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Dechen Lin, PhD

Assistant Professor

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Email dechenli@usc.edu
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Awards

  • Sigma Xi: Elected full member, 2024
  • Ming Hsieh Institute: Ming Hsieh Research Award, 2023
  • NIH/NCI: NCI R37 MERIT Award, 2020
  • Springer Nature Publishing Group (Oncogene): Readers’ Choice: The best of Oncogene 2019, 2020
  • American Association for Cancer Research (AACR): Best of AACR Award: most-cited research article in Cancer Research, 2019
  • American Society of Hematology: ASH Fellow Scholar Award, 2015
  • American Association for Cancer Research (AACR): Incorporated Scholar-in-Training Award, 2014

Publications

  • The MLL3/GRHL2 complex regulates malignant transformation and anti-tumor immunity in squamous cancer J Exp Med. 2025 Apr 07; 222(4). . View in PubMed
  • Genetically Defined Organoid Models Reveal Mechanisms Driving Squamous Cell Neoplastic Evolution and Identify Potential Therapeutic Vulnerabilities bioRxiv. 2025 Jan 22. . View in PubMed
  • Comprehensive analysis of H3K27me3 LOCKs under different DNA methylation contexts reveal epigenetic redistribution in tumorigenesis Epigenetics Chromatin. 2025 Jan 20; 18(1):6. . View in PubMed
  • Patient-derived tumor organoids to model drug response in gastric cancer Cell Rep Med. 2024 Jul 16; 5(7):101650. . View in PubMed
  • Genomic and single-cell characterization of patient-derived tumor organoid models of head and neck squamous cell carcinoma bioRxiv. 2024 Jul 02. . View in PubMed
  • A druggable cascade links methionine metabolism to epigenomic reprogramming in squamous cell carcinoma Proc Natl Acad Sci U S A. 2024 Jun 25; 121(26):e2320835121. . View in PubMed
  • Super-enhancer trapping by the nuclear pore via intrinsically disordered regions of proteins in squamous cell carcinoma cellsCell Chem Biol. 2024 Apr 18; 31(4):792-804. e7. . View in PubMed
  • Nat Commun. 2024 Mar 20; 15(1):2484. . View in PubMed
  • Epigenomic analyses identify FOXM1 as a key regulator of anti-tumor immune response in esophageal adenocarcinoma Cell Death Dis. 2024 Feb 19; 15(2):152. . View in PubMed
  • Establishing mouse and human oral esophageal organoids to investigate the tumor immune response Dis Model Mech. 2024 Jan 01; 17(1). . View in PubMed
  • ARID1A Deficiency Regulates Anti-Tumor Immune Response in Esophageal Adenocarcinoma Cancers (Basel). 2023 Nov 12; 15(22). . View in PubMed
  • Moving closer towards a comprehensive view of tumor biology and microarchitecture using spatial transcriptomics Nat Commun. 2023 Nov 02; 14(1):7017. . View in PubMed
  • Comprehensive analyses of partially methylated domains and differentially methylated regions in esophageal cancer reveal both cell-type- and cancer-specific epigenetic regulation Genome Biol. 2023 08 24; 24(1):193. . View in PubMed
  • Comparative impact of grade on mortality across salivary cancers: A novel, unifying staging system Head Neck. 2023 08; 45(8):2028-2039. . View in PubMed
  • Treatment for ovarian clear cell carcinoma with combined inhibition of WEE1 and ATR J Ovarian Res. 2023 Apr 22; 16(1):80. . View in PubMed
  • Targeting RNA Exonuclease XRN1 Potentiates Efficacy of Cancer Immunotherapy Cancer Res. 2023 03 15; 83(6):922-938. . View in PubMed
