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Items: 1 to 50 of 420

1.

AbDesigner3D: a structure-guided tool for peptide-based antibody production.

Saethang T, Hodge K, Kimkong I, Payne MD, Knepper MA, Pisitkun T.

Bioinformatics. 2018 Feb 2. doi: 10.1093/bioinformatics/bty055. [Epub ahead of print]

PMID:
29408997
2.

Reply to Edemir: Physiological regulation and single-cell RNA sequencing.

Chen L, Lee JW, Chou CL, Nair AV, Battistone MA, Păunescu TG, Merkulova M, Breton S, Verlander JW, Wall SM, Brown D, Burg MB, Knepper MA.

Proc Natl Acad Sci U S A. 2018 Jan 16;115(3):E351-E352. doi: 10.1073/pnas.1720333115. Epub 2018 Jan 8. No abstract available.

PMID:
29311339
3.

Transcriptomes of major renal collecting duct cell types in mouse identified by single-cell RNA-seq.

Chen L, Lee JW, Chou CL, Nair AV, Battistone MA, Păunescu TG, Merkulova M, Breton S, Verlander JW, Wall SM, Brown D, Burg MB, Knepper MA.

Proc Natl Acad Sci U S A. 2017 Nov 14;114(46):E9989-E9998. doi: 10.1073/pnas.1710964114. Epub 2017 Oct 31.

PMID:
29089413
4.

Identification of UT-A1- and AQP2-interacting proteins in rat inner medullary collecting duct.

Chou CL, Hwang G, Hageman DJ, Han L, Agrawal P, Pisitkun T, Knepper MA.

Am J Physiol Cell Physiol. 2018 Jan 1;314(1):C99-C117. doi: 10.1152/ajpcell.00082.2017. Epub 2017 Oct 18.

PMID:
29046292
5.

Systems-level identification of PKA-dependent signaling in epithelial cells.

Isobe K, Jung HJ, Yang CR, Claxton J, Sandoval P, Burg MB, Raghuram V, Knepper MA.

Proc Natl Acad Sci U S A. 2017 Oct 17;114(42):E8875-E8884. doi: 10.1073/pnas.1709123114. Epub 2017 Oct 2.

PMID:
28973931
6.

Single-tubule RNA-Seq uncovers signaling mechanisms that defend against hyponatremia in SIADH.

Lee JW, Alsady M, Chou CL, de Groot T, Deen PMT, Knepper MA, Ecelbarger CM.

Kidney Int. 2018 Jan;93(1):128-146. doi: 10.1016/j.kint.2017.06.008. Epub 2017 Aug 23.

PMID:
28843412
7.

Expression and functional implications of the renal apelinergic system in rodents.

O'Carroll AM, Salih S, Griffiths PR, Bijabhai A, Knepper MA, Lolait SJ.

PLoS One. 2017 Aug 17;12(8):e0183094. doi: 10.1371/journal.pone.0183094. eCollection 2017.

8.

Dynamic regulation of lysine acetylation: the balance between acetyltransferase and deacetylase activities.

Hyndman KA, Knepper MA.

Am J Physiol Renal Physiol. 2017 Oct 1;313(4):F842-F846. doi: 10.1152/ajprenal.00313.2017. Epub 2017 Jul 12. Review.

PMID:
28701313
9.

Vasopressin-induced serine 269 phosphorylation reduces Sipa1l1 (signal-induced proliferation-associated 1 like 1)-mediated aquaporin-2 endocytosis.

Wang PJ, Lin ST, Liu SH, Kuo KT, Hsu CH, Knepper MA, Yu MJ.

J Biol Chem. 2017 May 12;292(19):7984-7993. doi: 10.1074/jbc.M117.779611. Epub 2017 Mar 23.

PMID:
28336531
10.

Identification of β-catenin-interacting proteins in nuclear fractions of native rat collecting duct cells.

Hwang JR, Chou CL, Medvar B, Knepper MA, Jung HJ.

Am J Physiol Renal Physiol. 2017 Jul 1;313(1):F30-F46. doi: 10.1152/ajprenal.00054.2017. Epub 2017 Mar 15.

PMID:
28298358
11.

Roflumilast and aquaporin-2 regulation in rat renal inner medullary collecting duct.

Umejiego EN, Wang Y, Knepper MA, Chou CL.

Physiol Rep. 2017 Jan;5(2). pii: e13121. doi: 10.14814/phy2.13121.

12.

