CosmoSonic 2 Citations

1. Crushing Fungi

1-1. Matsuzaki , Y. , Aoki , W. , Miyazaki , T. , Aburaya , S. , Ohtani , Y. , Kajiwara , K. , Koike , N. , Minakuchi , H. , Miura , N. , Kadonosono , T. , & Ueda , M. ( 2021 ).
Peptide barcoding for one-pot evaluation of sequenceーfunction relationships of nanobodies. In Scientific Reports (Vol. 11, Issue 1). Springer Science and Business Media LLC. https://doi.org/10.1038/s41598-021-01019-6 　　Yeast crushing, Escherichia coli crushing
　
1-2. Martin, A., Rex, E., Ishidate, T., Lin, R., & Gammon, D. (2017).
Infection of Caenorhabditis elegans with Vesicular Stomatitis Virus via Microinjection. In BIO-PROTOCOL (Vol. 7, Issue 22). Bio-Protocol, LLC. https://doi.org/10.21769/bioprotoc.2617 　　Nematode crushing
　
1-3. Nishioka, H., Ohno, T., Iwahashi, H., & Horie, M. (2021).
Diversity of Lactic Acid Bacteria Involved in the Fermentation of Awa-bancha. In Microbes and Environments (Vol. 36, Issue 4, p. n/a). Japanese Society of Microbial Ecology. https://doi.org/10.1264/jsme2.me21029 　　DNA extraction from lactic acid bacteria
　
1-4. Minegaki, N., Koshizuka, T., Hatasa, K., Kondo, H., Kato, H., Tannaka, M., Takahashi, K., Tsuji, M., & Inoue, N. (2022).
The C-Terminal Penta-Peptide Repeats of Major Royal Jelly Protein 3 Ameliorate the Progression of Inflammation in Vivo and in Vitro; In Biological and Pharmaceutical Bulletin (Vol. 45, Issue 5, pp. 583-589). Pharmaceutical Society of Japan. https://doi.org/10.1248/bpb.b21-00922 　　Escherichia coli disruption, tissue disruption
　
1-5. Wu, H., Nakazawa, T., Morimoto, R., Shivani, Sakamoto, M., & Honda, Y. (2021).
Targeted disruption of hir1 alters the transcriptional expression pattern of putative lignocellulolytic genes in the white-rot fungus Pleurotus ostreatus. In Fungal Genetics and Biology (Vol. 147, p. 103507). Elsevier BV. https://doi.org/10.1016/j.fgb.2020.103507 　　Mycelial cell ChIP assay
　
1-6. Obana, N., Nakamura, K., & Nomura, N. (2020).
Temperature-regulated heterogeneous extracellular matrix gene expression defines biofilm morphology in Clostridium perfringens. In npj Biofilms and Microbiomes (Vol. 6, Issue 1). Springer Science and Business Media LLC. https://doi.org/10.1038/s41522-020-00139-7 　　Escherichia coli
　　HIS tag protein extraction

2. ChIP assay related

2-1. Inada , H. , Numayama-Tsuruta , K. , Mochizuki , K. , Sasaki-Hoshino , M. , & Osumi , N. (2018).
Pax6-dependent regulation of the ratFabp7 promoter activity. In Genes to Cells (Vol. 23, Issue 8, pp. 702-714). Wiley. https://doi.org/10.1111/gtc.12623 　　Rat cell ChIP-qPCR
　
2-2. Kitakaze , K. , Oyadomari , M. , Zhang , J. , Hamada , Y. , Takenouchi , Y. , Tsuboi , K. , Inagaki , M. , Tachikawa , M. , Fujitani , Y. , Okamoto , Y. , & Oyadomari , S. ( 2021 ).
ATF4-mediated transcriptional regulation protects against β-cell loss during endoplasmic reticulum stress in a mouse model. In Molecular Metabolism (Vol. 54, pp. 101338). Elsevier BV. https://doi.org/10.1016/j.molmet.2021.101338 　　CT215 β細胞　ChIP-qPCR
　
2-3. Katsuda, Y., Tanaka, K., Mori, T., Narita, M., Takeshima, H., Kondo, T., Yamabe, Y., Matsufuji, M., Sato, D., Hamada, Y., Yamaguchi, K., Ushijima, T., Inada, E., Kuzumaki, N., Iseki, M., & Narita, M. (2021).
Histone modification of pain-related gene expression in spinal cord neurons under a persistent postsurgical pain-like state by electrocautery. In Molecular Brain (Vol. 14, Issue 1). Springer Science and Business Media LLC. https://doi.org/10.1186/s13041-021-00854-y 　　ChIP assay
　
2-4. Han, N., Anwar, D., Hama, N., Kobayashi, T., Suzuki, H., Takahashi, H., Wada, H., Otsuka, R., Baghdadi, M., & Seino, K. (2020).
Bromodomain-containing protein 4 regulates interleukin-34 expression in mouse ovarian cancer cells. In Inflammation and Regeneration (Vol. 40, Issue 1). Springer Science and Business Media LLC. https://doi.org/10.1186/s41232-020-00129-4 　　ChIP-qPCR
　
2-5. Miyajima , Y. , Ealey , KN , Motomura , Y. , Mochizuki , M. , Takeno , N. , Yanagita , M. , Economides , AN , Nakayama , M. , Koseki , H. , & Moro , K. (2020). ).
Effects of BMP7 produced by group 2 innate lymphoid cells on adipogenesis. In International Immunology (Vol. 32, Issue 6, pp. 407-419). Oxford University Press (OUP). https://doi.org/10.1093/english/dxa013 　　ChIP sequencing
　
2-6. Smith, K. N., Starmer, J., & Magnuson, T. (2018).
Interactome determination of a Long Noncoding RNA implicated in Embryonic Stem Cell Self-Renewal. In Scientific Reports (Vol. 8, Issue 1). Springer Science and Business Media LLC. https://doi.org/10.1038/s41598-018-34864-z 　　細胞培養　RNA免疫沈降