  • Large-scale genomic analyses reveal alterations and mechanisms underlying clonal evolution and immune evasion in esophageal cancer Nat Commun. 2023 02 17; 14(1):893. . View in PubMed
  • A novel role of master regulator transcription factor in anti-tumor immunity and cancer immunotherapy Theranostics. 2023; 13(6):1823-1825. . View in PubMed
  • Single-cell genomics identifies immune response to neoadjuvant chemoradiotherapy EBioMedicine. 2022 12; 86:104389. . View in PubMed
  • Generation and multiomic profiling of a TP53/CDKN2A double-knockout gastroesophageal junction organoid model Sci Transl Med. 2022 11 30; 14(673):eabq6146. . View in PubMed
  • Exercise impacts the epigenome of cancer Prostate Cancer Prostatic Dis. 2022 09; 25(3):379-380. . View in PubMed
  • Genomic and Epigenomic Characterization of Tumor Organoid Models Cancers (Basel). 2022 Aug 24; 14(17). . View in PubMed
  • Quantitative Nodal Burden and Mortality Across Solid Cancers J Natl Cancer Inst. 2022 07 11; 114(7):1003-1011. . View in PubMed
  • Chemotherapy predictors and a time-dependent chemotherapy effect in metastatic esophageal cancer World J Gastrointest Oncol. 2022 Feb 15; 14(2):511-524. . View in PubMed
  • Comparative Proteomic Analysis of HPV(+) Oropharyngeal Squamous Cell Carcinoma Recurrence J Proteome Res. 2022 01 07; 21(1):200-208. . View in PubMed
  • Investigation of early neoplastic transformation and premalignant biology using genetically engineered organoid models Comput Struct Biotechnol J. 2022; 20:5309-5315. . View in PubMed
  • Integrated single-cell transcriptome analysis reveals heterogeneity of esophageal squamous cell carcinoma microenvironment Nat Commun. 2021 12 17; 12(1):7335. . View in PubMed
  • Predicting master transcription factors from pan-cancer expression data Sci Adv. 2021 Nov 26; 7(48):eabf6123. . View in PubMed
  • Predictive Impact of Metastatic Lymph Node Burden on Distant Metastasis Across Papillary Thyroid Cancer Variants Thyroid. 2021 10; 31(10):1549-1557. . View in PubMed
  • A closer look at esophageal cancer through different lenses EBioMedicine. 2021 09; 71:103545. . View in PubMed
  • Interplay and cooperation between SREBF1 and master transcription factors regulate lipid metabolism and tumor-promoting pathways in squamous cancer Nat Commun. 2021 07 16; 12(1):4362. . View in PubMed
  • Publisher Correction: A pan-cancer analysis of CpG Island gene regulation reveals extensive plasticity within Polycomb target genes Nat Commun. 2021 Jun 28; 12(1):4106. . View in PubMed
  • Nodal staging convergence for HPV- and HPV+ oropharyngeal carcinoma Cancer. 2021 05 15; 127(10):1590-1597. . View in PubMed
  • A pan-cancer analysis of CpG Island gene regulation reveals extensive plasticity within Polycomb target genes Nat Commun. 2021 Apr 30; 12(1):2485. . View in PubMed
  • Prognostic Impact of Histologic Grade for Papillary Thyroid Carcinoma Ann Surg Oncol. 2021 Mar; 28(3):1731-1739. . View in PubMed
  • A Transcriptional Regulatory Loop of Master Regulator Transcription Factors, PPARG, and Fatty Acid Synthesis Promotes Esophageal Adenocarcinoma Cancer Res. 2021 03 01; 81(5):1216-1229. . View in PubMed
  • Complete response to neoadjuvant pembrolizumab and capecitabine in microsatellite stable, Epstein-Barr virus-positive, locally advanced gastric adenocarcinoma: case report AME Case Rep. 2021; 5:30. . View in PubMed