Data integration in physiology using Bayes' rule and minimum Bayes' factors: deubiquitylating enzymes in the renal collecting duct.

Xue Z, Chen JX, Zhao Y, Medvar B, Knepper MA.

Physiol Genomics. 2017 Mar 1;49(3):151-159. doi: 10.1152/physiolgenomics.00120.2016. Epub 2016 Dec 30.

PMID:
28039431
13.

From 20th century metabolic wall charts to 21st century systems biology: database of mammalian metabolic enzymes.

Corcoran CC, Grady CR, Pisitkun T, Parulekar J, Knepper MA.

Am J Physiol Renal Physiol. 2017 Mar 1;312(3):F533-F542. doi: 10.1152/ajprenal.00601.2016. Epub 2016 Dec 14.

PMID:
27974320
14.

Serine/threonine phosphatases and aquaporin-2 regulation in renal collecting duct.

LeMaire SM, Raghuram V, Grady CR, Pickering CM, Chou CL, Umejiego EN, Knepper MA.

Am J Physiol Renal Physiol. 2017 Jan 1;312(1):F84-F95. doi: 10.1152/ajprenal.00455.2016. Epub 2016 Oct 26.

15.

Systems-level analysis reveals selective regulation of Aqp2 gene expression by vasopressin.

Sandoval PC, Claxton JS, Lee JW, Saeed F, Hoffert JD, Knepper MA.

Sci Rep. 2016 Oct 11;6:34863. doi: 10.1038/srep34863.

16.

BIG: a large-scale data integration tool for renal physiology.

Zhao Y, Yang CR, Raghuram V, Parulekar J, Knepper MA.

Am J Physiol Renal Physiol. 2016 Oct 1;311(4):F787-F792. doi: 10.1152/ajprenal.00249.2016. Epub 2016 Jun 8.

17.

Comprehensive database of human E3 ubiquitin ligases: application to aquaporin-2 regulation.

Medvar B, Raghuram V, Pisitkun T, Sarkar A, Knepper MA.

Physiol Genomics. 2016 Jul 1;48(7):502-12. doi: 10.1152/physiolgenomics.00031.2016. Epub 2016 May 13.

18.

Deubiquitylation of Protein Cargo Is Not an Essential Step in Exosome Formation.

Huebner AR, Cheng L, Somparn P, Knepper MA, Fenton RA, Pisitkun T.

Mol Cell Proteomics. 2016 May;15(5):1556-71. doi: 10.1074/mcp.M115.054965. Epub 2016 Feb 16.

19.

Peptide Labeling Using Isobaric Tagging Reagents for Quantitative Phosphoproteomics.

Cheng L, Pisitkun T, Knepper MA, Hoffert JD.

Methods Mol Biol. 2016;1355:53-70. doi: 10.1007/978-1-4939-3049-4_4.

PMID:
26584918
20.

Proteomic profiling of nuclear fractions from native renal inner medullary collecting duct cells.

Pickering CM, Grady C, Medvar B, Emamian M, Sandoval PC, Zhao Y, Yang CR, Jung HJ, Chou CL, Knepper MA.

Physiol Genomics. 2016 Feb;48(2):154-66. doi: 10.1152/physiolgenomics.00090.2015. Epub 2015 Oct 27.

21.

Deep proteomic profiling of vasopressin-sensitive collecting duct cells. II. Bioinformatic analysis of vasopressin signaling.

Yang CR, Raghuram V, Emamian M, Sandoval PC, Knepper MA.

Am J Physiol Cell Physiol. 2015 Dec 15;309(12):C799-812. doi: 10.1152/ajpcell.00214.2015. Epub 2015 Aug 26.

22.

Deep proteomic profiling of vasopressin-sensitive collecting duct cells. I. Virtual Western blots and molecular weight distributions.

Yang CR, Tongyoo P, Emamian M, Sandoval PC, Raghuram V, Knepper MA.

Am J Physiol Cell Physiol. 2015 Dec 15;309(12):C785-98. doi: 10.1152/ajpcell.00213.2015. Epub 2015 Aug 26.

23.

Molecular Physiology of Water Balance.

Knepper MA, Kwon TH, Nielsen S.

N Engl J Med. 2015 Jul 9;373(2):196. doi: 10.1056/NEJMc1505505. No abstract available.

24.

Systems biology of diuretic resistance.

Knepper MA.

J Clin Invest. 2015 May;125(5):1793-5. doi: 10.1172/JCI81505. Epub 2015 Apr 20.

