• Benpeng Miao, Shuhua Fu, Cheng Lyu, Paul Gontarz, Ting Wang, Bo Zhang. Tissue-specific usage of transposable element-derived promoters in mouse development. Genome Biology. 21, 255 (2020).
  • Troutwine BR, Gontarz P, Konjikusic MJ, Minowa R, Monstad-Rios A, Sepich DS, Kwon RY, Solnica-Krezel L, Gray RS. The Reissner Fiber Is Highly Dynamic In Vivo and Controls Morphogenesis of the Spine. Curr Biol. 2020 
  • Bohnert KL, Hastings MK, Sinacore DR, Johnson JE, Klein SE, McCormick JJ, Gontarz P, Meyer GA. Skeletal Muscle Regeneration in Advanced Diabetic Peripheral Neuropathy. Foot Ankle Int. 2020
  • Kitra Cates, Matthew J McCoy, Ji-Sun Kwon, Yangjian Liu, Daniel G Abernathy, Bo Zhang, Shaopeng Liu, Paul Gontarz, Woo Kyung Kim, Shawei Chen, Wenjun Kong, Joshua N Ho, Kyle F Burbach, Harrison W Gabel, Samantha A Morris, Andrew S Yoo. Deconstructing Stepwise Fate Conversion of Human Fibroblasts to Neurons by MicroRNAs. Cell Stem Cell,2020
  • Catherine E Lipovsky, Jesus Jimenez, Qiusha Guo, Gang Li, Tiankai Yin, Stephanie C Hicks, Somya Bhatnagar, Kentaro Takahashi, David M Zhang, Brittany D Brumback, Uri Goldsztejn, Rangarajan D Nadadur, Carlos Perez-Cervantez, Ivan P Moskowitz, Shaopeng Liu, Bo Zhang, Stacey L Rentschler. Chamber-specific transcriptional responses in atrial fibrillationJCI insight. 2020;5(18):e135319.
  • Christopher J Chermside‐Scabbo, Taylor L Harris, Michael D Brodt, Ingrid Braenne, Bo Zhang, Charles R Farber, Matthew J Silva. Old Mice Have Less Transcriptional Activation But Similar Periosteal Cell Proliferation Compared to Young‐Adult Mice in Response to in vivo Mechanical Loading. Journal of Bone and Mineral Research. 2020/9
  • F Qu, IC Palte, PM Gontarz, B Zhang, F Guilak. Transcriptomic analysis of bone and fibrous tissue morphogenesis during digit tip regeneration in the adult mouseThe FASEB Journal .34 (7), 9740-9754
  • Xiaoying Chen, Bo Zhang, Ting Wang, Azad Bonni, Guoyan Zhao. Robust principal component analysis for accurate outlier sample detection in RNA-Seq data. BMC Bioinformatics .volume 21, Article number: 269 (2020)
  • Paul Gontarz, Shuhua Fu, Xiaoyun Xing, Shaopeng Liu, Benpeng Miao, Viktoriia Bazylianska, Akhil Sharma, Pamela Madden, Kitra Cates, Andrew Yoo, Anna Moszczynska, Ting Wang, Bo Zhang. Comparison of differential accessibility analysis strategies for ATAC-seq data. Scientific Reports .volume 10, Article number: 10150 (2020)
  • Emily MA Lewis, Savita Sankar, Caili Tong, Ethan Patterson, Laura E Waller, Paul Gontarz, Bo Zhang, David M Ornitz, Kristen L Kroll. Geminin is required for Hox gene regulation to pattern the developing limb. Developmental Biology. Volume 464, Issue 1, 1 August 2020, Pages 11-23
  • Nguyen PT Huynh, Catherine C Gloss, Jeremiah Lorentz, Ruhang Tang, Jonathan M Brunger, Audrey McAlinden, Bo Zhang, Farshid Guilak. Long non-coding RNA GRASLND enhances chondrogenesis via suppression of the interferon type II signaling pathway.  eLife, 9, e49558
  • Andrew S Hagan, Bo Zhang, David M Ornitz. Identification of a FGF18-expressing alveolar myofibroblast that is developmentally cleared during alveologenesisDevelopment.  2020 147: dev181032 doi: 10.1242/dev.181032
  • Dong, C., Beltcheva, M., Gontarz. P., Zhang, B., Popli, P., Fischer, L.A., Khan, S.A., Park, K., Yoon, E., Xing, X., Kommagani, R., Wang, T., Solnica-Krezel, L. and T.W. Theunissen (2020). Derivation of trophoblast stem cells from naive human pluripotent stem cells. eLife, 9, e52504.


  • Emily MA Lewis, Kesavan Meganathan, Dustin Baldridge, Paul Gontarz, Bo Zhang, Azad Bonni, John N Constantino, Kristen L Kroll. Cellular and molecular characterization of multiplex autism in human induced pluripotent stem cell-derived neuronsMolecular Autism.volume 10, Article number: 51 (2019)
  • Brandon A Coates, Jennifer A McKenzie, Evan G Buettmann, Xiaochen Liu, Paul M Gontarz, Bo Zhang, Matthew J Silva.Transcriptional profiling of intramembranous and endochondral ossification after fracture in miceBone.Volume 127, October 2019, Pages 577-591 
  • Davis JL, Cox L, Shao C, Lyu C et al. Conditional Activation of NF-κB Inducing Kinase (NIK) in the Osteolineage Enhances Both Basal and Loading-Induced Bone Formation. J Bone Miner Res 2019 Nov;34(11):2087-2100.
  • Cates Mallaney, Elizabeth L Ostrander, Hamza Celik, Ashley C Kramer, Andrew Martens, Alok Kothari, Won Kyun Koh, Emily Haussler, Naoki Iwamori, Paul Gontarz, Bo Zhang, Grant A Challen. Kdm6b regulates context-dependent hematopoietic stem cell self-renewal and leukemogenesisLeukemia. 2019
  • C Ma, P Madden, P Gontarz, T Wang, B Zhang. FeatSNP: an interactive database for brain-specific epigenetic annotation of human SNPsFront. Genet. 2019.  10:262. doi: 10.3389/fgene.2019.00262




  • JA Cox, B Zhang, HM Pope, MM Voigt. PloS one 11 (2), e0148726. Transcriptome Analysis of Chemically-Induced Sensory Neuron Ablation in Zebrafish
  • MF Rai, LJ Sandell, B Zhang, RW Wright, RH Brophy. PloS one 11 (5), e0155373. RNA microarray analysis of macroscopically normal articular cartilage from knees undergoing partial medial meniscectomy: potential prediction of the risk for developing osteoarthritis
  • CJ Huh, B Zhang, MB Victor, S Dahiya, LFZ Batista, S Horvath, AS Yoo. eLife 5, e18648. Maintenance of age in human neurons generated by microRNA-based neuronal conversion of fibroblasts
  • S Sankar, D Yellajoshyula, B Zhang, B Teets, N Rockweiler, KL Kroll. Scientific Reports 6. Gene regulatory networks in neural cell fate acquisition from genome-wide chromatin association of Geminin and Zic1