  • Super-enhancer-mediated core regulatory circuitry in human cancer Comput Struct Biotechnol J. 2021; 19:2790-2795. . View in PubMed
  • EWS-FLI1 regulates and cooperates with core regulatory circuitry in Ewing sarcoma Nucleic Acids Res. 2020 11 18; 48(20):11434-11451. . View in PubMed
  • TP63, SOX2, and KLF5 Establish a Core Regulatory Circuitry That Controls Epigenetic and Transcription Patterns in Esophageal Squamous Cell Carcinoma Cell LinesGastroenterology. 2020 10; 159(4):1311-1327. e19. . View in PubMed
  • Characterization of super-enhancer-associated functional lncRNAs acting as ceRNAs in ESCC Mol Oncol. 2020 Sep; 14(9):2203-2230. . View in PubMed
  • Lineage-Specific Epigenomic and Genomic Activation of Oncogene HNF4A Promotes Gastrointestinal Adenocarcinomas Cancer Res. 2020 07 01; 80(13):2722-2736. . View in PubMed
  • Enhancer-Driven lncRNA BDNF-AS Induces Endocrine Resistance and Malignant Progression of Breast Cancer through the RNH1/TRIM21/mTOR Cascade Cell Rep. 2020 Jun 09; 31(10):107753. . View in PubMed
  • Master transcription factors form interconnected circuitry and orchestrate transcriptional networks in oesophageal adenocarcinoma Gut. 2020 04; 69(4):630-640. . View in PubMed
  • Disease-specific alteration of karyopherin-a subtype establishes feed-forward oncogenic signaling in head and neck squamous cell carcinoma Oncogene. 2020 Mar; 39(10):2212-2223. . View in PubMed
  • dbInDel: a database of enhancer-associated insertion and deletion variants by analysis of H3K27ac ChIP-Seq Bioinformatics. 2020 Mar 01; 36(5):1649-1651. . View in PubMed
  • Identification of key genes by integrating DNA methylation and next-generation transcriptome sequencing for esophageal squamous cell carcinoma Aging (Albany NY). 2020 Jan 21; 12(2):1332-1365. . View in PubMed
  • RNA-Binding Protein ZFP36L1 Suppresses Hypoxia and Cell-Cycle Signaling Cancer Res. 2020 01 15; 80(2):219-233. . View in PubMed
  • EuRBPDB: a comprehensive resource for annotation, functional and oncological investigation of eukaryotic RNA binding proteins (RBPs) Nucleic Acids Res. 2020 Jan 08; 48(D1):D307-D313. . View in PubMed
  • Cancer Res. 2019 Dec 01; 79(23):5930-5943. . View in PubMed
  • Biological Significance of Tumor Heterogeneity in Esophageal Squamous Cell Carcinoma Cancers (Basel). 2019 Aug 12; 11(8). . View in PubMed
  • SOX7 regulates MAPK/ERK-BIM mediated apoptosis in cancer cells Oncogene. 2019 08; 38(34):6196-6210. . View in PubMed
  • SEanalysis: a web tool for super-enhancer associated regulatory analysis Nucleic Acids Res. 2019 Jul 02; 47(W1):W248-W255. . View in PubMed
  • ELMER v2: an R/Bioconductor package to reconstruct gene regulatory networks from DNA methylation and transcriptome profiles. Bioinformatics. 2019 Jun 01; 35(11):1974-1977. . View in PubMed
  • LNK suppresses interferon signaling in melanoma Nat Commun. 2019 05 20; 10(1):2230. . View in PubMed
  • Mutational and transcriptomic profiling of acute leukemia of ambiguous lineage reveals obscure but clinically important lineage bias Haematologica. 2019 May; 104(5):e200-e203. . View in PubMed
  • Clonality and clonal evolution analysis of paediatric ALL based on B-cell receptor/T-cell receptor rearrangement Br J Haematol. 2019 Mar; 184(5):829-833. . View in PubMed
  • Super-enhancer-associated MEIS1 promotes transcriptional dysregulation in Ewing sarcoma in co-operation with EWS-FLI1 Nucleic Acids Res. 2019 02 20; 47(3):1255-1267. . View in PubMed
