10.1109/GENSIPS.2009.5174372 |
0.333 |
|
| 2006 |
Varadan V, Miller DM, Anastassiou D. Computational inference of the molecular logic for synaptic connectivity in C. elegans. Bioinformatics (Oxford, England). 22: e497-506. PMID 16873513 DOI: 10.1093/Bioinformatics/Btl224 |
0.583 |
|
| 2006 |
Varadan V, Anastassiou D. Inference of disease-related molecular logic from systems-based microarray analysis. Plos Computational Biology. 2: e68. PMID 16789819 DOI: 10.1371/Journal.Pcbi.0020068 |
0.615 |
|
| 2006 |
Anastassiou D, Liu H, Varadan V. Variable window binding for mutually exclusive alternative splicing. Genome Biology. 7: R2. PMID 16507134 DOI: 10.1186/Gb-2006-7-1-R2 |
0.58 |
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