-
1
-
-
1542284115
-
The molecular basis of HIV capsid assembly - Five years of progress
-
DOI 10.1002/rmv.418
-
Adamson CS, Jones IM. 2004. The molecular basis of HIV capsid assembly-fve years of progress. Rev Med Virol 14:107-121. (Pubitemid 38316010)
-
(2004)
Reviews in Medical Virology
, vol.14
, Issue.2
, pp. 107-121
-
-
Adamson, C.S.1
Jones, I.M.2
-
3
-
-
72849116829
-
Quantitative proteomic analysis of purifed yeast kinetochores identifes a PP1 regulatory subunit
-
Akiyoshi B, Nelson CR, Ranish JA, Biggins S. 2009. Quantitative proteomic analysis of purifed yeast kinetochores identifes a PP1 regulatory subunit. Genes Dev 23:2887-2899.
-
(2009)
Genes Dev
, vol.23
, pp. 2887-2899
-
-
Akiyoshi, B.1
Nelson, C.R.2
Ranish, J.A.3
Biggins, S.4
-
4
-
-
0032489015
-
The cell as a collection of protein machines: Preparing the next generation of molecular biologists
-
DOI 10.1016/S0092-8674(00)80922-8
-
Alberts B. 1998. The cell as a collection of protein machines: preparing the next generation of molecular biologists. Cell 92:291-294. (Pubitemid 28093007)
-
(1998)
Cell
, vol.92
, Issue.3
, pp. 291-294
-
-
Alberts, B.1
-
5
-
-
0036025308
-
Iα subunit of protein kinase A
-
DOI 10.1016/S0022-2836(02)00919-1
-
Anand GS, Hughes CA, Jones JM, Taylor SS, Komives EA. 2002. Amide H/2H exchange reveals communication between the cAMP and catalytic subunit-binding sites in the R(I)alpha subunit of protein kinase A. J Mol Biol 323:377-386. (Pubitemid 35283698)
-
(2002)
Journal of Molecular Biology
, vol.323
, Issue.2
, pp. 377-386
-
-
Anand, G.S.1
Hughes, C.A.2
Jones, J.M.3
Taylor, S.S.4
Komives, E.A.5
-
6
-
-
41149127192
-
A label-free quantification method by MS/MS TIC compared to SILAC and spectral counting in a proteomics screen
-
DOI 10.1002/pmic.200700426
-
Asara JM, Christofk HR, Freimark LM, Cantley LC. 2008. A label-free quantifcation method by MS/MS TIC compared to SILAC and spectral counting in a proteomics screen. Proteomics 8:994-999. (Pubitemid 351441438)
-
(2008)
Proteomics
, vol.8
, Issue.5
, pp. 994-999
-
-
Asara, J.M.1
Christofk, H.R.2
Freimark, L.M.3
Cantley, L.C.4
-
7
-
-
34748916981
-
Quantitative mass spectrometry in proteomics: A critical review
-
DOI 10.1007/s00216-007-1486-6, Proteomics/Molecular Imaging
-
Bantschef M, Schirle M, Sweetman G, Rick J, Kuster B. 2007. Quantitative mass spectrometry in proteomics: a critical review. Anal Bioanal Chem 389:1017-1031. (Pubitemid 47482251)
-
(2007)
Analytical and Bioanalytical Chemistry
, vol.389
, Issue.4
, pp. 1017-1031
-
-
Bantscheff, M.1
Schirle, M.2
Sweetman, G.3
Rick, J.4
Kuster, B.5
-
9
-
-
12444273748
-
Distinct properties and advantages of a novel peroxisome proliferator-activated protein γ selective modulator
-
DOI 10.1210/me.2002-0217
-
Berger JP, Petro AE, Macnaul KL, Kelly LJ, Zhang BB, Richards K, Elbrecht A, Johnson BA, Zhou G, Doebber TW, Biswas C, Parikh M, Sharma N, Tanen MR, Tompson GM, Ventre J, Adams AD, Mosley R, Surwit RS, Moller DE. 2003. Distinct properties and advantages of a novel peroxisome proliferator-activated protein [gamma] selective modulator. Mol Endocrinol 17:662-676. (Pubitemid 36403578)
-
(2003)
Molecular Endocrinology
, vol.17
, Issue.4
, pp. 662-676
-
-
Berger, J.P.1
Petro, A.E.2
Macnaul, K.L.3
Kelly, L.J.4
Zhang, B.B.5
Richards, K.6
Elbrecht, A.7
Johnson, B.A.8
Zhou, G.9
Doebber, T.W.10
Biswas, C.11
Parikh, M.12
Sharma, N.13
Tanen, M.R.14
Thompson, G.M.15
Ventre, J.16
Adams, A.D.17
Mosley, R.18
Surwit, R.S.19
Moller, D.E.20
more..
-
10
-
-
16344389629
-
Metabolic labeling of proteins for proteomics
-
DOI 10.1074/mcp.R400010-MCP200
-
Beynon RJ, Pratt JM. 2005. Metabolic labeling of proteins for proteomics. Mol Cell Proteomics 4:857-872. (Pubitemid 41309145)
-
(2005)
Molecular and Cellular Proteomics
, vol.4
, Issue.7
, pp. 857-872
-
-
Beynon, R.J.1
Pratt, J.M.2
-
11
-
-
0037337310
-
A proteomics strategy to elucidate functional protein-protein interactions applied to EGF signaling
-
DOI 10.1038/nbt790
-
Blagoev B, Kratchmarova I, Ong SE, Nielsen M, Foster LJ, Mann M. 2003. A proteomics strategy to elucidate functional protein-protein interactions applied to EGF signaling. Nat Biotechnol 21:315-318. (Pubitemid 36314817)
-
(2003)
Nature Biotechnology
, vol.21
, Issue.3
, pp. 315-318
-
-
Blagoev, B.1
Kratchmarova, I.2
Ong, S.-E.3
Nielsen, M.4
Foster, L.J.5
Mann, M.6
-
12
-
-
54749126668
-
Detection and characterization of altered conformations of protein pharmaceuticals using complementary mass spectrometry-based approaches
-
Bobst CE, Abzalimov RR, Houde D, Kloczewiak M, Mhatre R, Berkowitz SA, Kaltashov IA. 2008. Detection and characterization of altered conformations of protein pharmaceuticals using complementary mass spectrometry-based approaches. Anal Chem 80:7473-7481.