3．Cell crushing

3-1. Schmal, C., Maier, B., Ashwal-Fluss, R., Bartok, O., Finger, A.-M., Bange, T., Koutsouli, S., Robles, M. S., Kadener, S., Herzel, H., & Kramer, A. (2021).
An integrative omics approach reveals posttranscriptional mechanisms underlying circadian temperature compensation. Cold Spring Harbor Laboratory. https://doi.org/10.1101/2021.10.06.463236 　　Cell disruption Protein dispersion
　
3-2. Konno, R., Matsui, T., Ito, H., Kawashima, Y., Itakura, M., & Kodera, Y. (2021).
Highly accurate and precise quantification strategy using stable isotope dimethyl labeling coupled with GeLC-MS/MS. In Biochemical and Biophysical Research Communications (Vol. 550, pp. 37-42). Elsevier BV. https://doi.org/10.1016/j.bbrc.2021.02.101 　　Mouse brain protein extraction,
　　peptide resuspension
　
3-3. Tachida, Y., Kumagai, K., Sakai, S., Ando, S., Yamaji, T., & Hanada, K. (2019).
Chlamydia trachomatis ‐infected human cells convert ceramide to sphingomyelin without sphingomyelin synthases 1 and 2. In FEBS Letters (Vol. 594, Issue 3, pp. 519-529). Wiley. https://doi.org/10.1002/1873-3468.13632 　　Hela cell disruption
　
3-4. Mori, D., Ishida, H., Mizuno, T., Kusumoto, S., Kondo, Y., Izumi, S., Nakata, G., Nozaki, Y., Maeda, K., Sasaki, Y., Fujita, K., & Kusuhara, H. (2020).
Alteration in the Plasma Concentrations of Endogenous Organic Anion-Transporting Polypeptide 1B Biomarkers in Patients with Non-Small Cell Lung Cancer Treated with Paclitaxel. In Drug Metabolism and Disposition (Vol. 48, Issue 5, pp. 387-394). American Society for Pharmacology & Experimental Therapeutics (ASPET). https://doi.org/10.1124/dmd.119.089474 　　HEK293 cell disruption
　
3-5. Naruse, C., Sugihara, K., Miyazaki, T., Pan, X., Sugiyama, F., & Asano, M. (2022).
A degron system targeting endogenous PD-1 inhibits the growth of tumor cells in mice. In NAR Cancer (Vol. 4, Issue 2). Oxford University Press (OUP). https://doi.org/10.1093/narcan/zcac019 　　protein extraction
　
3-6. Ito, H., Matsui, T., Konno, R., Itakura, M., & Kodera, Y. (2021).
LC-MS peak assignment based on unanimous selection by six machine learning algorithms. In Scientific Reports (Vol. 11, Issue 1). Springer Science and Business Media LLC. https://doi.org/10.1038/s41598-021-02899-4 　　Mouse liver protein extraction,
　　peptide dispersion
　
3-7. Xu , L. , H. Hanamatsu , K. Homan , T. Onodera , T. Miyazaki , J. Furukawa , K. Hontani , Y. Tian , R. Baba , & N. Iwasaki . (2020).
Alterations of Glycosphingolipid Glycans and Chondrogenic Markers during Differentiation of Human Induced Pluripotent Stem Cells into Chondrocytes. In Biomolecules (Vol. 10, Issue 12, p. 1622). MDPI AG. https://doi.org/10.3390/biom10121622 　　Cell crushing
　
3-8. Kobayashi, K., Mochizuki, J., Yamazaki, F., & Sashihara, T. (2023).
Yogurt starter strains ameliorate intestinal barrier dysfunction via activating AMPK in Caco-2 cells. In Tissue Barriers. Informa UK Limited. https://doi.org/10.1080/21688370.2023.2184157 　　Caco-2 cell disruption
　
3-9. Kato, K., Nagane, M., Aihara, N., Kamiie, J., Miyanabe, M., Hiraki, S., Luo, X., Nakanishi, I., Shoji, Y., Matsumoto, K., & Yamashita, T. (2021).
Lipid-soluble polyphenols from sweet potato exert antitumor activity and enhance chemosensitivity in breast cancer. In Journal of Clinical Biochemistry and Nutrition (Vol. 68, Issue 3, pp. 193-200). The Society for Free Radical Research Japan. https://doi.org/10.3164/jcbn.20-73 　　Cell crushing
　
3-10. Komorizono , R. , Sassa , Y. , Horie , M. , Makino , A. , & Tomonaga , K. (2020).
Evolutionary Selection of the Nuclear Localization Signal in the Viral Nucleoprotein Leads to Host Adaptation of the Genus Orthobornavirus. In Viruses (Vol. 12, Issue 11, p. 1291). MDPI AG. https://doi.org/10.3390/v12111291 　　Cultured cell disruption
　
3-11. Tsukamoto , K. , Kumadaki , K. , Tatematsu , K. , Suzuki , N. , & Doi , Y. (2022).
The Passenger Domain of Bartonella bacilliformis BafA Promotes Endothelial Cell Angiogenesis via the VEGF Receptor Signaling Pathway. In SEF D'Orazio (Ed.), mSphere (Vol. 7, Issue 2). American Society for Microbiology. https://doi.org/10.1128/msphere.00081-22 　　HUVECs cell destruction