  • Super-Enhancer-Associated Long Noncoding RNA HCCL5 Is Activated by ZEB1 and Promotes the Malignancy of Hepatocellular Carcinoma Cancer Res. 2019 Feb 01; 79(3):572-584. . View in PubMed
  • Modeling Wnt signaling by CRISPR-Cas9 genome editing recapitulates neoplasia in human Barrett epithelial organoids Cancer Lett. 2018 Nov 01; 436:109-118. . View in PubMed
  • Maftools: efficient and comprehensive analysis of somatic variants in cancer Genome Res. 2018 Nov; 28(11):1747-1756. . View in PubMed
  • ARID1A and CEBPa cooperatively inhibit UCA1 transcription in breast cancer Oncogene. 2018 11; 37(45):5939-5951. . View in PubMed
  • Identification of distinct mutational patterns and new driver genes in oesophageal squamous cell carcinomas and adenocarcinomas Gut. 2018 Oct; 67(10):1769-1779. . View in PubMed
  • Profiling the B/T cell receptor repertoire of lymphocyte derived cell lines BMC Cancer. 2018 Oct 01; 18(1):940. . View in PubMed
  • Co-activation of super-enhancer-driven CCAT1 by TP63 and SOX2 promotes squamous cancer progression Nat Commun. 2018 09 06; 9(1):3619. . View in PubMed
  • The c-MYC-BMI1 axis is essential for SETDB1-mediated breast tumourigenesis J Pathol. 2018 09; 246(1):89-102. . View in PubMed
  • Cell Mol Life Sci. 2018 Jul; 75(14):2643-2661. . View in PubMed
  • Super-Enhancer-Driven Long Non-Coding RNA LINC01503, Regulated by TP63, Is Over-Expressed and Oncogenic in Squamous Cell CarcinomaGastroenterology. 2018 06; 154(8):2137-2151. e1. . View in PubMed
  • Degalactotigonin, a Natural Compound from Solanum nigrum L, Inhibits Growth and Metastasis of Osteosarcoma through GSK3ß Inactivation-Mediated Repression of the Hedgehog/Gli1 Pathway. Clin Cancer Res. 2018 Jan 01; 24(1):130-144. . View in PubMed
  • Genomic and Epigenomic Aberrations in Esophageal Squamous Cell Carcinoma and Implications for Patients Gastroenterology. 2018 01; 154(2):374-389. . View in PubMed
  • ROCK-dependent phosphorylation of NUP62 regulates p63 nuclear transport and squamous cell carcinoma proliferation EMBO Rep. 2018 Jan; 19(1):73-88. . View in PubMed
  • Non-malignant epithelial cells preferentially proliferate from nasopharyngeal carcinoma biopsy cultured under conditionally reprogrammed conditions Sci Rep. 2017 Dec 12; 7(1):17359. . View in PubMed
  • Super-Enhancers Promote Transcriptional Dysregulation in Nasopharyngeal Carcinoma Cancer Res. 2017 Dec 01; 77(23):6614-6626. . View in PubMed
  • Circadian clock cryptochrome proteins regulate autoimmunity Proc Natl Acad Sci U S A. 2017 11 21; 114(47):12548-12553. . View in PubMed
  • Genomic lesions drive the metastasis of esophageal squamous cell carcinoma J Thorac Dis. 2017 Oct; 9(10):3523-3524. . View in PubMed
  • Valosin-Containing Protein/p97 as a Novel Therapeutic Target in Acute Lymphoblastic Leukemia Neoplasia. 2017 Oct; 19(10):750-761. . View in PubMed
  • Correction: Inhibition of IRE1a-driven pro-survival pathways is a promising therapeutic application in acute myeloid leukemia Oncotarget. 2017 Sep 08; 8(38):64651. . View in PubMed
  • Targeting super-enhancer-associated oncogenes in oesophageal squamous cell carcinoma Gut. 2017 Aug; 66(8):1358-1368. . View in PubMed
  • Identification of a Novel SYK/c-MYC/MALAT1 Signaling Pathway and Its Potential Therapeutic Value in Ewing Sarcoma Clin Cancer Res. 2017 Aug 01; 23(15):4376-4387. . View in PubMed
