Developmental Biology

Publications

Aleksander, SA; Balhoff, J; Carbon, S; Cherry, JM; Drabkin, HJ; Ebert, D; Feuermann, M; Gaudet, P; Harris, NL; Hill, DP; et al. The Gene Ontology knowledgebase in 2023. Editor, Baryshnikova A. Genetics: a periodical record of investigations bearing on heredity and variation. 2023; 224:iyad031.

Bedard, MC; Chihanga, T; Carlile, A; Jackson, R; Brusadelli, MG; Lee, D; VonHandorf, A; Rochman, M; Dexheimer, PJ; Chalmers, J; et al. Single cell transcriptomic analysis of HPV16-infected epithelium identifies a keratinocyte subpopulation implicated in cancer. Nature Communications. 2023; 14:1975.

Bouffi, C; Wikenheiser-Brokamp, KA; Chaturvedi, P; Sundaram, N; Goddard, GR; Wunderlich, M; Brown, NE; Staab, JF; Latanich, R; Zachos, NC; et al. In vivo development of immune tissue in human intestinal organoids transplanted into humanized mice. Nature Biotechnology. 2023; 41:824-831.

Cai, H; Ao, Z; Tian, C; Wu, Z; Liu, H; Tchieu, J; Gu, M; Mackie, K; Guo, F. Brain Organoid Computing for Artificial Intelligence. 2023; 4:2023.02.28.530502.

Cai, H; Ao, Z; Tian, C; Wu, Z; Liu, H; Tchieu, J; Gu, M; Mackie, K; Guo, F. Brain organoid reservoir computing for artificial intelligence. Nature Electronics. 2023; 6:1032-1039.

Cain, B; Webb, J; Yuan, Z; Cheung, D; Lim, HW; Kovall, RA; Weirauch, MT; Gebelein, B. Prediction of cooperative homeodomain DNA binding sites from high-throughput-SELEX data. Nucleic Acids Research. 2023; 51:6055-6072.

Chandel, AS; Stocker, M; Özbudak, EM. The Role of Fibroblast Growth Factor Signaling in Somitogenesis. DNA and Cell Biology. 2023; 42:580-584.

Chen, R; Qiu, K; Leong, DC Y; Kundu, BK; Zhang, C; Srivastava, P; White, KE; Li, G; Han, G; Guo, Z; et al. A general design of pyridinium-based fluorescent probes for enhancing two-photon microscopy. Biosensors and Bioelectronics. 2023; 239:115604.

Dong, F; Amlal, H; Venkatakrishnan, J; Zhang, J; Fry, M; Yuan, Y; Cheng, YC; Hu, Y; Kao, WW-Y. The gene therapy for corneal pathology with novel nonsense cystinosis mouse lines created by CRISPR Gene Editing. The Ocular Surface. 2023; 29:432-443.

Edwards, NA; Kashyap, A; Warren, A; Agricola, ZN; Kenny, AP; Shen, Y; Chung, WK; Zorn, AM. Disrupted endosomal trafficking of the Vangl-Celsr polarity complex underlies congenital anomalies in trachea-esophageal morphogenesis. 2023; 4:2023.10.11.561909.

Elliott, KH; Balchand, SK; Paese, CL B; Chang, CF; Yang, Y; Brown, KM; Rasicci, DT; He, H; Thorner, K; Chaturvedi, P; et al. Identification of a heterogeneous and dynamic ciliome during embryonic development and cell differentiation. Development (Cambridge). 2023; 150:dev201237.

Fisher, M; James-Zorn, C; Ponferrada, V; Bell, AJ; Sundararaj, N; Segerdell, E; Chaturvedi, P; Bayyari, N; Chu, S; Pells, T; et al. Xenbase: key features and resources of the Xenopus model organism knowledgebase. Editor, Wood V. Genetics: a periodical record of investigations bearing on heredity and variation. 2023; 224:iyad018.

Gipson, GR; Nolan, K; Kattamuri, C; Kenny, AP; Agricola, Z; Edwards, NA; Zinski, J; Czepnik, M; Mullins, MC; Zorn, AM; et al. Formation and characterization of BMP2/GDF5 and BMP4/GDF5 heterodimers. BMC Biology. 2023; 21:16.