-
(2008)
Anal Chem
, vol.80
, pp. 7473-7481
-
-
Bobst, C.E.1
Abzalimov, R.R.2
Houde, D.3
Kloczewiak, M.4
Mhatre, R.5
Berkowitz, S.A.6
Kaltashov, I.A.7
-
13
-
-
10744223084
-
Dynamic changes in transcription factor complexes during erythroid differentiation revealed by quantitative proteomics
-
DOI 10.1038/nsmb713
-
Brand M, Ranish JA, Kummer NT, Hamilton J, Igarashi K, Francastel C, Chi TH, Crabtree GR, Aebersold R, Groudine M. 2004. Dynamic changes in transcription factor complexes during erythroid diferentiation revealed by quantitative proteomics. Nat Struct Mol Biol 11:73-80. (Pubitemid 38173444)
-
(2004)
Nature Structural and Molecular Biology
, vol.11
, Issue.1
, pp. 73-80
-
-
Brand, M.1
Ranish, J.A.2
Kummer, N.T.3
Hamilton, J.4
Igarashi, K.5
Francastel, C.6
Chi, T.H.7
Crabtree, G.R.8
Aebersold, R.9
Groudine, M.10
-
14
-
-
77953077420
-
A global protein kinase and phosphatase interaction network in yeast
-
Breitkreutz A, Choi H, Sharom JR, Boucher L, Neduva V, Larsen B, Lin ZY, Breitkreutz BJ, Stark C, Liu G, Ahn J, Dewar-Darch D, Reguly T, Tang X, Almeida R, Qin ZS, Pawson T, Gingras AC, Nesvizhskii AI, Tyers M. 2010. A global protein kinase and phosphatase interaction network in yeast. Science 328:1043-1046.
-
(2010)
Science
, vol.328
, pp. 1043-1046
-
-
Breitkreutz, A.1
Choi, H.2
Sharom, J.R.3
Boucher, L.4
Neduva, V.5
Larsen, B.6
Lin, Z.Y.7
Breitkreutz, B.J.8
Stark, C.9
Liu, G.10
Ahn, J.11
Dewar-Darch, D.12
Reguly, T.13
Tang, X.14
Almeida, R.15
Qin, Z.S.16
Pawson, T.17
Gingras, A.C.18
Nesvizhskii, A.I.19
Tyers, M.20
more..
-
15
-
-
9744270012
-
Insights into enzyme structure and dynamics elucidated by amide H/D exchange mass spectrometry
-
DOI 10.1016/j.abb.2004.09.002, PII S0003986104005028
-
Busenlehner LS, Armstrong RN. 2005. Insights into enzyme structure and dynamics elucidated by amide H/D exchange mass spectrometry. Arch Biochem Biophys 433:34-46. (Pubitemid 39586581)
-
(2005)
Archives of Biochemistry and Biophysics
, vol.433
, Issue.1
, pp. 34-46
-
-
Busenlehner, L.S.1
Armstrong, R.N.2
-
16
-
-
2442555149
-
Crystal Structure and Amide H/D Exchange of Binary Complexes of Alcohol Dehydrogenase from Bacillus stearothermophilus: Insight into Thermostability and Cofactor Binding
-
DOI 10.1021/bi049736p
-
Ceccarelli C, Liang ZX, Strickler M, Prehna G, Goldstein BM, Klinman JP, Bahnson BJ. 2004. Crystal structure and amide H/D exchange of binary complexes of alcohol dehydrogenase from Bacillus stearothermophilus: insight into thermostability and cofactor binding. Biochemistry 43:5266-5277. (Pubitemid 38620918)
-
(2004)
Biochemistry
, vol.43
, Issue.18
, pp. 5266-5277
-
-
Ceccarelli, C.1
Liang, Z.-X.2
Strickler, M.3
Prehna, G.4
Goldstein, B.M.5
Klinman, J.P.6
Bahnson, B.J.7
-
17
-
-
56749130032
-
Structure of the intact PPAR-gamma-RXR- nuclear receptor complex on DNA
-
Chandra V, Huang P, Hamuro Y, Raghuram S, Wang Y, Burris TP, Rastinejad F. 2008. Structure of the intact PPAR-gamma-RXR- nuclear receptor complex on DNA. Nature 456:350-356.
-
(2008)
Nature
, vol.456
, pp. 350-356
-
-
Chandra, V.1
Huang, P.2
Hamuro, Y.3
Raghuram, S.4
Wang, Y.5
Burris, T.P.6
Rastinejad, F.7
-
18
-
-
77149146167
-
Architecture of the RNA polymerase II-TFIIF complex revealed by cross-linking and mass spectrometry
-
Chen ZA, Jawhari A, Fischer L, Buchen C, Tahir S, Kamenski T, Rasmussen M, Lariviere L, Bukowski-Wills JC, Nilges M, Cramer P, Rappsilber J. 2010. Architecture of the RNA polymerase II-TFIIF complex revealed by cross-linking and mass spectrometry. EMBO J 29:717-726.
-
(2010)
EMBO J
, vol.29
, pp. 717-726
-
-
Chen, Z.A.1
Jawhari, A.2
Fischer, L.3
Buchen, C.4
Tahir, S.5
Kamenski, T.6
Rasmussen, M.7
Lariviere, L.8
Bukowski-Wills, J.C.9
Nilges, M.10
Cramer, P.11
Rappsilber, J.12
-
19
-
-
35648942133
-
8-Plex quantitation of changes in cerebrospinal fluid protein expression in subjects undergoing intravenous immunoglobulin treatment for Alzheimer's disease
-
DOI 10.1002/pmic.200700316
-
Choe L, D'Ascenzo M, Relkin NR, Pappin D, Ross P, Williamson B, Guertin S, Pribil P, Lee KH. 2007. 8-Plex quantitation of changes in cerebrospinal fuid protein expression in subjects undergoing intravenous immunoglobulin treatment for Alzheimer's disease. Proteomics 7:3651-3660. (Pubitemid 350022271)
-
(2007)
Proteomics
, vol.7
, Issue.20
, pp. 3651-3660
-
-
Choe, L.1
D'Ascenzo, M.2
Relkin, N.R.3
Pappin, D.4
Ross, P.5
Williamson, B.6
Guertin, S.7
Pribil, P.8
Lee, K.H.9
-
20
-
-
58149299336
-
Signifcance analysis of spectral count data in label-free shotgun proteomics
-
Choi H, Fermin D, Nesvizhskii AI. 2008. Signifcance analysis of spectral count data in label-free shotgun proteomics. Mol Cell Proteomics 7:2373-2385.