  • Genomic and Epigenomic Heterogeneity of Hepatocellular Carcinoma Cancer Res. 2017 May 01; 77(9):2255-2265. . View in PubMed
  • BCL6 promotes glioma and serves as a therapeutic target Proc Natl Acad Sci U S A. 2017 04 11; 114(15):3981-3986. . View in PubMed
  • Mutational profiling of acute lymphoblastic leukemia with testicular relapse J Hematol Oncol. 2017 Mar 02; 10(1):65. . View in PubMed
  • Mutational Landscape of Pediatric Acute Lymphoblastic Leukemia Cancer Res. 2017 Jan 15; 77(2):390-400. . View in PubMed
  • Spatial intratumoral heterogeneity and temporal clonal evolution in esophageal squamous cell carcinoma Nat Genet. 2016 Dec; 48(12):1500-1507. . View in PubMed
  • CRM1 Inhibition Promotes Cytotoxicity in Ewing Sarcoma Cells by Repressing EWS-FLI1-Dependent IGF-1 Signaling Cancer Res. 2016 05 01; 76(9):2687-97. . View in PubMed
  • Inhibition of IRE1a-driven pro-survival pathways is a promising therapeutic application in acute myeloid leukemia Oncotarget. 2016 Apr 05; 7(14):18736-49. . View in PubMed
  • Profiling of somatic mutations in acute myeloid leukemia with FLT3-ITD at diagnosis and relapse Blood. 2015 Nov 26; 126(22):2491-501. . View in PubMed
  • Genomic and Functional Analysis of the E3 Ligase PARK2 in Glioma Cancer Res. 2015 May 01; 75(9):1815-27. . View in PubMed
  • SETDB1 accelerates tumourigenesis by regulating the WNT signalling pathway J Pathol. 2015 Mar; 235(4):559-70. . View in PubMed
  • The genomic landscape of nasopharyngeal carcinoma Nat Genet. 2014 Aug; 46(8):866-71. . View in PubMed
  • Genomic and molecular characterization of esophageal squamous cell carcinoma Nat Genet. 2014 May; 46(5):467-73. . View in PubMed
  • An emerging role of PARK2 in cancer J Mol Med (Berl). 2014 Jan; 92(1):31-42. . View in PubMed
  • Targeting genetic lesions in esophageal cancer Cell Cycle. 2014; 13(13):2013-4. . View in PubMed
  • Consistent and differential genetic aberrations between esophageal dysplasia and squamous cell carcinoma detected by array comparative genomic hybridization Clin Cancer Res. 2013 Nov 01; 19(21):5867-78. . View in PubMed
  • Genomic and functional characterizations of phosphodiesterase subtype 4D in human cancers Proc Natl Acad Sci U S A. 2013 Apr 09; 110(15):6109-14. . View in PubMed
  • Adaptor protein Lnk binds to and inhibits normal and leukemic FLT3 Blood. 2012 Oct 18; 120(16):3310-7. . View in PubMed
  • Reciprocal activation between PLK1 and Stat3 contributes to survival and proliferation of esophageal cancer cellsGastroenterology. 2012 Mar; 142(3):521-530. e3. . View in PubMed
  • Clin Cancer Res. 2011 Jul 01; 17(13):4285-95. . View in PubMed
  • Genomic alterations with impact on survival in esophageal squamous cell carcinoma identified by array comparative genomic hybridization Genes Chromosomes Cancer. 2011 Jul; 50(7):518-26. . View in PubMed
  • Atypical protein kinase C? -SKP2-AKT pathway. Mol Cancer Res. 2011 Apr; 9(4):390-402.. View in PubMed
  • [Expression of cell cycle related proteins cyclin D1, p53 and p21WAF1/Cip1 in esophageal squamous cell carcinoma] Yi Chuan. 2010 May; 32(5):455-60. . View in PubMed
  • Suppression of anoikis by SKP2 amplification and overexpression promotes metastasis of esophageal squamous cell carcinoma Mol Cancer Res. 2009 Jan; 7(1):12-22. . View in PubMed

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