Halurkar, MS; Inoue, O; Mukherjee, R; Paese, CL B; Duszynski, M; Brugmann, SA; Lim, H; Sanchez-Gurmaches, J. The widely used Ucp1-CreEvdr transgene elicits complex developmental and metabolic phenotypes. 2023; 4:2023.10.20.563165.

Iyyanar, PP R; Qin, C; Adhikari, N; Liu, H; Hu, YC; Jiang, R; Lan, Y. Developmental origin of the mammalian premaxilla. Developmental Biology. 2023; 503:1-9.

Keseroglu, K; Zinani, OQ H; Keskin, S; Seawall, H; Alpay, EE; Özbudak, EM. Stochastic gene expression and environmental stressors trigger variable somite segmentation phenotypes. Nature Communications. 2023; 14:6497.

Keseroglu, K; Zinani, OQ H; Özbudak, EM. Using single-molecule fluorescence in situ hybridization and immunohistochemistry to count RNA molecules in single cells in zebrafish embryos. STAR Protocols. 2023; 4:102020.

Lampl, CD; Wikenheiser-Brokamp, KA; Woods, JC; Kofron, JM; McCormack, FX. Pulmonary Alveolar Microlithiasis. Orphan Lung Diseases. : Springer Nature; Springer Nature; 2023.

Lim, HW; Iwafuchi, M. Profiling Accessible Chromatin and Nucleosomes in the Mammalian Genome. Methods in Molecular Biology. : Springer US; Springer US; 2023.

Liu, L; Zhou, Y; Liu, Z; Li, J; Hu, L; He, L; Gao, G; Kidd, B; Walsh, A; Jiang, R; et al. Osr1 Regulates Macrophage-mediated Liver Inflammation in Nonalcoholic Fatty Liver Disease Progression. CMGH Cellular and Molecular Gastroenterology and Hepatology. 2023; 15:1117-1133.

Lofrano-Porto, A; Pereira, SA; Dauber, A; Bloom, JC B; Fontes, AN; Asimow, N; de Moraes, OL; Araujo, PA T; Abreu, AP; Guo, MH; et al. OSR1 disruption contributes to uterine factor infertility via impaired Müllerian duct development and endometrial receptivity. The Journal of Clinical Investigation. 2023; 133:e161701.

Majd, H; Amin, S; Ghazizadeh, Z; Cesiulis, A; Arroyo, E; Lankford, K; Majd, A; Farahvashi, S; Chemel, AK; Okoye, M; et al. Deriving Schwann cells from hPSCs enables disease modeling and drug discovery for diabetic peripheral neuropathy. Cell Stem Cell. 2023; 30:632-647.e10.

Mayhew, CN; Singhania, R. A review of protocols for brain organoids and applications for disease modeling. STAR Protocols. 2023; 4:101860.

Moritz, L; Schon, SB; Rabbani, M; Sheng, Y; Agrawal, R; Glass-Klaiber, J; Sultan, C; Camarillo, JM; Clements, J; Baldwin, MR; et al. Sperm chromatin structure and reproductive fitness are altered by substitution of a single amino acid in mouse protamine 1. Nature Structural and Molecular Biology. 2023; 30:1077-1091.

Múnera, JO; Kechele, DO; Bouffi, C; Qu, N; Jing, R; Maity, P; Enriquez, JR; Han, L; Campbell, I; Mahe, MM; et al. Development of functional resident macrophages in human pluripotent stem cell-derived colonic organoids and human fetal colon. Cell Stem Cell. 2023; 30:1434-1451.e9.

Noel, JG; Ramser, SW; Pitstick, L; Goetzman, HS; Dale, EL; Potter, A; Adam, M; Potter, SS; Gardner, JC. IL-1/MyD88-Dependent G-CSF and IL-6 Secretion Mediates Postburn Anemia. Journal of immunology (Baltimore, Md. : 1950). 2023; 210:972-980.

Ochi, H; Kato, T; Zorn, A; Hayashi, T; Inoue, T; Kondo, M; Taira, M; Michiue, T. Versatile utilities of amphibians (part 5). Development, Growth and Differentiation. 2023; 65:459-460.

Ochi, H; Michiue, T; Kato, T; Zorn, A; Hayashi, T; Inoue, T; Kondo, M; Taira, M. Versatile utilities of amphibians (part 4). Development, Growth and Differentiation. 2023; 65:4-5.