25.

Molecular physiology of water balance.

Knepper MA, Kwon TH, Nielsen S.

N Engl J Med. 2015 Apr 2;372(14):1349-58. doi: 10.1056/NEJMra1404726. Review. No abstract available.

PMID:
25830425
26.

Deep Sequencing in Microdissected Renal Tubules Identifies Nephron Segment-Specific Transcriptomes.

Lee JW, Chou CL, Knepper MA.

J Am Soc Nephrol. 2015 Nov;26(11):2669-77. doi: 10.1681/ASN.2014111067. Epub 2015 Mar 27.

27.

Database of osmoregulated proteins in mammalian cells.

Grady CR, Knepper MA, Burg MB, Ferraris JD.

Physiol Rep. 2014 Oct 28;2(10). pii: e12180. doi: 10.14814/phy2.12180.

28.

Integrated Design of Antibodies for Systems Biology Using Ab Designer.

Pisitkun T, Dummer P, Somparn P, Hirankarn N, Kopp JB, Knepper MA.

J Proteomics Bioinform. 2014 Mar 24;7(4):088-94.

29.

Letter to the editor: "Systems biology versus reductionism in cell physiology".

Knepper MA, Raghuram V, Bradford D, Chou CL, Hoffert JD, Pisitkun T.

Am J Physiol Cell Physiol. 2014 Aug 1;307(3):C308-9. doi: 10.1152/ajpcell.00175.2014. No abstract available.

30.

Four-dimensional MRI of renal function in the developing mouse.

Xie L, Subashi E, Qi Y, Knepper MA, Johnson GA.

NMR Biomed. 2014 Sep;27(9):1094-102. doi: 10.1002/nbm.3162. Epub 2014 Jul 26.

31.

A knowledge base of vasopressin actions in the kidney.

Sanghi A, Zaringhalam M, Corcoran CC, Saeed F, Hoffert JD, Sandoval P, Pisitkun T, Knepper MA.

Am J Physiol Renal Physiol. 2014 Sep 15;307(6):F747-55. doi: 10.1152/ajprenal.00012.2014. Epub 2014 Jul 23.

32.

Exploiting Thread-Level and Instruction-Level Parallelism to Cluster Mass Spectrometry Data using Multicore Architectures.

Saeed F, Hoffert JD, Pisitkun T, Knepper MA.

Netw Model Anal Health Inform Bioinform. 2014 Apr;3:54.

33.

Early targets of lithium in rat kidney inner medullary collecting duct include p38 and ERK1/2.

Trepiccione F, Pisitkun T, Hoffert JD, Poulsen SB, Capasso G, Nielsen S, Knepper MA, Fenton RA, Christensen BM.

Kidney Int. 2014 Oct;86(4):757-67. doi: 10.1038/ki.2014.107. Epub 2014 Apr 30.

PMID:
24786704
34.

Use of LC-MS/MS and Bayes' theorem to identify protein kinases that phosphorylate aquaporin-2 at Ser256.

Bradford D, Raghuram V, Wilson JL, Chou CL, Hoffert JD, Knepper MA, Pisitkun T.

Am J Physiol Cell Physiol. 2014 Jul 15;307(2):C123-39. doi: 10.1152/ajpcell.00377.2012. Epub 2014 Mar 5.

35.

PhosSA: Fast and accurate phosphorylation site assignment algorithm for mass spectrometry data.

Saeed F, Pisitkun T, Hoffert JD, Rashidian S, Wang G, Gucek M, Knepper MA.

Proteome Sci. 2013 Nov 7;11(Suppl 1):S14. doi: 10.1186/1477-5956-11-S1-S14. Epub 2013 Nov 7.

36.

Proteomic pearl diving versus systems biology in cell physiology. Focus on "proteomic mapping of proteins released during necrosis and apoptosis from cultured neonatal cardiac myocytes".

Knepper MA.

Am J Physiol Cell Physiol. 2014 Apr 1;306(7):C634-5. doi: 10.1152/ajpcell.00010.2014. Epub 2014 Jan 15. No abstract available.

37.

Endogenous carbamylation of renal medullary proteins.

Claxton JS, Sandoval PC, Liu G, Chou CL, Hoffert JD, Knepper MA.

PLoS One. 2013 Dec 26;8(12):e82655. doi: 10.1371/journal.pone.0082655. eCollection 2013.

38.

