Leavens, K.F., Alvarez-Dominguez, J.R., Vo, L.T., Russ, H.A., and Parent, A.V. (2022). Stem cell-based multi-tissue platforms to model human autoimmune diabetes. Molecular Metabolism 66, 101610. PMCID: PMC9587366

Alvarez-Dominguez, J.R.*, and Melton, D.A. (2022). Cell Maturation: Hallmarks, Triggers, and Manipulation. Cell 185, 1. PMID: 34995481

Alvarez-Dominguez, J.R., Winther, S., Hansen, J.B., Lodish, H.F., and Knoll, M. (2021). An adipose lncRAP2 - Igf2bp2 complex enhances adipogenesis and energy expenditure by stabilizing target mRNAs. iScience 25, 103680

Alvarez-Dominguez, J.R.*, Donaghey, J., Rasouli, N., Kenty, J.H.R., Helman, A., Charlton, J., Straubhaar, J.R., Meissner, A., and Melton, D.A. (2020).   Organoid Maturation by Circadian Entrainment. StemJournal 2, 7-13.
     Highlighted in: McNamara, C. (2020). Author Q&A. StemJournal

Rasouli N., Melton, D.A., and Alvarez-Dominguez, J.R.* (2020). Purification of live stem cell-derived islet lineage intermediates. Curr Protoc Stem Cell   Biol, 53, e111. PMID: 32521122

Alvarez-Dominguez, J.R., Donaghey, J., Rasouli N., Kenty, J.H.R., Helman, A., Charlton J., Straubhaar, J.R., Meissner, A., and Melton, D.A. (2019).   Circadian Entrainment Triggers Maturation of Human in vitro Islets. Cell Stem Cell 26, 108-122 e110. PMID: 31839570
   Highlighted in: Andersen, B., Lin, Z. (2020).    Evaluation of Alvarez-Dominguez et al. Cell Stem Cell 26, 1, Stem Cell Podcast, The Stem Cell Group,    Topbiopapers, Society for Research on    Biological Rhythms Outreach.

Xu, D., Xu, S., Kyaw, A.M.M., Lim, Y.C., Chia, S.Y., Chee Siang, D.T., Alvarez-Dominguez, J.R., Chen, P., Leow, M.K., and Sun, L. (2017). RNA Binding   Protein Ybx2 Regulates RNA Stability During Cold-Induced Brown Fat Activation. Diabetes 66, 2987-3000. PMID: 28970281

Alvarez-Dominguez, J.R.*, and Lodish, H.F. (2017). Emerging mechanisms of long noncoding RNA function during normal and malignant   hematopoiesis. Blood 130, 1965-1975. PMID: 28928124

Alvarez-Dominguez, J.R.*, Knoll, M., Gromatzky, A.A., and Lodish, H.F. (2017). The Super-Enhancer-Derived alncRNA-EC7/Bloodlinc Potentiates Red   Blood Cell Development in trans. Cell Reports 19, 2503–2514.
   Highlighted: Espinosa, J.M. (2017). On the Origin of lncRNAs: Missing Link Found.   Trends Genet 33, 660-662. PMID: 28636939

Alvarez-Dominguez, J.R.*, Zhang, X., and Hu, W. (2017). Widespread and dynamic translational control of red blood cell development. Blood 129,   619-629. PMID: 27899360
   Highlighted in: Warren, A.J. (2017). Decoding erythropoiesis. Blood 129, 544-545. DOI: 10.1182/blood-2016-12-755538

Atianand, M.K., Hu, W., Satpathy, A.T., Shen, Y., Ricci, E.P., Alvarez-Dominguez, J.R., Bhatta, A., Schattgen, S.A., McGowan, J.D., Blin, J., et al. (2016). A   Long Noncoding RNA lincRNA-EPS Acts as a Transcriptional Brake to Restrain Inflammation. Cell 165, 1672-1685 PMID: 27315481.
   Highlighted in: Lu, C. (2016). Curb   Your Inflammation. Cell 165, 1553-1555, Science Daily, and Newswise. DOI: 10.1016/j.cell.2016.06.013

Alvarez-Dominguez, J.R.*, and Lodish, H.F. (2016). Unravelling of the role of long noncoding RNAs in haematopoiesis. ISBT Science Series 11, 188-   195.