-
(2008)
Mol Cell Proteomics
, vol.7
, pp. 2373-2385
-
-
Choi, H.1
Fermin, D.2
Nesvizhskii, A.I.3
-
21
-
-
78650861777
-
SAINT: Probabilistic scoring of afnity purifcation-mass spectrometry data
-
Choi H, Larsen B, Lin ZY, Breitkreutz A, Mellacheruvu D, Fermin D, Qin ZS, Tyers M, Gingras AC, Nesvizhskii AI. 2011. SAINT: probabilistic scoring of afnity purifcation-mass spectrometry data. Nat Methods 8:70-73.
-
(2011)
Nat Methods
, vol.8
, pp. 70-73
-
-
Choi, H.1
Larsen, B.2
Lin, Z.Y.3
Breitkreutz, A.4
Mellacheruvu, D.5
Fermin, D.6
Qin, Z.S.7
Tyers, M.8
Gingras, A.C.9
Nesvizhskii, A.I.10
-
22
-
-
21844470972
-
Carbon source-dependent assembly of the Snf1p kinase complex in Candida albicans
-
DOI 10.1074/jbc.M503719200
-
Corvey C, Koetter P, Beckhaus T, Hack J, Hofmann S, Hampel M, Stein T, Karas M, Entian KD. 2005. Carbon Source-dependent assembly of the Snf1p kinase complex in Candida albicans. J Biol Chem 280:25323-25330. (Pubitemid 40962234)
-
(2005)
Journal of Biological Chemistry
, vol.280
, Issue.27
, pp. 25323-25330
-
-
Corvey, C.1
Koetter, P.2
Beckhaus, T.3
Hack, J.4
Hofmann, S.5
Hampel, M.6
Stein, T.7
Karas, M.8
Entian, K.-D.9
-
23
-
-
57449099865
-
MaxQuant enables high peptide identifcation rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantifcation
-
Cox J, Mann M. 2008. MaxQuant enables high peptide identifcation rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantifcation. Nat Biotechnol 26:1367-1372.
-
(2008)
Nat Biotechnol
, vol.26
, pp. 1367-1372
-
-
Cox, J.1
Mann, M.2
-
24
-
-
67649400942
-
A practical guide to the MaxQuant computational platform for SILAC-based quantitative proteomics
-
Cox J, Matic I, Hilger M, Nagaraj N, Selbach M, Olsen JV, Mann M. 2009. A practical guide to the MaxQuant computational platform for SILAC-based quantitative proteomics. Nat Protoc 4:698-705.
-
(2009)
Nat Protoc
, vol.4
, pp. 698-705
-
-
Cox, J.1
Matic, I.2
Hilger, M.3
Nagaraj, N.4
Selbach, M.5
Olsen, J.V.6
Mann, M.7
-
25
-
-
0032539671
-
Structural basis for methylesterase CheB regulation by a phosphorylation-activated domain
-
DOI 10.1073/pnas.95.4.1381
-
Djordjevic S, Goudreau PN, Xu Q, Stock AM, West AH. 1998. Structural basis for methylesterase CheB regulation by a phosphorylation-activated domain. Proc Natl Acad Sci USA 95:1381-1386. (Pubitemid 28103400)
-
(1998)
Proceedings of the National Academy of Sciences of the United States of America
, vol.95
, Issue.4
, pp. 1381-1386
-
-
Djordjevic, S.1
Goudreau, P.N.2
Xu, Q.3
Stock, A.M.4
West, A.H.5
-
26
-
-
70349613463
-
Analysis of protein conformation and dynamics by hydrogen/deuterium exchange MS
-
Engen JR. 2009. Analysis of protein conformation and dynamics by hydrogen/deuterium exchange MS. Anal Chem 81:7870-7875.
-
(2009)
Anal Chem
, vol.81
, pp. 7870-7875
-
-
Engen, J.R.1
-
27
-
-
58149391409
-
Characterization of the human COP9 signalosome complex using afnity purifcation and mass spectrometry
-
Fang L, Wang X, Yamoah K, Chen PL, Pan ZQ, Huang L. 2008. Characterization of the human COP9 signalosome complex using afnity purifcation and mass spectrometry. J Proteome Res 7:4914-4925.
-
(2008)
J Proteome Res
, vol.7
, pp. 4914-4925
-
-
Fang, L.1
Wang, X.2
Yamoah, K.3
Chen, P.L.4
Pan, Z.Q.5
Huang, L.6
-
28
-
-
0028124463
-
The two-hybrid system: An assay for protein-protein interactions
-
DOI 10.1016/0168-9525(90)90012-U
-
Fields S, Sternglanz R. 1994. The two-hybrid system: an assay for protein-protein interactions. Trends Genet 10:286-292. (Pubitemid 24238900)
-
(1994)
Trends in Genetics
, vol.10
, Issue.8
, pp. 286-292
-
-
Fields, S.1
Sternglanz, R.2
-
29
-
-
0034682492
-
A quantitative, high-throughput screen for protein stability
-
DOI 10.1073/pnas.140111397
-
Ghaemmaghami S, Fitzgerald MC, Oas TG. 2000. A quantitative, high-throughput screen for protein stability. Proc Natl Acad Sci USA 97:8296-8301. (Pubitemid 30639666)
-
(2000)
Proceedings of the National Academy of Sciences of the United States of America
, vol.97
, Issue.15
, pp. 8296-8301
-
-
Ghaemmaghami, S.1
Fitzgerald, M.C.2
Oas, T.G.3
-
30
-
-
14844314804
-
Advances in protein complex analysis using mass spectrometry
-
DOI 10.1113/jphysiol.2004.080440
-
Gingras AC, Aebersold R, Raught B. 2005. Advances in protein complex analysis using mass spectrometry. J Physiol 563 (Pt 1):11-21. (Pubitemid 40340364)
-
(2005)
Journal of Physiology
, vol.563
, Issue.1
, pp. 11-21
-
-
Gingras, A.-C.1
Aebersold, R.2
Raught, B.3
-
31
-
-
59149096171
-
A PP2A phosphatase high density interaction network identifes a novel striatin-interacting phosphatase and kinase complex linked to the cerebral cavernous malformation 3 (CCM3) protein
-
Goudreault M, D'Ambrosio LM, Kean MJ, Mullin MJ, Larsen BG, Sanchez A, Chaudhry S, Chen GI, Sicheri F, Nesvizhskii AI, Aebersold R, Raught B, Gingras AC. 2009. A PP2A phosphatase high density interaction network identifes a novel striatin-interacting phosphatase and kinase complex linked to the cerebral cavernous malformation 3 (CCM3) protein. Mol Cell Proteomics 8:157-171.
