Publications

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

  Cell Reports Medicine Feb 15, 2022
  1. Brett E. Johnson
  2. Allison L. Creason
  3. Jayne M. Stommel
  4. Jamie M. Keck
  5. Swapnil Parmar
  6. Courtney B. Betts
  7. Aurora Blucher
  8. Christopher Boniface
  9. Elmar Bucher
  10. Erik Burlingame
  11. Todd Camp
  12. Koei Chin
  13. Jennifer Eng
  14. Joseph Estabrook
  15. Heidi S. Feiler
  16. Michael B. Heskett
  17. Zhi Hu
  18. Annette Kolodzie
  19. Ben L. Kong
  20. Marilyne Labrie
  21. Jinho Lee
  22. Patrick Leyshock
  23. Souraya Mitri
  24. Janice Patterson
  25. Jessica L. Riesterer
  26. Shamilene Sivagnanam
  27. Julia Somers
  28. Damir Sudar
  29. Guillaume Thibault
  30. Benjamin R. Weeder
  31. Christina Zheng
  32. Xiaolin Nan
  33. Reid F. Thompson
  34. Laura M. Heiser
  35. Paul T. Spellman
  36. George Thomas
  37. Emek Demir
  38. Young Hwan Chang
  39. Lisa M. Coussens
  40. Alexander R. Guimaraes
  41. Christopher Corless
  42. Jeremy Goecks
  43. Raymond Bergan
  44. Zahi Mitri
  45. Gordon B. Mills
  46. Joe W. Gray

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

  Communications Biology Dec 2022
  1. Erin W. Meermeier
  2. Christina L. Zheng
  3. Jessica G. Tran
  4. Shogo Soma
  5. Aneta H. Worley
  6. David I. Weiss
  7. Robert L. Modlin
  8. Gwendolyn Swarbrick
  9. Elham Karamooz
  10. Sharon Khuzwayo
  11. Emily B. Wong
  12. Marielle C. Gold
  13. David M. Lewinsohn

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

  Addiction Biology 2021
  1. Nicole Walter
  2. Rita Cervera-Juanes
  3. Christina Zheng
  4. Priscila Darakjian
  5. Denesa Lockwood
  6. Verginia Cuzon-Carlson
  7. Karina Ray
  8. Suzanne Fei
  9. Don Conrad
  10. Robert Searles
  11. Kathleen Grant
  12. Robert Hitzemann

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

  Alcoholism: Clinical and Experimental Research Feb 1, 2020
  1. Nicole A.R. Walter
  2. Christina L. Zheng
  3. Robert P. Searles
  4. Shannon K. McWeeney
  5. Kathleen A. Grant
  6. Robert Hitzemann

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

  Cold Spring Harbor Molecular Case Studies Aug 2020
  1. Ashley N. Anderson
  2. Danielle McClanahan
  3. James Jacobs
  4. Sophia Jeng
  5. Myles Vigoda
  6. Aurora S. Blucher
  7. Christina Zheng
  8. Yeon Jung Yoo
  9. Carolyn Hale
  10. Xiaoming Ouyang
  11. Daniel Clayburgh
  12. Peter Andersen
  13. Jeffrey W. Tyner
  14. Anna Bar
  15. Olivia M. Lucero
  16. Justin J. Leitenberger
  17. Shannon K. McWeeney
  18. Molly Kulesz-Martin

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

  PloS one Oct 1, 2019
  1. Gabrielle Choonoo
  2. Aurora S. Blucher
  3. Samuel Higgins
  4. Mitzi Boardman
  5. Sophia Jeng
  6. Christina Zheng
  7. James Jacobs
  8. Ashley Anderson
  9. Steven Chamberlin
  10. Nathaniel Evans
  11. Myles Vigoda
  12. Benjamin Cordier
  13. Jeffrey W. Tyner
  14. Molly Kulesz-Martin
  15. Shannon K. McWeeney
  16. Ted Laderas

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

  Alcoholism: Clinical and Experimental Research Aug 2018
  1. Ovidiu Dan Iancu
  2. Alex M. Colville
  3. Beth Wilmot
  4. Robert Searles
  5. Priscila Darakjian
  6. Christina Zheng
  7. Shannon McWeeney
  8. Sunita Kawane
  9. John C. Crabbe
  10. Pamela Metten
  11. Denesa Oberbeck
  12. Robert Hitzemann

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

  Cancer Biology and Therapy Oct 3, 2018
  1. Xiaoming Ouyang
  2. Ashley Barling
  3. Aletha Lesch
  4. Jeffrey W. Tyner
  5. Gabrielle Choonoo
  6. Christina Zheng
  7. Sophia Jeng
  8. Toni M. West
  9. Daniel Clayburgh
  10. Sara A. Courtneidge
  11. Shannon K. McWeeney
  12. Molly Kulesz-Martin

