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Building high-quality assay libraries for targeted analysis of SWATH MS data.
Schubert OT, Gillet LC, Collins BC, Navarro P, Rosenberger G, Wolski WE, Lam H, Amodei D, Mallick P, MacLean B, Aebersold R. Schubert OT, et al. Among authors: amodei d. Nat Protoc. 2015 Mar;10(3):426-41. doi: 10.1038/nprot.2015.015. Epub 2015 Feb 12. Nat Protoc. 2015. PMID: 25675208
Identification of a Set of Conserved Eukaryotic Internal Retention Time Standards for Data-independent Acquisition Mass Spectrometry.
Parker SJ, Rost H, Rosenberger G, Collins BC, Malmström L, Amodei D, Venkatraman V, Raedschelders K, Van Eyk JE, Aebersold R. Parker SJ, et al. Among authors: amodei d. Mol Cell Proteomics. 2015 Oct;14(10):2800-13. doi: 10.1074/mcp.O114.042267. Epub 2015 Jul 21. Mol Cell Proteomics. 2015. PMID: 26199342 Free PMC article.
A cross-platform toolkit for mass spectrometry and proteomics.
Chambers MC, Maclean B, Burke R, Amodei D, Ruderman DL, Neumann S, Gatto L, Fischer B, Pratt B, Egertson J, Hoff K, Kessner D, Tasman N, Shulman N, Frewen B, Baker TA, Brusniak MY, Paulse C, Creasy D, Flashner L, Kani K, Moulding C, Seymour SL, Nuwaysir LM, Lefebvre B, Kuhlmann F, Roark J, Rainer P, Detlev S, Hemenway T, Huhmer A, Langridge J, Connolly B, Chadick T, Holly K, Eckels J, Deutsch EW, Moritz RL, Katz JE, Agus DB, MacCoss M, Tabb DL, Mallick P. Chambers MC, et al. Among authors: amodei d. Nat Biotechnol. 2012 Oct;30(10):918-20. doi: 10.1038/nbt.2377. Nat Biotechnol. 2012. PMID: 23051804 Free PMC article.
Characterizing deformability and surface friction of cancer cells.
Byun S, Son S, Amodei D, Cermak N, Shaw J, Kang JH, Hecht VC, Winslow MM, Jacks T, Mallick P, Manalis SR. Byun S, et al. Among authors: amodei d. Proc Natl Acad Sci U S A. 2013 May 7;110(19):7580-5. doi: 10.1073/pnas.1218806110. Epub 2013 Apr 22. Proc Natl Acad Sci U S A. 2013. PMID: 23610435 Free PMC article.
Physical principles for scalable neural recording.
Marblestone AH, Zamft BM, Maguire YG, Shapiro MG, Cybulski TR, Glaser JI, Amodei D, Stranges PB, Kalhor R, Dalrymple DA, Seo D, Alon E, Maharbiz MM, Carmena JM, Rabaey JM, Boyden ES, Church GM, Kording KP. Marblestone AH, et al. Among authors: amodei d. Front Comput Neurosci. 2013 Oct 21;7:137. doi: 10.3389/fncom.2013.00137. eCollection 2013. Front Comput Neurosci. 2013. PMID: 24187539 Free PMC article.
Low error discrimination using a correlated population code.
Schwartz G, Macke J, Amodei D, Tang H, Berry MJ 2nd. Schwartz G, et al. Among authors: amodei d. J Neurophysiol. 2012 Aug;108(4):1069-88. doi: 10.1152/jn.00564.2011. Epub 2012 Apr 25. J Neurophysiol. 2012. PMID: 22539825 Free PMC article.
Mapping a complete neural population in the retina.
Marre O, Amodei D, Deshmukh N, Sadeghi K, Soo F, Holy TE, Berry MJ 2nd. Marre O, et al. Among authors: amodei d. J Neurosci. 2012 Oct 24;32(43):14859-73. doi: 10.1523/JNEUROSCI.0723-12.2012. J Neurosci. 2012. PMID: 23100409 Free PMC article.
Searching for collective behavior in a large network of sensory neurons.
Tkačik G, Marre O, Amodei D, Schneidman E, Bialek W, Berry MJ 2nd. Tkačik G, et al. Among authors: amodei d. PLoS Comput Biol. 2014 Jan;10(1):e1003408. doi: 10.1371/journal.pcbi.1003408. Epub 2014 Jan 2. PLoS Comput Biol. 2014. PMID: 24391485 Free PMC article.
Thermodynamics and signatures of criticality in a network of neurons.
Tkačik G, Mora T, Marre O, Amodei D, Palmer SE, Berry MJ 2nd, Bialek W. Tkačik G, et al. Among authors: amodei d. Proc Natl Acad Sci U S A. 2015 Sep 15;112(37):11508-13. doi: 10.1073/pnas.1514188112. Epub 2015 Sep 1. Proc Natl Acad Sci U S A. 2015. PMID: 26330611 Free PMC article.
12 results