Publications citing BRB-seq

IMG_SS_244315159

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  1. Przystal, J. M., Cianciolo Cosentino, C., Yadavilli, S., Zhang, J., Laternser, S., Bonner, E. R., Prasad, R., Dawood, A. A., Lobeto, N., Chin Chong, W., Biery, M. C., Myers, C., Olson, J. M., Panditharatna, E., Kritzer, B., Mourabit, S., Vitanza, N. A., Filbin, M. G., de Iuliis, G. N., Dun, M. D., Koschmann, C., Cain, J. E., Grotzer, M. A., Waszak, S. M., Mueller, S., & Nazarian, J. 2022. Imipridones affect tumor bioenergetics and promote cell lineage differentiation in diffuse midline gliomas. Neuro-Oncology, 24(9): 1438-1451. https://doi.org/10.1093/neuonc/noac041
  2. Laloli, L., Licheri, M. F., Probst, L., Licheri, M., Gultom, M., Holwerda, M., V’kovski, P., & Dijkman, R. 2022. Time-resolved characterization of the innate immune response in the respiratory epithelium of human, porcine, and bovine during influenza virus infection. Frontiers in Immunology, 13. https://doi.org/10.3389/fimmu.2022.970325
  3. Mouri, K., Guo, M. H., de Boer, C. G., Lissner, M. M., Harten, I. A., Newby, G. A., DeBerg, H. A., Platt, W. F., Gentili, M., Liu, D. R., Campbell, D. J., Hacohen, N., Tewhey, R., & Ray, J. P. 2022. Prioritization of autoimmune disease-associated genetic variants that perturb regulatory element activity in T cells. Nature Genetics, 54(5): 603-612. https://doi.org/10.1038/s41588-022-01056-5
  4. Ishino, T., Takeno, S., Takemoto, K., Yamato, K., Oda, T., Nishida, M., Horibe, Y., Chikuie, N., Kono, T., Taruya, T., Hamamoto, T., & Ueda, T. 2022. Distinct Gene Set Enrichment Profiles in Eosinophilic and Non-Eosinophilic Chronic Rhinosinusitis with Nasal Polyps by Bulk RNA Barcoding and Sequencing. International Journal of Molecular Sciences, 23(10): 5653. https://doi.org/10.3390/ijms23105653
  5. Frochaux, M. V., Bou Sleiman, M., Gardeux, V., Dainese, R., Hollis, B., Litovchenko, M., Braman, V. S., Andreani, T., Osman, D., & Deplancke, B. 2020. cis-regulatory variation modulates susceptibility to enteric infection in the Drosophila genetic reference panel. Genome Biology, 21(1): 6. https://doi.org/10.1186/s13059-019-1912-z
  6. Giacosa, S., Pillet, C., Séraudie, I., Guyon, L., Wallez, Y., Roelants, C., Battail, C., Evrard, B., Chalmel, F., Barette, C., Soleilhac, E., Fauvarque, M.-O., Franquet, Q., Sarrazin, C., Peilleron, N., Fiard, G., Long, J.-A., Descotes, J.-L., Cochet, C., & Filhol, O. 2021. Cooperative Blockade of CK2 and ATM Kinases Drives Apoptosis in VHL-Deficient Renal Carcinoma Cells through ROS Overproduction. Cancers, 13(3): 576. https://doi.org/10.1371/journal.pbio.3001158
  7. Giacosa, S., Pillet, C., Séraudie, I., Guyon, L., Wallez, Y., Roelants, C., Battail, C., Evrard, B., Chalmel, F., Barette, C., Soleilhac, E., Fauvarque, M.-O., Franquet, Q., Sarrazin, C., Peilleron, N., Fiard, G., Long, J.-A., Descotes, J.-L., Cochet, C., & Filhol, O. 2021. Cooperative Blockade of CK2 and ATM Kinases Drives Apoptosis in VHL-Deficient Renal Carcinoma Cells through ROS Overproduction. Cancers, 13(3): 576. https://doi.org/10.3390/cancers13030576
  8. Bevers, R. P. J., Litovchenko, M., Kapopoulou, A., Braman, V. S., Robinson, M. R., Auwerx, J., Hollis, B., & Deplancke, B. 2019. Mitochondrial haplotypes affect metabolic phenotypes in the Drosophila Genetic Reference Panel. Nature Metabolism, 1(12): 1226-1242. https://doi.org/10.1038/s42255-019-0147-3
  9. Bast-Habersbrunner, A., Kiefer, C., Weber, P., Fromme, T., Schießl, A., Schwalie, P. C., Deplancke, B., Li, Y., & Klingenspor, M. 2021. LncRNA Ctcflos orchestrates transcription and alternative splicing in thermogenic adipogenesis. EMBO reports, 22(7): e51289. https://doi.org/10.15252/embr.202051289
  10. Okada, H., Yagi, R., Gardeux, V., Deplancke, B., & Hafen, E. 2019. Sex-dependent and sex-independent regulatory systems of size variation in natural populations. Molecular Systems Biology, 15(11): e9012. https://doi.org/10.15252/msb.20199012
  11. Ma, D., Bou-Sleiman, M., Joncour, P., Indelicato, C.-E., Frochaux, M., Braman, V., Litovchenko, M., Storelli, G., Deplancke, B., & Leulier, F. 2019. Commensal Gut Bacteria Buffer the Impact of Host Genetic Variants on Drosophila Developmental Traits under Nutritional Stress. iScience, 19: 436-447. https://doi.org/10.1016/j.isci.2019.07.048