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

  Addiction Biology 2017
  1. Ovidiu D. Iancu
  2. Alexander Colville
  3. Nicole A.R. Walter
  4. Priscila Darakjian
  5. Denesa L. Oberbeck
  6. James B. Daunais
  7. Christina L. Zheng
  8. Robert P. Searles
  9. Shannon K. McWeeney
  10. Kathleen A. Grant
  11. Robert Hitzemann

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

  Frontiers in Genetics Aug 28, 2018
  1. Alexandre M. Colville
  2. Ovidiu D. Iancu
  3. Denesa R. Lockwood
  4. Priscila Darakjian
  5. Shannon K. McWeeney
  6. Robert Searles
  7. Christina Zheng
  8. Robert Hitzemann

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

  Genes, Brain and Behavior 2017
  1. A. M. Colville
  2. O. D. Iancu
  3. D. L. Oberbeck
  4. P. Darakjian
  5. C. L. Zheng
  6. N. A.R. Walter
  7. C. A. Harrington
  8. R. P. Searles
  9. S. McWeeney
  10. R. J. Hitzemann

• Splicing landscape of the eight collaborative cross founder strains

  BMC Genomics Feb 5, 2015
  1. Christina L. Zheng
  2. Beth Wilmot
  3. Nicole A.R. Walter
  4. Denesa Oberbeck
  5. Sunita Kawane
  6. Robert P. Searles
  7. Shannon K. McWeeney
  8. Robert Hitzemann

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

  Genome Medicine Jul 25, 2015
  1. Christina L. Zheng
  2. Varun Ratnakar
  3. Yolanda Gil
  4. Shannon K. McWeeney

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

  Cell Reports Nov 20, 2014
  1. Christina L. Zheng
  2. Nicholas J. Wang
  3. Jongsuk Chung
  4. Homayoun Moslehi
  5. J. Zachary Sanborn
  6. Joseph S. Hur
  7. Eric A. Collisson
  8. Swapna S. Vemula
  9. Agne Naujokas
  10. Kami E. Chiotti
  11. Jeffrey B. Cheng
  12. Hiva Fassihi
  13. Andrew J. Blumberg
  14. Celeste V. Bailey
  15. Gary M. Fudem
  16. Frederick G. Mihm
  17. Bari B. Cunningham
  18. Isaac M. Neuhaus
  19. Wilson Liao
  20. Dennis H. Oh
  21. James E. Cleaver
  22. Philip E. LeBoit
  23. Joseph F. Costello
  24. Alan R. Lehmann
  25. Joe W. Gray
  26. Paul T. Spellman
  27. Sarah T. Arron
  28. Nam Huh
  29. Elizabeth Purdom
  30. Raymond J. Cho

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

  PloS one Jul 13, 2012
  1. Dominick Sinicropi
  2. Kunbin Qu
  3. Francois Collin
  4. Michael Crager
  5. Mei Lan Liu
  6. Robert J. Pelham
  7. Mylan Pho
  8. Andrewi de Rossi
  9. Jennie Jeong
  10. Aaron Scott
  11. Ranjana Ambannavar
  12. Christina Zheng
  13. Raul Mena
  14. Jose Esteban
  15. James Stephans
  16. John Morlan
  17. Joffre Baker

• Two-dimensional transcriptome profiling

  Cancer Research Apr 15, 2006
  1. Hai Ri Li
  2. Jessica Wang-Rodriguez
  3. T. Murlidharan Nair
  4. Joanne M. Yeakley
  5. Young Soo Kwon
  6. Marina Bibikova
  7. Christina Zheng
  8. Lixin Zhou
  9. Kui Zhang
  10. Tracy Downs
  11. Xiang Dong Fu
  12. Jian Bing Fan

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

  RNA Dec 2005
  1. Christina L. Zheng
  2. F. U. Xiang-Dong
  3. Michael Gribskov

• MAASE

  RNA Dec 2005
  1. Christina L. Zheng
  2. Young Soo Kwon
  3. L. I. Hai-Ri
  4. Kui Zhang
  5. Gabriela Coutinho-Mansfield
  6. Canzhu Yang
  7. T. Murlidharan Nair
  8. Michael Gribskov
  9. F. U. Xiang-Dong

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

  Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing 2004
  1. C. L. Zheng
  2. T. M. Nair
  3. M. Gribskov
  4. Y. S. Kwon
  5. H. R. Li
  6. X. D. Fu

• MODULEWRITER

  Computational Biology and Chemistry May 2003
  1. Christina L. Zheng
  2. Fariba Fana
  3. Poornaprajna V. Udupi
  4. Michael Gribskov

• On selecting features from splice junctions

  Genome informatics. International Conference on Genome Informatics 2003
  1. Christina L. Zheng
  2. Virginia R. de Sa
  3. Michael Gribskov
  4. T. Murlidharan Nair