-
(2009)
Mol Cell Proteomics
, vol.8
, pp. 157-171
-
-
Goudreault, M.1
D'Ambrosio, L.M.2
Kean, M.J.3
Mullin, M.J.4
Larsen, B.G.5
Sanchez, A.6
Chaudhry, S.7
Chen, G.I.8
Sicheri, F.9
Nesvizhskii, A.I.10
Aebersold, R.11
Raught, B.12
Gingras, A.C.13
-
32
-
-
76649083593
-
Quantitative proteomics by metabolic labeling of model organisms
-
Gouw JW, Krijgsveld J, Heck AJ. 2010. Quantitative proteomics by metabolic labeling of model organisms. Mol Cell Proteomics 9:11-24.
-
(2010)
Mol Cell Proteomics
, vol.9
, pp. 11-24
-
-
Gouw, J.W.1
Krijgsveld, J.2
Heck, A.J.3
-
33
-
-
51749093587
-
Characterization of the proteasome interaction network using a QTAX-based tag-team strategy and protein interaction network analysis
-
Guerrero C, Milenkovic T, Przulj N, Kaiser P, Huang L. 2008. Characterization of the proteasome interaction network using a QTAX-based tag-team strategy and protein interaction network analysis. Proc Natl Acad Sci USA 105:13333-13338.
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, pp. 13333-13338
-
-
Guerrero, C.1
Milenkovic, T.2
Przulj, N.3
Kaiser, P.4
Huang, L.5
-
34
-
-
33644670152
-
An integrated mass spectrometry-based proteomic approach: Quantitave analysis of tandem affinity-purified in vivo cross-linked protein complexes (QTAX) to decipher the 26 S proteasome-interacting network
-
DOI 10.1074/mcp.M500303-MCP200
-
Guerrero C, Tagwerker C, Kaiser P, Huang L. 2006. An integrated mass spectrometry-based proteomic approach: quantitative analysis of tandem afnity-purifed in vivo cross-linked protein complexes (QTAX) to decipher the 26 S proteasome-interacting network. Mol Cell Proteomics 5:366-378. (Pubitemid 43329314)
-
(2006)
Molecular and Cellular Proteomics
, vol.5
, Issue.2
, pp. 366-378
-
-
Guerrero, C.1
Tagwerker, C.2
Kaiser, P.3
Huang, L.4
-
35
-
-
0032875697
-
Quantitative analysis of complex protein mixtures using isotope-coded affinity tags
-
DOI 10.1038/13690
-
Gygi SP, Rist B, Gerber SA, Turecek F, Gelb MH, Aebersold R. 1999. Quantitative analysis of complex protein mixtures using isotope-coded afnity tags. Nat Biotechnol 17:994-999. (Pubitemid 29474856)
-
(1999)
Nature Biotechnology
, vol.17
, Issue.10
, pp. 994-999
-
-
Gygi, S.P.1
Rist, B.2
Gerber, S.A.3
Turecek, F.4
Gelb, M.H.5
Aebersold, R.6
-
36
-
-
27844593258
-
Laser flash photolysis of hydrogen peroxide to oxidize protein solvent-accessible residues on the microsecond timescale
-
DOI 10.1016/j.jasms.2005.09.008, PII S1044030505008159
-
Hambly DM, Gross ML. 2005. Laser fash photolysis of hydrogen peroxide to oxidize protein solvent-accessible residues on the microsecond timescale. J Am Soc Mass Spectrom 16:2057- 2063. (Pubitemid 41642969)
-
(2005)
Journal of the American Society for Mass Spectrometry
, vol.16
, Issue.12
, pp. 2057-2063
-
-
Hambly, D.M.1
Gross, M.L.2
-
37
-
-
33746495527
-
Hydrogen/deuterium-exchange (H/D-Ex) of PPARγ LBD in the presence of various modulators
-
DOI 10.1110/ps.062103006
-
Hamuro Y, Coales SJ, Morrow JA, Molnar KS, Tuske SJ, Southern MR, Grifn PR. 2006. Hydrogen/deuterium-exchange (H/D-Ex) of PPARgamma LBD in the presence of various modulators. Protein Sci 15:1883-1892. (Pubitemid 44141506)
-
(2006)
Protein Science
, vol.15
, Issue.8
, pp. 1883-1892
-
-
Hamuro, Y.1
Coales, S.J.2
Morrow, J.A.3
Molnar, K.S.4
Tuske, S.J.5
Southern, M.R.6
Griffin, P.R.7
-
38
-
-
0036428762
-
Phosphorylation driven motions in the COOH-terminal Src kinase, Csk, revealed through enhanced hydrogen-deuterium exchange and mass spectrometry (DXMS)
-
DOI 10.1016/S0022-2836(02)01003-3
-
Hamuro Y, Wong L, Shafer J, Kim JS, Stranz DD, Jennings PA, Woods VL Jr, Adams JA. 2002. Phosphorylation driven motions in the COOH-terminal Src kinase, CSK, revealed through enhanced hydrogen-deuterium exchange and mass spectrometry (DXMS). J Mol Biol 323:871-881. (Pubitemid 35341061)
-
(2002)
Journal of Molecular Biology
, vol.323
, Issue.5
, pp. 871-881
-
-
Hamuro, Y.1
Wong, L.2
Shaffer, J.3
Kim, J.S.4
Stranz, D.D.5
Jennings, P.A.6
Woods Jr., V.L.7
Adams, J.A.8
-
39
-
-
77954193701
-
Conformational analysis of membrane proteins in phospholipid bilayer nanodiscs by hydrogen exchange mass spectrometry
-
Hebling CM, Morgan CR, Staford DW, Jorgenson JW, Rand KD, Engen JR. 2010. Conformational analysis of membrane proteins in phospholipid bilayer nanodiscs by hydrogen exchange mass spectrometry. Anal Chem 82:5415-5419.