  12. Liu, J., Frochaux, M., Gardeux, V., Deplancke, B., & Robinson-Rechavi, M. 2020. Inter-embryo gene expression variability recapitulates the hourglass pattern of evo-devo. BMC Biology, 18(1): 129. https://doi.org/10.1186/s12915-020-00842-z
  13. Kaya-Çopur, A., Marchiano, F., Hein, M. Y., Alpern, D., Russeil, J., Luis, N. M., Mann, M., Deplancke, B., Habermann, B. H., & Schnorrer, F. 2021. The Hippo pathway controls myofibril assembly and muscle fiber growth by regulating sarcomeric gene expression. eLife, 10: e63726. https://doi.org/10.7554/eLife.63726
  14. Pradhan, R. N., Bues, J. J., Gardeux, V., Schwalie, P. C., Alpern, D., Chen, W., Russeil, J., Raghav, S. K., & Deplancke, B. 2017. Dissecting the brown adipogenic regulatory network using integrative genomics. Scientific Reports, 7(1): 42130. https://doi.org/10.1038/srep42130
  15. Schwalie, P. C., Dong, H., Zachara, M., Russeil, J., Alpern, D., Akchiche, N., Caprara, C., Sun, W., Schlaudraff, K.-U., Soldati, G., Wolfrum, C., & Deplancke, B. 2018. A stromal cell population that inhibits adipogenesis in mammalian fat depots. Nature, 559(7712): 103-108. https://www.nature.com/articles/s41586-018-0226-8
  16. Weger, M., Alpern, D., Cherix, A., Ghosal, S., Grosse, J., Russeil, J., Gruetter, R., de Kloet, E. R., Deplancke, B., & Sandi, C. 2020. Mitochondrial gene signature in the prefrontal cortex for differential susceptibility to chronic stress. Scientific Reports, 10(1): 18308. https://doi.org/10.1038/s41598-020-75326-9
  17. Yuan, C., Pan, Z., Zhao, K., Li, J., Sheng, Z., Yao, X., Liu, H., Zhang, X., Yang, Y., Yu, D., Zhang, Y., Xu, Y., Zhang, Z.-Y., Huang, T., Liu, W., & Ouyang, H. 2020. Classification of four distinct osteoarthritis subtypes with a knee joint tissue transcriptome atlas. Bone Research, 8(1): 38. https://doi.org/10.1038/s41413-020-00109-x
  18. Hu, T., Todberg, T., Andersen, D., Danneskiold-Samsøe, N. B., Hansen, S. B. N., Kristiansen, K., Ewald, D. A., Brix, S., Rosa, J. C. d., Hoof, I., Skov, L., & Litman, T. 2022. Profiling the Atopic Dermatitis Epidermal Transcriptome by Tape Stripping and BRB-seq. International Journal of Molecular Sciences, 23(11): 6140. https://doi.org/10.3390/ijms23116140
  19. Hirai, S., Tomimatsu, K., Miyawaki-Kuwakado, A., Takizawa, Y., Komatsu, T., Tachibana, T., Fukushima, Y., Takeda, Y., Negishi, L., Kujirai, T., Koyama, M., Ohkawa, Y., & Kurumizaka, H. 2021. Unusual nucleosome formation and transcriptome influence by the histone H3mm18 variant. Nucleic Acids Research, 50(1): 72-91. https://doi.org/10.1093/nar/gkab1137
  20. Li, Y., Schwalie, P. C., Bast-Habersbrunner, A., Mocek, S., Russeil, J., Fromme, T., Deplancke, B., & Klingenspor, M. 2019. Systems-Genetics-Based Inference of a Core Regulatory Network Underlying White Fat Browning. Cell Reports, 29(12): 4099-4113.e4095. https://doi.org/10.1016/j.celrep.2019.11.053
  21. Litovchenko, M., Meireles-Filho, A. C. A., Frochaux, M. V., Bevers, R. P. J., Prunotto, A., Anduaga, A. M., Hollis, B., Gardeux, V., Braman, V. S., Russeil, J. M. C., Kadener, S., dal Peraro, M., & Deplancke, B. 2021. Extensive tissue-specific expression variation and novel regulators underlying circadian behavior. Science Advances, 7(5): eabc3781. https://doi.org/10.1126/sciadv.abc3781
  22. Christian, W. T., Tiphaine, O.-M., Nava, E., Christian, H., Federico, A. S., Jonathan, N., Dominique, C., Cécile, G., Laurence, M., Sophia, S. W., Shehnaz, K. H., Ioannis, T., Matthias, C., Andri, R., Manuel, B., Matthias, H., Patrick, S., Enos, B., Huldrych, F. G., Pejman, M., Paul, J. M., Charles, S. R., Caroline, B., & Jacques, F. 2020. Genetic variation near CXCL12 is associated with susceptibility to HIV-related non-Hodgkin lymphoma. Haematologica, 106(8): 2233-2241. https://doi.org/10.3324/haematol.2020.247023
  23. Lalli, M., Yen, A., Thopte, U., Dong, F., Moudgil, A., Chen, X., Milbrandt, J., Dougherty, Joseph D., & Mitra, Robi D. 2022. Measuring transcription factor binding and gene expression using barcoded self-reporting transposon calling cards and transcriptomes. NAR Genomics and Bioinformatics, 4(3). https://doi.org/10.1093/nargab/lqac061