Christina Zheng

Research output

Research output per year 2003 2003 2014 2018 2022

• 21 Article
• 2 Chapter
• 2 Review article
• 1 Comment/debate

Research output per year

Research output per year

Search results

• 2022

  An omic and multidimensional spatial atlas from serial biopsies of an evolving metastatic breast cancer

  Johnson, B. E., Creason, A. L., Stommel, J. M., Keck, J. M., Parmar, S., Betts, C. B., Blucher, A., Boniface, C., Bucher, E., Burlingame, E., Camp, T., Chin, K., Eng, J., Estabrook, J., Feiler, H. S., Heskett, M. B., Hu, Z., Kolodzie, A., Kong, B. L., Labrie, M., & 26 othersLee, J., Leyshock, P., Mitri, S., Patterson, J., Riesterer, J. L., Sivagnanam, S., Somers, J., Sudar, D., Thibault, G., Weeder, B. R., Zheng, C., Nan, X., Thompson, R. F., Heiser, L. M., Spellman, P. T., Thomas, G., Demir, E., Chang, Y. H., Coussens, L. M., Guimaraes, A. R., Corless, C., Goecks, J., Bergan, R., Mitri, Z., Mills, G. B. & Gray, J. W., Feb 15 2022, In: Cell Reports Medicine. 3, 2, 100525.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Atlases 100%
  • Breast Neoplasms 59%
  • Resistance 58%
  • Biopsy 56%
  • Heterogeneity 42%
  16 Scopus citations

• Human lung-resident mucosal-associated invariant T cells are abundant, express antimicrobial proteins, and are cytokine responsive

  Meermeier, E. W., Zheng, C. L., Tran, J. G., Soma, S., Worley, A. H., Weiss, D. I., Modlin, R. L., Swarbrick, G., Karamooz, E., Khuzwayo, S., Wong, E. B., Gold, M. C. & Lewinsohn, D. M., Dec 2022, In: Communications Biology. 5, 1, 942.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Mucosal-Associated Invariant T Cells 100%
  • antimicrobial proteins 87%
  • cytokines 56%
  • T-lymphocytes 54%
  • RNA Sequencing 49%
  9 Scopus citations
• 2021

  Effect of chronic ethanol consumption in rhesus macaques on the nucleus accumbens core transcriptome

  Walter, N., Cervera-Juanes, R., Zheng, C., Darakjian, P., Lockwood, D., Cuzon-Carlson, V., Ray, K., Fei, S., Conrad, D., Searles, R., Grant, K. & Hitzemann, R., Sep 2021, In: Addiction Biology. 26, 5, e13021.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Nucleus Accumbens 100%
  • Macaca mulatta 96%
  • Transcriptome 84%
  • Ethanol 77%
  • Genes 37%
  3 Scopus citations
• 2020

  Chronic Voluntary Ethanol Drinking in Cynomolgus Macaques Elicits Gene Expression Changes in Prefrontal Cortical Area 46

  Walter, N. A. R., Zheng, C. L., Searles, R. P., McWeeney, S. K., Grant, K. A. & Hitzemann, R., Feb 1 2020, In: Alcoholism: Clinical and Experimental Research. 44, 2, p. 470-478 9 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • MicroRNA 100%
  • Macaca 90%
  • Primates 75%
  • Drinking 74%
  • Ethanol 68%
  4 Scopus citations

• Functional genomic analysis identifies drug targetable pathways in invasive and metastatic cutaneous squamous cell carcinoma

  Anderson, A. N., McClanahan, D., Jacobs, J., Jeng, S., Vigoda, M., Blucher, A. S., Zheng, C., Yoo, Y. J., Hale, C., Ouyang, X., Clayburgh, D., Andersen, P., Tyner, J. W., Bar, A., Lucero, O. M., Leitenberger, J. J., McWeeney, S. K. & Kulesz-Martin, M., Aug 2020, In: Cold Spring Harbor Molecular Case Studies. 6, 4, a005439.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Ephrins 100%
  • Biological Marker 92%
  • Squamous Cell Carcinoma 85%
  • Drug Target 58%
  • Skin 56%
  6 Scopus citations
• 2019

  Illuminating biological pathways for drug targeting in head and neck squamous cell carcinoma