-
(2010)
Anal Chem
, vol.82
, pp. 5415-5419
-
-
Hebling, C.M.1
Morgan, C.R.2
Staford, D.W.3
Jorgenson, J.W.4
Rand, K.D.5
Engen, J.R.6
-
40
-
-
77954051527
-
Identifcation of beta-secretase (BACE1) substrates using quantitative proteomics
-
Hemming ML, Elias JE, Gygi SP, Selkoe DJ. 2009. Identifcation of beta-secretase (BACE1) substrates using quantitative proteomics. PLoS ONE 4:e8477.
-
(2009)
PLoS ONE
, vol.4
-
-
Hemming, M.L.1
Elias, J.E.2
Gygi, S.P.3
Selkoe, D.J.4
-
41
-
-
0035861570
-
Dynamic protein complexes: Insights from mass spectrometry
-
Hernández H, Robinson C V. 2001. Dynamic protein complexes: insights from mass spectrometry. J Biol Chem 276:46685-46688.
-
(2001)
J Biol Chem
, vol.276
, pp. 46685-46688
-
-
Hernández H, R.1
-
42
-
-
33646793360
-
Accumulation of altered proteins and ageing: Causes and effects
-
DOI 10.1016/j.exger.2006.03.004, PII S0531556506000702
-
Hipkiss AR. 2006. Accumulation of altered proteins and ageing: causes and efects. Exp Gerontol 41:464-473. (Pubitemid 43765899)
-
(2006)
Experimental Gerontology
, vol.41
, Issue.5
, pp. 464-473
-
-
Hipkiss, A.R.1
-
43
-
-
0035969987
-
Changes in protein conformational mobility upon activation of extracellular regulated protein kinase-2 as detected by hydrogen exchange
-
DOI 10.1073/pnas.98.3.956
-
Hoofnagle AN, Resing KA, Goldsmith EJ, Ahn NG. 2001. Changes in protein conformational mobility upon activation of extracellular regulated protein kinase-2 as detected by hydrogen exchange. Proc Natl Acad Sci USA 98:956-961. (Pubitemid 32121169)
-
(2001)
Proceedings of the National Academy of Sciences of the United States of America
, vol.98
, Issue.3
, pp. 956-961
-
-
Hoofnagle, A.N.1
Resing, K.A.2
Goldsmith, E.J.3
Ahn, N.G.4
-
44
-
-
78649887149
-
Improved strategies for rapid identifcation of chemically cross-linked peptides using protein interaction reporter technology
-
Hoopmann MR, Weisbrod CR, Bruce JE. 2010. Improved strategies for rapid identifcation of chemically cross-linked peptides using protein interaction reporter technology. J Proteome Res 9:6323-6333.
-
(2010)
J Proteome Res
, vol.9
, pp. 6323-6333
-
-
Hoopmann, M.R.1
Weisbrod, C.R.2
Bruce, J.E.3
-
45
-
-
33746034950
-
The role of protein dynamics in increasing binding affinity for an engineered protein-protein interaction established by H/D exchange mass spectrometry
-
DOI 10.1021/bi0604328
-
Horn JR, Kraybill B, Petro EJ, Coales SJ, Morrow JA, Hamuro Y, Kossiakof AA. 2006. The role of protein dynamics in increasing binding afnity for an engineered protein-protein interaction established by H/D exchange mass spectrometry. Biochemistry 45:8488-8498. (Pubitemid 44078868)
-
(2006)
Biochemistry
, vol.45
, Issue.28
, pp. 8488-8498
-
-
Horn, J.R.1
Kraybill, B.2
Petro, E.J.3
Coales, S.J.4
Morrow, J.A.5
Hamuro, Y.6
Kossiakoff, A.A.7
-
46
-
-
67650757736
-
Characterization of IgG1 conformation and conformational dynamics by hydrogen/deuterium exchange mass spectrometry
-
Houde D, Arndt J, Domeier W, Berkowitz S, Engen JR. 2009. Characterization of IgG1 conformation and conformational dynamics by hydrogen/deuterium exchange mass spectrometry. Anal Chem 81:5966.
-
(2009)
Anal Chem
, vol.81
, pp. 5966
-
-
Houde, D.1
Arndt, J.2
Domeier, W.3
Berkowitz, S.4
Engen, J.R.5
-
47
-
-
77955412238
-
Post-translational modifcations diferentially afect IgG1 conformation and receptor binding
-
Houde D, Peng Y, Berkowitz SA, Engen JR. 2010. Post-translational modifcations diferentially afect IgG1 conformation and receptor binding. Mol Cell Proteomics 9:1716-1728.
-
(2010)
Mol Cell Proteomics
, vol.9
, pp. 1716-1728
-
-
Houde, D.1
Peng, Y.2
Berkowitz, S.A.3
Engen, J.R.4
-
48
-
-
77952344256
-
Quantitative proteomics combined with BAC TransgeneOmics reveals in vivo protein interactions
-
Hubner NC, Bird AW, Cox J, Splettstoesser B, Bandilla P, Poser I, Hyman A, Mann M. 2010. Quantitative proteomics combined with BAC TransgeneOmics reveals in vivo protein interactions. J Cell Biol 189:739-754.
-
(2010)
J Cell Biol
, vol.189
, pp. 739-754
-
-
Hubner, N.C.1
Bird, A.W.2
Cox, J.3
Splettstoesser, B.4
Bandilla, P.5
Poser, I.6
Hyman, A.7
Mann, M.8
-
49
-
-
0035815111
-
Phosphorylation causes subtle changes in solvent accessibility at the interdomain interface of methylesterase CheB
-
DOI 10.1006/jmbi.2001.4523
-
Hughes CA, Mandell JG, Anand GS, Stock AM, Komives EA. 2001. Phosphorylation causes subtle changes in solvent accessibility at the interdomain interface of methylesterase CheB. J Mol Biol 307:967-976. (Pubitemid 33029946)
-
(2001)
Journal of Molecular Biology
, vol.307
, Issue.4
, pp. 967-976
-
-
Hughes, C.A.1
Mandell, J.G.2
Anand, G.S.3
Stock, A.M.4
Komives, E.A.5
-
50
-
-
0028921581
-
Calmodulin-binding domains: Just two faced or multi-faceted?
-
James P, Vorherr T, Carafoli E. 1995. Calmodulin-binding domains: just two faced or multi-faceted? Trends Biochem Sci 20:38-42.