O'Donnell, A; Gonzalez, BA; Mukherjee, S; Wilson, R; Alfieri, CM; Swoboda, CO; Millay, DP; Zorn, AM; Yutzey, KE. Localized Prox1 Regulates Aortic Valve Endothelial Cell Diversity and Extracellular Matrix Stratification in Mice. Arteriosclerosis, Thrombosis, and Vascular Biology. 2023; 43:1478-1493.

Parkins, EV; Burwinkel, JM; Ranatunga, R; Yaser, S; Hu, YC; Tiwari, D; Gross, C. Age-Dependent Regulation of Dendritic Spine Density and Protein Expression in Mir324 KO Mice. Journal of Molecular Neuroscience. 2023; 73:818-830.

Peng, Y; Liou, B; Lin, Y; Mayhew, CN; Fleming, SM; Sun, Y. iPSC-derived neural precursor cells engineering GBA1 recovers acid β-glucosidase deficiency and diminishes α-synuclein and neuropathology. Molecular Therapy-Methods & Clinical Development. 2023; 29:185-201.

Shao, TY; Kinder, JM; Harper, G; Pham, G; Peng, Y; Liu, J; Gregory, EJ; Sherman, BE; Wu, Y; Iten, AE; et al. Reproductive outcomes after pregnancy-induced displacement of preexisting microchimeric cells. Science. 2023; 381:1324-1330.

Simsek, MF; Chandel, AS; Saparov, D; Zinani, OQ H; Clason, N; Özbudak, EM. Periodic inhibition of Erk activity drives sequential somite segmentation. Nature. 2023; 613:153-159.

Simsek, MF; Özbudak, EM. Human stem cell models unravel mechanisms of somite segmentation. Cell Stem Cell. 2023; 30:246-247.

Simsek, MF; Özbudak, EM. A design logic for sequential segmentation across organisms. FEBS Journal. 2023; 290:5086-5093.

Soni, UK; Wang, Y; Pandey, RN; Roberts, R; Pressey, JG; Hegde, RS. Molecularly Defined Subsets of Ewing Sarcoma Tumors Differ in Their Responses to IGF1R and WEE1 Inhibition. Clinical Cancer Research. 2023; 29:458-471.

Toth, A; Kannan, P; Snowball, J; Kofron, M; Wayman, JA; Bridges, JP; Miraldi, ER; Swarr, D; Zacharias, WJ. Alveolar epithelial progenitor cells require Nkx2-1 to maintain progenitor-specific epigenomic state during lung homeostasis and regeneration. Nature Communications. 2023; 14:8452.

Verma, R; Aggarwal, P; Bischoff, ME; Reigle, J; Secic, D; Wetzel, C; VandenHeuvel, K; Biesiada, J; Ehmer, B; Landero Figueroa, JA; et al. Microtubule-associated protein MAP1LC3C regulates lysosomal exocytosis and induces zinc reprogramming in renal cancer cells. The Journal of biological chemistry. 2023; 299:104663.

Verrall, CE; Patel, S; Travitz, L; Tchieu, J; Dale, RC; Kasparian, NA; Winlaw, DS; Blue, GM. Biological and structural phenotypes associated with neurodevelopmental outcomes in congenital heart disease. Translational Pediatrics. 2023; 12:768-786.

Wang, T; Dao, L; Guo, Z; Li, T. (2023) A 3D Microfluidic Device with Vertical Channels toward In Vitro Reconstruction of Blood-Brain Barrier. Institute of Electrical and Electronics Engineers (IEEE). 2023:1-4.

Wurmser, M; Madani, R; Chaverot, N; Backer, S; Borok, M; Dos Santos, M; Comai, G; Tajbakhsh, S; Relaix, F; Santolini, M; et al. Overlapping functions of SIX homeoproteins during embryonic myogenesis. Editor, Cox GA. PLoS Genetics. 2023; 19:e1010781.

Xu, J; Iyyanar, PP R; Lan, Y; Jiang, R. Sonic hedgehog signaling in craniofacial development. Differentiation; Research in Biological Diversity. 2023; 133:60-76.

Zhou, LT; Liu, D; Kang, HC; Lu, L; Huang, HZ; Ai, WQ; Zhou, Y; Deng, MF; Li, H; Liu, ZQ; et al. Tau pathology epigenetically remodels the neuron-glial cross-talk in Alzheimer's disease. Science Advances. 2023; 9:eabq7105.