  Choonoo, G., Blucher, A. S., Higgins, S., Boardman, M., Jeng, S., Zheng, C., Jacobs, J., Anderson, A., Chamberlin, S., Evans, N., Vigoda, M., Cordier, B., Tyner, J. W., Kulesz-Martin, M., McWeeney, S. K. & Laderas, T., Oct 1 2019, In: PloS one. 14, 10, e0223639.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • squamous cell carcinoma 100%
  • Squamous Cell Carcinoma of Head and Neck 79%
  • Drug Delivery Systems 70%
  • neck 68%
  • neoplasms 54%
  3 Scopus citations
• 2018

  Cross-species molecular dissection across alcohol behavioral domains

  Farris, S. P., Riley, B. P., Williams, R. W., Mulligan, M. K., Miles, M. F., Lopez, M. F., Hitzemann, R., Iancu, O. D., Colville, A., Walter, N. A. R., Darakjian, P., Oberbeck, D. L., Daunais, J. B., Zheng, C. L., Searles, R. P., McWeeney, S. K., Grant, K. A. & Mayfield, R. D., Nov 2018, In: Alcohol. 72, p. 19-31 13 p.

  Research output: Contribution to journal › Review article › peer-review

  Open Access

  • Alcoholism 100%
  • Dissection 94%
  • alcohol 83%
  • Alcohols 82%
  • Disorder 75%
  10 Scopus citations

• Gender-Specific Effects of Selection for Drinking in the Dark on the Network Roles of Coding and Noncoding RNAs

  Iancu, O. D., Colville, A. M., Wilmot, B., Searles, R., Darakjian, P., Zheng, C., McWeeney, S., Kawane, S., Crabbe, J. C., Metten, P., Oberbeck, D. & Hitzemann, R., Aug 2018, In: Alcoholism: Clinical and Experimental Research. 42, 8, p. 1454-1465 12 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Untranslated RNA 100%
  • Drinking 80%
  • Gene Expression 53%
  • Microarrays 47%
  • Transcriptome 40%
  11 Scopus citations

• Genes, behavior, and next-generation sequencing: The first 10 years

  Hitzemann, R., Darakjian, P., Oberbeck, D., Zheng, C., Walter, N., Iancu, O. D., Searles, R., Harrington, C. A. & McWeeney, S., Jan 1 2018, Molecular-Genetic and Statistical Techniques for Behavioral and Neural Research. Elsevier, p. 289-308 20 p.

  Research output: Chapter in Book/Report/Conference proceeding › Chapter

  • High-Throughput Nucleotide Sequencing 100%
  • RNA-Seq 81%
  • Brain 51%
  • Transcriptome 47%
  • Genes 41%

• Induction of anaplastic lymphoma kinase (ALK) as a novel mechanism of EGFR inhibitor resistance in head and neck squamous cell carcinoma patient-derived models

  Ouyang, X., Barling, A., Lesch, A., Tyner, J. W., Choonoo, G., Zheng, C., Jeng, S., West, T. M., Clayburgh, D., Courtneidge, S. A., McWeeney, S. K. & Kulesz-Martin, M., Oct 3 2018, In: Cancer Biology and Therapy. 19, 10, p. 921-933 13 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Anaplastic Lymphoma Kinase 100%
  • Squamous Cell Carcinoma of Head and Neck 83%
  • ErbB Receptors 71%
  • Gefitinib 23%
  • AP26113 11%
  10 Scopus citations

• On the relationships in rhesus macaques between chronic ethanol consumption and the brain transcriptome

  Iancu, O. D., Colville, A., Walter, N. A. R., Darakjian, P., Oberbeck, D. L., Daunais, J. B., Zheng, C. L., Searles, R. P., McWeeney, S. K., Grant, K. A. & Hitzemann, R., Jan 2018, In: Addiction Biology. 23, 1, p. 196-205 10 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Macaca mulatta 100%
  • Transcriptome 87%
  • Central Amygdaloid Nucleus 84%
  • Ethanol 80%
  • Self Administration 75%
  24 Scopus citations

• Regional differences and similarities in the brain transcriptome for mice selected for ethanol preference from HS-CC founders