-
(1995)
Trends Biochem Sci
, vol.20
, pp. 38-42
-
-
James, P.1
Vorherr, T.2
Carafoli, E.3
-
51
-
-
0032491199
-
Ligand-induced conformational change in transferrins: Crystal structure of the open form of the N-terminal half-molecule of human transferrin
-
DOI 10.1021/bi9812064
-
Jefrey PD, Bewley MC, MacGillivray RT, Mason AB, Woodworth RC, Baker EN. 1998. Ligand-induced conformational change in transferrins: crystal structure of the open form of the N-terminal half-molecule of human transferrin. Biochemistry 37:13978-13986. (Pubitemid 28471230)
-
(1998)
Biochemistry
, vol.37
, Issue.40
, pp. 13978-13986
-
-
Jeffrey, P.D.1
Bewley, M.C.2
MacGillivray, R.T.A.3
Mason, A.B.4
Woodworth, R.C.5
Baker, E.N.6
-
52
-
-
77950642747
-
Characterization of cell cycle specifc protein interaction networks of the yeast 26S proteasome complex by the QTAX strategy
-
Kaake RM, Milenkovic T, Przulj N, Kaiser P, Huang L. 2010a. Characterization of cell cycle specifc protein interaction networks of the yeast 26S proteasome complex by the QTAX strategy. J Proteome Res 9:2016-2029.
-
(2010)
J Proteome Res
, vol.9
, pp. 2016-2029
-
-
Kaake, R.M.1
Milenkovic, T.2
Przulj, N.3
Kaiser, P.4
Huang, L.5
-
53
-
-
77955345941
-
Profling of protein interaction networks of protein complexes using afnity purifcation and quantitative mass spectrometry
-
Kaake RM, Wang X, Huang L. 2010b. Profling of protein interaction networks of protein complexes using afnity purifcation and quantitative mass spectrometry. Mol Cell Proteomics 9:1650-1665.
-
(2010)
Mol Cell Proteomics
, vol.9
, pp. 1650-1665
-
-
Kaake, R.M.1
Wang, X.2
Huang, L.3
-
54
-
-
0037317303
-
A dynamic mechanism of nuclear receptor activation and its perturbation in a human disease
-
DOI 10.1038/nsb892
-
Kallenberger BC, Love JD, Chatterjee VK, Schwabe JW. 2003. A dynamic mechanism of nuclear receptor activation and its perturbation in a human disease. Nat Struct Biol 10:136-140. (Pubitemid 36177095)
-
(2003)
Nature Structural Biology
, vol.10
, Issue.2
, pp. 136-140
-
-
Kallenberger, B.C.1
Love, J.D.2
Chatterjee, V.K.K.3
Schwabe, J.W.R.4
-
55
-
-
33749011675
-
Investigation of structure, dynamics and function of metalloproteins with electrospray ionization mass spectrometry
-
DOI 10.1007/s00216-006-0636-6
-
Kaltashov IA, Zhang M, Eyles SJ, Abzalimov RR. 2006. Investigation of structure, dynamics and function of metalloproteins with electrospray ionization mass spectrometry. Anal Bioanal Chem 386:472-481. (Pubitemid 44450928)
-
(2006)
Analytical and Bioanalytical Chemistry
, vol.386
, Issue.3
, pp. 472-481
-
-
Kaltashov, I.A.1
Zhang, M.2
Eyles, S.J.3
Abzalimov, R.R.4
-
56
-
-
44049088958
-
ICPL-isotope-coded protein label
-
Kellermann J. 2008. ICPL-isotope-coded protein label. Methods Mol Biol 424:113-123.
-
(2008)
Methods Mol Biol
, vol.424
, pp. 113-123
-
-
Kellermann, J.1
-
57
-
-
0026662333
-
Use of engineered proteins with internal tryptophan reporter groups and pertubation techniques to probe the mechanism of ligand-protein interactions: Investigation of the mechanism of calcium binding to calmodulin
-
Kilhofer MC, Kubina M, Travers F, Haiech J. 1992. Use of engineered proteins with internal tryptophan reporter groups and pertubation techniques to probe the mechanism of ligand-protein interactions: investigation of the mechanism of calcium binding to calmodulin. Biochemistry 31:8098-8106.
-
(1992)
Biochemistry
, vol.31
, pp. 8098-8106
-
-
Kilhofer, M.C.1
Kubina, M.2
Travers, F.3
Haiech, J.4
-
58
-
-
48249094218
-
Discrimination between stable and dynamic components of protein complexes by means of quantitative proteomics
-
Kito K, Kawaguchi N, Okada S, Ito T. 2008. Discrimination between stable and dynamic components of protein complexes by means of quantitative proteomics. Proteomics 8:2366-2370.
-
(2008)
Proteomics
, vol.8
, pp. 2366-2370
-
-
Kito, K.1
Kawaguchi, N.2
Okada, S.3
Ito, T.4
-
59
-
-
65549129509
-
Quantitative strategies to fuel the merger of discovery and hypothesis-driven shotgun proteomics
-
Kline KG, Finney GL, Wu CC. 2009. Quantitative strategies to fuel the merger of discovery and hypothesis-driven shotgun proteomics. Brief Funct Genomic Proteomic 8:114-125.
-
(2009)
Brief Funct Genomic Proteomic
, vol.8
, pp. 114-125
-
-
Kline, K.G.1
Finney, G.L.2
Wu, C.C.3
-
60
-
-
0030827122
-
Acid-induced unfolding of cytochrome c at different methanol concentrations: Electrospray ionization mass spectrometry specifically monitors changes in the tertiary structure
-
DOI 10.1021/bi971266u
-
Konermann L, Douglas DJ. 1997. Acid-induced unfolding of cytochrome c at diferent methanol concentrations: electrospray ionization mass spectrometry specifcally monitors changes in the tertiary structure. Biochemistry 36:12296-12302. (Pubitemid 27440969)
-
(1997)
Biochemistry
, vol.36
, Issue.40
, pp. 12296-12302
-
-
Konermann, L.1
Douglas, D.J.2
-
61
-
-
49549086897
-
Protein structure and dynamics studied by mass spectrometry: H/D exchange, hydroxyl radical labeling, and related approaches
-
Konermann L, Tong X, Pan Y. 2008. Protein structure and dynamics studied by mass spectrometry: H/D exchange, hydroxyl radical labeling, and related approaches. J Mass Spectrom 43:1021-1036.