4. Others

4-1. Hirano, S., Kanno, S., & Furuyama, A. (2008).
Multi-walled carbon nanotubes injure the plasma membrane of macrophages. In Toxicology and Applied Pharmacology (Vol. 232, Issue 2, pp. 244-251). Elsevier BV. https://doi.org/10.1016/j.taap.2008.06.016 　　carbon nanotube
　
4-2. Shirai , K. , Hikita , H. , Sakane , S. , Narumi , R. , Adachi , J. , Doi , A. , Tanaka , S. , Tahata , Y. , Yamada , R. , Kodama , T. , Sakamori , R. , Tatsumi , T. , Mita , E. , Tomonaga , T. , & Takehara , T. (2022).
Serum amyloid P component and pro-platelet basic protein in extracellular vesicles or serum are novel markers of liver fibrosis in chronic hepatitis C patients. In JM Jacobs (Ed.), PLOS ONE (Vol. 17, Issue 7, p. e0271020). Public Library of Science (PLoS). https://doi.org/10.1371/journal.pone.0271020 　　Solubilization of extracellular vesicles
　
4-3. Ishikawa, M., Konno, R., Nakajima, D., Gotoh, M., Fukasawa, K., Sato, H., Nakamura, R., Ohara, O., & Kawashima, Y. (2022).
Optimization of Ultrafast Proteomics Using an LC-Quadrupole-Orbitrap Mass Spectrometer with Data-Independent Acquisition. In Journal of Proteome Research (Vol. 21, Issue 9, pp. 2085-2093). American Chemical Society (ACS). https://doi.org/10.1021/acs.jproteome.2c00121 　　Sample preparation for LC-MS/MS
　
4-4. Yokoyama, D., Suzuki, S., Asakura, T., & Kikuchi, J. (2022).
Chemometric Analysis of NMR Spectra and Machine Learning to Investigate Membrane Fouling. In ACS Omega (Vol. 7, Issue 15, pp. 12654-12660). American Chemical Society (ACS). https://doi.org/10.1021/acsomega.1c06891 　　Fowland's dispersion
　
4-5. Kishimoto, S., Inoue, K., Sohma, R., Toyoda, S., Sakuma, M., Inoue, T., & Yoshida, K. (2020).
Surgical Injury and Ischemia Prime the Adipose Stromal Vascular Fraction and Increase Angiogenic Capacity in a Mouse Limb Ischemia Model. In Stem Cells International (Vol. 2020, pp. 1-11). Hindawi Limited. https://doi.org/10.1155/2020/7219149 　　DNA cutting,
　　Western blot pretreatment