  Colville, A. M., Iancu, O. D., Lockwood, D. R., Darakjian, P., McWeeney, S. K., Searles, R., Zheng, C. & Hitzemann, R., Aug 28 2018, In: Frontiers in Genetics. 9, AUG, 300.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Transcriptome 100%
  • Ethanol 91%
  • Central Amygdaloid Nucleus 72%
  • Brain 53%
  • Genes 43%
  13 Scopus citations
• 2017

  Effects of selection for ethanol preference on gene expression in the nucleus accumbens of HS-CC mice

  Colville, A. M., Iancu, O. D., Oberbeck, D. L., Darakjian, P., Zheng, C. L., Walter, N. A. R., Harrington, C. A., Searles, R. P., McWeeney, S. & Hitzemann, R. J., Apr 1 2017, In: Genes, Brain and Behavior. 16, 4, p. 462-471 10 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Nucleus Accumbens 100%
  • Ethanol 77%
  • Gene Expression 55%
  • Gene Regulatory Networks 50%
  • ras Proteins 29%
  21 Scopus citations
• 2015

  Splicing landscape of the eight collaborative cross founder strains

  Zheng, C. L., Wilmot, B., Walter, N. A. R., Oberbeck, D., Kawane, S., Searles, R. P., McWeeney, S. K. & Hitzemann, R., Feb 5 2015, In: BMC Genomics. 16, 1, 52.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Multifactorial Inheritance 100%
  • Transcriptome 74%
  • Exons 67%
  • Inbred Strains Mice 50%
  • Population 47%
  8 Scopus citations

• Use of semantic workflows to enhance transparency and reproducibility in clinical omics

  Zheng, C. L., Ratnakar, V., Gil, Y. & McWeeney, S. K., Jul 25 2015, In: Genome Medicine. 7, 1, 73.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Workflow 100%
  • Semantics 94%
  • Patient Safety 20%
  • Galaxies 11%
  • High-Throughput Nucleotide Sequencing 6%
  17 Scopus citations
• 2014

  Analysis Considerations for Utilizing RNA-Seq to Characterize the Brain Transcriptome

  Zheng, C. L., Kawane, S., Bottomly, D. & Wilmot, B., 2014, International Review of Neurobiology. Academic Press Inc., p. 21-54 34 p. (International Review of Neurobiology; vol. 116).

  Research output: Chapter in Book/Report/Conference proceeding › Chapter

  • RNA Splicing 100%
  • RNA-Seq 86%
  • Untranslated RNA 84%
  • Alternative Splicing 80%
  • Transcriptome 68%
  3 Scopus citations

• The genetics of gene expression in complex mouse crosses as a tool to study the molecular underpinnings of behavior traits

  Hitzemann, R., Bottomly, D., Iancu, O., Buck, K., Wilmot, B., Mooney, M., Searles, R., Zheng, C., Belknap, J., Crabbe, J. & McWeeney, S., Feb 2014, In: Mammalian Genome. 25, 1-2, p. 12-22 11 p.

  Research output: Contribution to journal › Review article › peer-review

  Open Access

  • Gene Expression 100%
  8 Scopus citations

• Transcription Restores DNA Repair to Heterochromatin, Determining Regional Mutation Rates in Cancer Genomes

  Zheng, C. L., Wang, N. J., Chung, J., Moslehi, H., Sanborn, J. Z., Hur, J. S., Collisson, E. A., Vemula, S. S., Naujokas, A., Chiotti, K. E., Cheng, J. B., Fassihi, H., Blumberg, A. J., Bailey, C. V., Fudem, G. M., Mihm, F. G., Cunningham, B. B., Neuhaus, I. M., Liao, W., Oh, D. H., & 10 othersCleaver, J. E., LeBoit, P. E., Costello, J. F., Lehmann, A. R., Gray, J. W., Spellman, P. T., Arron, S. T., Huh, N., Purdom, E. & Cho, R. J., Nov 20 2014, In: Cell Reports. 9, 4, p. 1228-1234 7 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Heterochromatin 100%
  • Mutation Rate 85%
  • DNA Repair 74%
  • Mutation 68%
  • Genome 54%
  83 Scopus citations
• 2012

  Whole transcriptome RNA-seq analysis of breast cancer recurrence risk using formalin-fixed paraffin-embedded tumor tissue

