{ "version": "https://jsonfeed.org/version/1.1", "title": "chem-bla-ics", "description": "Chemblaics (pronounced chem-bla-ics) is the science that uses open science and computers to solve problems in chemistry, biochemistry and related fields.", "home_page_url": "https://chem-bla-ics.linkedchemistry.info/", "feed_url": "https://chem-bla-ics.linkedchemistry.info/2007/09/16/why-plain-qsar-is-not-enough-for-me.json", "icon": "https://chem-bla-ics.linkedchemistry.info/assets/images/chem-bla-ics_logo.png", "language": "en", "authors": [ { "name": "Egon Willighagen", "url": "https://orcid.org/0000-0001-7542-0286", "_orcid": "0000-0001-7542-0286" } ], "items": [ { "id": "https://doi.org/10.59350/s8dts-h8t13", "url": "https://chem-bla-ics.linkedchemistry.info/2007/09/16/why-plain-qsar-is-not-enough-for-me.html", "title": "Why plain QSAR is not enough for me...", "content_html": "

Amanda had a very nice post on Small molecules that modulate quorum sensing.\nIt’s the perfect read for a Sunday morning, when you have a view looking down on Strasbourg from a hill in the\nBlack Forrest. Biology fascinates me, particularly when small\nmolecules are involved. And the molecular signaling used by these bacteria is just delightful. Make sure to\nread up on the small squids in 96-well plates too! (And we are worried about varkensflats!\nThat’s put in perspective :) These very small squids have a symbiosis with bacteria that light up under\ncertain conditions, and this squid species learned how to control that lightning. Nerdy facts like this\nadds that coolness factor that outliers in QSAR lack.

\n\n

Small-molecule macroarrays

\n\n

Another bit in Amanda’s blog catched my eye too: the small-molecule macroarray. I had not seen that term before,\nand looked up the paper by Brown et al. Rapid Identification of Antibacterial Agents Effective against\nStaphylococcus aureus Using Small-Molecule Macroarrays (DOI:10.1016/j.chembiol.2007.03.006).\nLike the more famous (gene expression) microarray, this SMMs are arrays of wells where small molecules are\nconnected to a planer cellulose support system, after which the antibacterial activity can be measure.\nNow, I do have to read up on this technology. For example, are the small-molecule inhibitors released\ninto the assay medium at some point? That is, they will need to find their way to whatever protein it\ninhibits, as the protein will not go to the support system. Can anyone explain me how to inhibition\ntakes place?

\n\n

References

\n
\n
Bowman, M. D., O’Neill, J. C., Stringer, J. R., & Blackwell, H. E. (2007). Rapid Identification of Antibacterial Agents Effective against Staphylococcus aureus Using Small-Molecule Macroarrays. Chemistry & Biology, 14(4), 351–357. https://doi.org/10.1016/j.chembiol.2007.03.006 CrossRef Scholia
\n
", "summary": "Amanda had a very nice post on Small molecules that modulate quorum sensing. It’s the perfect read for a Sunday morning, when you have a view looking down on Strasbourg from a hill in the Black Forrest. Biology fascinates me, particularly when small molecules are involved. And the molecular signaling used by these bacteria is just delightful. Make sure to read up on the small squids in 96-well plates too! (And we are worried about varkensflats! That’s put in perspective :) These very small squids have a symbiosis with bacteria that light up under certain conditions, and this squid species learned how to control that lightning. Nerdy facts like this adds that coolness factor that outliers in QSAR lack.", "date_published": "2007-09-16T00:00:00+00:00", "date_modified": "2025-02-16T00:00:00+00:00", "tags": ["qsar"], "_references": [ { "url": "https://doi.org/10.1016/j.chembiol.2007.03.006", "doi": "10.1016/j.chembiol.2007.03.006" } ], "authors": [ { "name": "Egon Willighagen", "url": "https://orcid.org/0000-0001-7542-0286" } ] } ] }