CAMS-RS: Clustering Algorithm for Large-Scale Mass Spectrometry Data Using Restricted Search Space and Intelligent Random Sampling.

Saeed F, Hoffert JD, Knepper MA.

IEEE/ACM Trans Comput Biol Bioinform. 2014 Jan-Feb;11(1):128-41. doi: 10.1109/TCBB.2013.152.

PMID:
26355513
39.

Tolvaptan as a tool in renal physiology.

Miranda CA, Lee JW, Chou CL, Knepper MA.

Am J Physiol Renal Physiol. 2014 Feb 1;306(3):F359-66. doi: 10.1152/ajprenal.00330.2013. Epub 2013 Dec 4.

40.

CAMS-RS: Clustering Algorithm for Large-Scale Mass Spectrometry Data using Restricted Search Space and Intelligent Random Sampling.

Saeed F, Hoffert JD, Knepper MA.

IEEE/ACM Trans Comput Biol Bioinform. 2013 Nov 22. [Epub ahead of print]

PMID:
24277952
41.

Global analysis of the effects of the V2 receptor antagonist satavaptan on protein phosphorylation in collecting duct.

Hoffert JD, Pisitkun T, Saeed F, Wilson JL, Knepper MA.

Am J Physiol Renal Physiol. 2014 Feb 15;306(4):410-21. doi: 10.1152/ajprenal.00497.2013. Epub 2013 Nov 20.

42.

Quantitative apical membrane proteomics reveals vasopressin-induced actin dynamics in collecting duct cells.

Loo CS, Chen CW, Wang PJ, Chen PY, Lin SY, Khoo KH, Fenton RA, Knepper MA, Yu MJ.

Proc Natl Acad Sci U S A. 2013 Oct 15;110(42):17119-24. doi: 10.1073/pnas.1309219110. Epub 2013 Oct 1.

43.

Proteome-wide measurement of protein half-lives and translation rates in vasopressin-sensitive collecting duct cells.

Sandoval PC, Slentz DH, Pisitkun T, Saeed F, Hoffert JD, Knepper MA.

J Am Soc Nephrol. 2013 Nov;24(11):1793-805. doi: 10.1681/ASN.2013030279. Epub 2013 Sep 12.

44.

Urea channel inhibitors: a new functional class of aquaretics.

Knepper MA, Miranda CA.

Kidney Int. 2013 Jun;83(6):991-3. doi: 10.1038/ki.2013.94.

45.

Vasopressin and the regulation of aquaporin-2.

Wilson JL, Miranda CA, Knepper MA.

Clin Exp Nephrol. 2013 Dec;17(6):751-64. doi: 10.1007/s10157-013-0789-5. Epub 2013 Apr 13. Review.

46.

Global analysis of neuronal phosphoproteome regulation by chondroitin sulfate proteoglycans.

Yu P, Pisitkun T, Wang G, Wang R, Katagiri Y, Gucek M, Knepper MA, Geller HM.

PLoS One. 2013;8(3):e59285. doi: 10.1371/journal.pone.0059285. Epub 2013 Mar 18.

47.

An Efficient Dynamic Programming Algorithm for Phosphorylation Site Assignment of Large-Scale Mass Spectrometry Data.

Saeed F, Pisitkun T, Hoffert JD, Wang G, Gucek M, Knepper MA.

Proceedings (IEEE Int Conf Bioinformatics Biomed). 2012 Oct 4:618-625.

48.

An Efficient Algorithm for Clustering of Large-Scale Mass Spectrometry Data.

Saeed F, Pisitkun T, Knepper MA, Hoffert JD.

Proceedings (IEEE Int Conf Bioinformatics Biomed). 2012 Oct 4:1-4.

49.

Assessment of the effect of 24-hour aldosterone administration on protein abundance in fluorescence-sorted mouse distal renal tubules by mass spectrometry.

Jensen TB, Pisitkun T, Hoffert JD, Jensen UB, Fenton RA, Praetorius HA, Knepper MA, Praetorius J.

Nephron Physiol. 2012;121(3-4):p9-15. doi: 10.1159/000346832. Epub 2013 Feb 14.

50.

Vasopressin inhibits apoptosis in renal collecting duct cells.

Miller RL, Sandoval PC, Pisitkun T, Knepper MA, Hoffert JD.

Am J Physiol Renal Physiol. 2013 Jan 15;304(2):F177-88. doi: 10.1152/ajprenal.00431.2012. Epub 2012 Nov 7.

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