  Sinicropi, D., Qu, K., Collin, F., Crager, M., Liu, M. L., Pelham, R. J., Pho, M., de Rossi, A., Jeong, J., Scott, A., Ambannavar, R., Zheng, C., Mena, R., Esteban, J., Stephans, J., Morlan, J. & Baker, J., Jul 13 2012, In: PloS one. 7, 7, e40092.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • RNA-Seq 100%
  • Formaldehyde 80%
  • Paraffin 80%
  • Transcriptome 78%
  • RNA 59%
  63 Scopus citations
• 2006

  Two-dimensional transcriptome profiling: Identification of messenger RNA isoform signatures in prostate cancer from archived paraffin-embedded cancer specimens

  Li, H. R., Wang-Rodriguez, J., Nair, T. M., Yeakley, J. M., Kwon, Y. S., Bibikova, M., Zheng, C., Zhou, L., Zhang, K., Downs, T., Fu, X. D. & Fan, J. B., Apr 15 2006, In: Cancer Research. 66, 8, p. 4079-4088 10 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Gene Expression Profiling 75%
  • Paraffin 67%
  • Prostatic Neoplasms 57%
  • Neoplasms 23%
  • Laser Capture Microdissection 20%
  69 Scopus citations
• 2005

  Characteristics and regulatory elements defining constitutive splicing and different modes of alternative splicing in human and mouse

  Zheng, C. L., Xiang-Dong, F. U. & Gribskov, M., Dec 2005, In: RNA. 11, 12, p. 1777-1787 11 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Alternative Splicing 100%
  • Exons 76%
  • Reading Frames 24%
  • RNA Splice Sites 23%
  • Maintenance 12%
  59 Scopus citations

• MAASE: An alternative splicing database designed for supporting splicing microarray applications

  Zheng, C. L., Kwon, Y. S., Hai-Ri, L. I., Zhang, K., Coutinho-Mansfield, G., Yang, C., Murlidharan Nair, T., Gribskov, M. & Xiang-Dong, F. U., Dec 2005, In: RNA. 11, 12, p. 1767-1776 10 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Alternative Splicing 100%
  • Databases 55%
  • Expressed Sequence Tags 19%
  • Manuals 17%
  • Eukaryota 15%
  25 Scopus citations
• 2004

  A database designed to computationally aid an experimental approach to alternative splicing.

  Zheng, C. L., Nair, T. M., Gribskov, M., Kwon, Y. S., Li, H. R. & Fu, X. D., 2004, In: Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing. p. 78-88 11 p.

  Research output: Contribution to journal › Article › peer-review

  • Alternative Splicing 100%
  • Microarrays 41%
  • Annotation 38%
  • Databases 33%
  • Microarray 17%
  15 Scopus citations
• 2003

  MODULEWRITER: A program for automatic generation of database interfaces

  Zheng, C. L., Fana, F., Udupi, P. V. & Gribskov, M., May 2003, In: Computational Biology and Chemistry. 27, 2, p. 135-139 5 p.

  Research output: Contribution to journal › Article › peer-review

  • Programming 100%
  • Table 97%
  • Retrieval 67%
  • Databases 64%
  • Updating 58%

• On selecting features from splice junctions: an analysis using information theoretic and machine learning approaches.

  Zheng, C. L., de Sa, V. R., Gribskov, M. & Nair, T. M., 2003, In: Genome informatics. International Conference on Genome Informatics. 14, p. 73-83 11 p.

  Research output: Contribution to journal › Article › peer-review

  • Machine Learning 100%
  • Random Allocation 86%
  • Genome 30%
  5 Scopus citations

• Rival penalized competitive learning (RPCL): A topology-determining algorithm for analyzing gene expression data

  Nair, T. M., Zheng, C. L., Fink, J. L., Stuart, R. O. & Gribskov, M., Dec 2003, In: Computational Biology and Chemistry. 27, 6, p. 565-574 10 p.

  Research output: Contribution to journal › Comment/debate › peer-review

  • Competitive Learning 100%
  • Gene Expression Data 74%
  • Gene 55%
  • Cluster Analysis 42%
  • Learning 41%
  21 Scopus citations