-
(2008)
J Mass Spectrom
, vol.43
, pp. 1021-1036
-
-
Konermann, L.1
Tong, X.2
Pan, Y.3
-
62
-
-
20344363684
-
Cell Signalling: Mechanism of divergent growth factor effects in mesenchymal stem cell differentiation
-
DOI 10.1126/science.1107627
-
Kratchmarova I, Blagoev B, Haack-Sorensen M, Kassem M, Mann M. 2005. Mechanism of divergent growth factor efects in mesenchymal stem cell diferentiation. Science 308:1472-1477. (Pubitemid 40791302)
-
(2005)
Science
, vol.308
, Issue.5727
, pp. 1472-1477
-
-
Kratchmarova, I.1
Blagoev, B.2
Haack-Sorensen, M.3
Kassem, M.4
Mann, M.5
-
63
-
-
33947174273
-
Towards quantitative analysis of proteome dynamics
-
DOI 10.1038/nbt0307-298, PII NBT0307298
-
Kühner S, Gavin AC. 2007. Towards quantitative analysis of proteome dynamics. Nat Biotechnol 25:298-300. (Pubitemid 46398762)
-
(2007)
Nature Biotechnology
, vol.25
, Issue.3
, pp. 298-300
-
-
Kuhner, S.1
Gavin, A.-C.2
-
64
-
-
0037462921
-
Identification of novel interactions in HIV-1 capsid protein assembly by high-resolution mass spectrometry
-
DOI 10.1016/S0022-2836(02)01245-7
-
Lanman J, Lam TT, Barnes S, Sakalian M, Emmett MR, Marshall AG, Prevelige PE Jr. 2003. Identifcation of novel interactions in HIV-1 capsid protein assembly by high-resolution mass spectrometry. J Mol Biol 325:759-772. (Pubitemid 36268696)
-
(2003)
Journal of Molecular Biology
, vol.325
, Issue.4
, pp. 759-772
-
-
Lanman, J.1
Lam, T.T.2
Barnes, S.3
Sakalian, M.4
Emmett, M.R.5
Marshall, A.G.6
Prevelige Jr., P.E.7
-
65
-
-
0033017467
-
Transition-state analogs as inhibitors of human and malarial hypoxanthine-guanine phosphoribosyltransferases
-
DOI 10.1038/9367
-
Li CM, Tyler PC, Furneaux RH, Kicska G, Xu Y, Grubmeyer C, Girvin ME, Schramm VL. 1999. Transition-state analogs as inhibitors of human and malarial hypoxanthine-guanine phosphoribosyltransferases. Nat Struct Biol 6:582-587. (Pubitemid 29252841)
-
(1999)
Nature Structural Biology
, vol.6
, Issue.6
, pp. 582-587
-
-
Li, C.M.1
Tyler, P.C.2
Furneaux, R.H.3
Kicska, G.4
Xu, Y.5
Grubmeyer, C.6
Girvin, M.E.7
Schramm, V.L.8
-
68
-
-
77249162697
-
Streamlined analysis schema for high-throughput identifcation of endogenous protein complexes
-
Malovannaya A, Li Y, Bulynko Y, Jung SY, Wang Y, Lanz RB, O'Malley BW, Qin J. 2010. Streamlined analysis schema for high-throughput identifcation of endogenous protein complexes. Proc Natl Acad Sci USA 107:2431-2436.
-
(2010)
Proc Natl Acad Sci USA
, vol.107
, pp. 2431-2436
-
-
Malovannaya, A.1
Li, Y.2
Bulynko, Y.3
Jung, S.Y.4
Wang, Y.5
Lanz, R.B.6
O'Malley, B.W.7
Qin, J.8
-
69
-
-
77953480345
-
Hydrogen exchange mass spectrometry: What is it and what can it tell us?
-
Marcsisin SR, Engen JR. 2010. Hydrogen exchange mass spectrometry: what is it and what can it tell us? Anal Bioanal Chem 397:967-972.
-
(2010)
Anal Bioanal Chem
, vol.397
, pp. 967-972
-
-
Marcsisin, S.R.1
Engen, J.R.2
-
70
-
-
60849098775
-
Temporal profling of the adipocyte proteome during diferentiation using a fve-plex SILAC based strategy
-
Molina H, Yang Y, Ruch T, Kim JW, Mortensen P, Otto T, Nalli A, Tang QQ, Lane MD, Chaerkady R, Pandey A. 2009. Temporal profling of the adipocyte proteome during diferentiation using a fve-plex SILAC based strategy. J Proteome Res 8:48-58.
-
(2009)
J Proteome Res
, vol.8
, pp. 48-58
-
-
Molina, H.1
Yang, Y.2
Ruch, T.3
Kim, J.W.4
Mortensen, P.5
Otto, T.6
Nalli, A.7
Tang, Q.Q.8
Lane, M.D.9
Chaerkady, R.10
Pandey, A.11
-
71
-
-
43849110454
-
Quantitative proteomics reveals regulation of dynamic components within TATA-binding protein (TBP) transcription complexes
-
DOI 10.1074/mcp.M700306-MCP200
-
Mousson F, Kolkman A, Pijnappel WW, Timmers HT, Heck AJ. 2008. Quantitative proteomics reveals regulation of dynamic components within TATA-binding protein (TBP) transcription complexes. Mol Cell Proteomics 7:845-852. (Pubitemid 351737086)
-
(2008)
Molecular and Cellular Proteomics
, vol.7
, Issue.5
, pp. 845-852
-
-
Mousson, F.1
Kolkman, A.2
Pijnappel, W.W.M.P.3
Timmers, H.Th.M.4
Heck, A.J.R.5
-
72
-
-
67349225422
-
New dimensions in the study of protein complexes using quantitative mass spectrometry
-
Oeljeklaus S, Meyer HE, Warscheid B. 2009. New dimensions in the study of protein complexes using quantitative mass spectrometry. FEBS Lett 583:1674-1683.
-
(2009)
FEBS Lett
, vol.583
, pp. 1674-1683
-
-
Oeljeklaus, S.1
Meyer, H.E.2
Warscheid, B.3
-
73
-
-
0036583926
-
Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics
-
Ong SE, Blagoev B, Kratchmarova I, Kristensen DB, Steen H, Pandey A, Mann M. 2002. Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics. Mol Cell Proteomics 1:376-386.
