Sorena Rahmanian

Most-cited papers

1. Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox v2.0

   Jan Schellenberger, Richard A. Que, R. Fleming, I. Thiele +9 more

   2007Nature Protocols1,782 citations Open access

   Semantic Scholar

   Save

2. A technology-agnostic long-read analysis pipeline for transcriptome discovery and quantification

   D. Wyman, Gabriela Balderrama-Gutierrez, Fairlie Reese, Shan Jiang +12 more

   2019bioRxiv173 citations Open access

   Semantic Scholar

   Save

3. The ENCODE Uniform Analysis Pipelines

   B. Hitz, Jin-Wook Lee, O. Jolanki, Meenakshi S. Kagda +56 more

   2023bioRxiv143 citations Open access

   Semantic Scholar

   Save

4. The ENCODE4 long-read RNA-seq collection reveals distinct classes of transcript structure diversity

   Fairlie Reese, B. Williams, Gabriela Balderrama-Gutierrez, D. Wyman +41 more

   2023bioRxiv62 citations Open access

   Semantic Scholar

   Save

5. A general approach to antibody thermostabilization

   Audrey D. McConnell, Xue Zhang, John L. Macomber, B. Chau +7 more

   2014mAbs56 citations Open access

   Semantic Scholar

   Save

6. Network reconstruction of platelet metabolism identifies metabolic signature for aspirin resistance

   Alex Thomas, Sorena Rahmanian, A. Bordbar, B. Palsson +1 more

   2014Scientific Reports51 citations Open access

   Semantic Scholar

   Save

7. COBRA Toolbox 2.0

   D. Hyduke, Jan Schellenberger, Richard A. Que, R. Fleming +9 more

   201139 citations Open access

   Semantic Scholar

   Save

8. Dynamics of microRNA expression during mouse prenatal development

   Sorena Rahmanian, R. Murad, A. Breschi, Weihua Zeng +17 more

   2018Genome Research28 citations Open access

   Semantic Scholar

   Save

9. Changes in ctDNA levels as an early indicator of outcomes in advanced NSCLC treated with TKI: Initial findings from a retrospective aggregate analysis of 8 clinical trials.

   Hillary Stires, Névine Zariffa, Megan Eisele, Emily Goren +15 more

   2023Journal of Clinical Oncology4 citations Open access

   Semantic Scholar

   Save

10. Long-TUC-seq is a robust method for quantification of metabolically labeled full-length isoforms

    Sorena Rahmanian, Gabriela Balderrama-Gutierrez, D. Wyman, Cassandra J. McGill +3 more

    2020bioRxiv4 citations Open access

    Semantic Scholar

    Save

11. Phase II study of vismodegib in patients with SMO or PTCH1 mutated tumors: Results from NCI-MATCH ECOG-ACRIN Trial (EAY131) Subprotocol T

    Anne S. Tsao, Zi-He Song, Alan L. Ho, J. Mehnert +23 more

    2025JCO Precision Oncology2 citations Open access

    Semantic Scholar

    Save

12. Blood-based assessment of patients with mismatch repair-deficient tumors enrolled in NCI-MATCH Arm Z1D (nivolumab).

    C. Karlovich, J. Silhavy, Jennifer S. Lococo, Biswajit Das +16 more

    2023Journal of Clinical Oncology1 citations

    Semantic Scholar

    Save

13. Comprehensive genomic profiling of matched ctDNA and tissue from patients with four common cancers enrolled to the NCI-MATCH trial.

    Rini Pauly, Biswajit Das, C. Karlovich, Li Chen +15 more

    2026Journal of Clinical Oncology0 citations

    Semantic Scholar

    Save

14. Molecular profiling of ctDNA from NCI-MATCH patients enrolled for treatment with mTOR1/2 inhibitor sapanisertib (arm M) and the Hedgehog pathway inhibitor vismodegib (arm T).

    Jennifer S. Lococo, Biswajit Das, Sorena Rahmanian, Ting-Chia Chang +16 more

    2023Journal of Clinical Oncology0 citations

    Semantic Scholar

    Save