Russell, M.R., Penikis, A., Oldridge, D.A., Alvarez-Dominguez, J.R., McDaniel, L., Diamond, M., Padovan, O., Raman, P., Li, Y., Wei, J.S., et al. (2015).   CASC15-S Is a Tumor Suppressor lncRNA at the 6p22 Neuroblastoma Susceptibility Locus. Cancer Research 75, 3155-3166.
  PMID: 26100672

Amosova, O., Alvarez-Dominguez, J.R.*, and Fresco, J.R. (2015). Why the DNA self-depurination mechanism operates in HB-beta but not in beta-   globin paralogs HB-delta, HB-varepsilon1, HB-gamma1 and HB-gamma2. Mutation Research 778, 11-17 PMID: 26042536.

Alvarez-Dominguez, J.R., Bai, Z., Xu, D., Yuan, B., Lo, K.A., Yoon, M.J., Lim, Y.C., Knoll, M., Slavov, N., Chen, S., et al. (2015). De Novo Reconstruction of   Adipose Tissue Transcriptomes Reveals Long Non-coding RNA Regulators of Brown Adipocyte Development. Cell Metabolism 21, 764-776.    Highlighted in: Futurity (2015). RNA catalogue reveals key to brown fat. PMID: 25921091

Smith, J., Alvarez-Dominguez, J.R., Kline, N., Huynh, N., Geisler, S., Hu, W., Coller, J., and Baker, K.E. (2014). Translation of small open reading frames   within unannotated RNA transcripts in Saccharomyces cerevisiae. Cell Reports 7, 1858-1866. PMID: 24931603

Alvarez-Dominguez, J.R., Hu, W., Gromatzky, A.A., and Lodish, H.F. (2014). Long noncoding RNAs during normal and malignant hematopoiesis. Int J   Hematol 99, 531-541. PMID: 24609766

Alvarez-Dominguez, J.R., Hu, W., Yuan, B., Shi, J., Park, S.S., Gromatzky, A.A., van Oudenaarden, A., and Lodish, H.F. (2014). Global discovery of   erythroid long noncoding RNAs reveals novel regulators of red cell maturation. Blood 123, 570-581. PMID: 24200680
   Highlighted in: Gallagher, P.G. (2014). Long   noncoding RNAs in erythropoiesis. Blood 123, 465-466. Coetzer, T. (2014). Red Cells, RNA, and Regulation: The Plot Thickens. The Hematologist 11,   10 DOI: 10.1182/blood-2013-10-530683

Caudy, A.A., Guan, Y., Jia, Y., Hansen, C., DeSevo, C., Hayes, A.P., Agee, J., Alvarez-Dominguez, J.R., Arellano, H., Barrett, D., et al. (2013). A new system   for comparative functional genomics of Saccharomyces yeasts. Genetics 195, 275-287. PMID: 23852385

Alvarez-Dominguez, J.R.*, Amosova, O., Fresco, J.R. (2013). Self-catalytic DNA depurination underlies human beta-globin gene mutations at codon 6 that cause anemias and thalassemias. J Biol Chem 288, 11581-11589. PMID: 23457306

Hu, W., Alvarez-Dominguez, J.R., and Lodish, H.F. (2012). Regulation of mammalian cell differentiation by long non-coding RNAs. EMBO Rep 13, 971-   983. PMID: 23070366

Book chapters

Alvarez-Dominguez, J.R., Hu, W., and Lodish, H.F. (2013). Regulation of Eukaryotic Cell Differentiation by Long Noncoding RNAs. Molecular Biology of   Long Non-coding RNAs, 15-67. (New York: Springer Science).

Fresco, J.R., Amosova, O., Wei, P., Alvarez-Dominguez, J.R., Glumcher, D., and Torres, R. (2011). Site-Specific Self-Catalyzed DNA Depurination, the   Basis of a Spontaneous Mutagenic Mechanism of Wide Evolutionary Significance. Evolutionary Biology: Concepts, Biodiversity, Macroevolution and   Genome Evolution, 3-19. (Springer-Verlag Berlin).