-
(2002)
Mol Cell Proteomics
, vol.1
, pp. 376-386
-
-
Ong, S.E.1
Blagoev, B.2
Kratchmarova, I.3
Kristensen, D.B.4
Steen, H.5
Pandey, A.6
Mann, M.7
-
74
-
-
34247642450
-
Quantitative proteomic analysis of distinct mammalian Mediator complexes using normalized spectral abundance factors
-
DOI 10.1073/pnas.0606379103
-
Paoletti AC, Parmely TJ, Tomomori-Sato C, Sato S, Zhu D, Conaway RC, Conaway JW, Florens L, Washburn MP. 2006. Quantitative proteomic analysis of distinct mammalian Mediator complexes using normalized spectral abundance factors. Proc Natl Acad Sci USA 103:18928-18933. (Pubitemid 350002805)
-
(2006)
Proceedings of the National Academy of Sciences of the United States of America
, vol.103
, Issue.50
, pp. 18928-18933
-
-
Paoletti, A.C.1
Parmely, T.J.2
Tomomori-Sato, C.3
Sato, S.4
Zhu, D.5
Conaway, R.C.6
Conaway, J.W.7
Florens, L.8
Washburn, M.P.9
-
75
-
-
41549117597
-
A quantitative analysis software tool for mass spectrometry-based proteomics
-
DOI 10.1038/nmeth.1195, PII NMETH.1195
-
Park SK, Venable JD, Xu T, Yates JR 3rd. 2008. A quantitative analysis software tool for mass spectrometry-based proteomics. Nat Methods 5:319-322. (Pubitemid 351459367)
-
(2008)
Nature Methods
, vol.5
, Issue.4
, pp. 319-322
-
-
Park, S.K.1
Venable, J.D.2
Xu, T.3
Yates III, J.R.4
-
77
-
-
42649131100
-
Statistical similarities between transcriptomics and quantitative shotgun proteomics data
-
DOI 10.1074/mcp.M700240-MCP200
-
Pavelka N, Fournier ML, Swanson SK, Pelizzola M, Ricciardi-Castagnoli P, Florens L, Washburn MP. 2008. Statistical similarities between transcriptomics and quantitative shotgun proteomics data. Mol Cell Proteomics 7:631-644. (Pubitemid 351597476)
-
(2008)
Molecular and Cellular Proteomics
, vol.7
, Issue.4
, pp. 631-644
-
-
Pavelka, N.1
Fournier, M.L.2
Swanson, S.K.3
Pelizzola, M.4
Ricciardi-Castagnoli, P.5
Florens, L.6
Washburn, M.P.7
-
78
-
-
39749146978
-
Quantitative proteomic analysis of protein complexes: Concurrent identifaction of interactors and their state of phosphorylation
-
DOI 10.1074/mcp.M700282-MCP200
-
Pfieger D, Jünger MA, Müller M, Rinner O, Lee H, Gehrig PM, Gstaiger M, Aebersold R. 2008. Quantitative proteomic analysis of protein complexes: concurrent identifcation of interactors and their state of phosphorylation. Mol Cell Proteomics 7:326-346. (Pubitemid 351298447)
-
(2008)
Molecular and Cellular Proteomics
, vol.7
, Issue.2
, pp. 326-346
-
-
Pflieger, D.1
Junger, M.A.2
Muller, M.3
Rinner, O.4
Lee, H.5
Gehrig, P.M.6
Gstaiger, M.7
Aebersold, R.8
-
79
-
-
76149105168
-
A P4-ATPase protein interaction network reveals a link between aminophospholipid transport and phosphoinositide metabolism
-
Puts CF, Lenoir G, Krijgsveld J, Williamson P, Holthuis JC. 2010. A P4-ATPase protein interaction network reveals a link between aminophospholipid transport and phosphoinositide metabolism. J Proteome Res 9:833-842.
-
(2010)
J Proteome Res
, vol.9
, pp. 833-842
-
-
Puts, C.F.1
Lenoir, G.2
Krijgsveld, J.3
Williamson, P.4
Holthuis, J.C.5
-
80
-
-
3042703022
-
Identification of TFB5, a new component of general transcription and DNA repair factor IIH
-
DOI 10.1038/ng1385
-
Ranish JA, Hahn S, Lu Y, Yi EC, Li XJ, Eng J, Aebersold R. 2004. Identifcation of TFB5, a new component of general transcription and DNA repair factor IIH. Nat Genet 36:707-713. (Pubitemid 38886631)
-
(2004)
Nature Genetics
, vol.36
, Issue.7
, pp. 707-713
-
-
Ranish, J.A.1
Hahn, S.2
Lu, Y.3
Yi, E.C.4
Li, X.-J.5
Eng, J.6
Aebersold, R.7
-
81
-
-
33947182552
-
An integrated mass spectrometric and computational framework for the analysis of protein interaction networks
-
DOI 10.1038/nbt1289, PII NBT1289
-
Rinner O, Mueller LN, Hubálek M, Müller M, Gstaiger M, Aebersold R. 2007. An integrated mass spectrometric and computational framework for the analysis of protein interaction networks. Nat Biotechnol 25:345-352. (Pubitemid 46398770)
-
(2007)
Nature Biotechnology
, vol.25
, Issue.3
, pp. 345-352
-
-
Rinner, O.1
Mueller, L.N.2
Hubalek, M.3
Muller, M.4
Gstaiger, M.5
Aebersold, R.6
-
82
-
-
19944432197
-
Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagents
-
Ross PL, Huang YN, Marchese JN, Williamson B, Parker K, Hattan S, Khainovski N, Pillai S, Dey S, Daniels S, Purkayastha S, Juhasz P, Martin S, Bartlet-Jones M, He F, Jacobson A, Pappin DJ. 2004. Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagents. Mol Cell Proteomics 3:1154-1169.
-
(2004)
Mol Cell Proteomics
, vol.3
, pp. 1154-1169
-
-
Ross, P.L.1
Huang, Y.N.2
Marchese, J.N.3
Williamson, B.4
Parker, K.5
Hattan, S.6
Khainovski, N.7
Pillai, S.8
Dey, S.9
Daniels, S.10
Purkayastha, S.11
Juhasz, P.12
Martin, S.13
Bartlet-Jones, M.14
He, F.15
Jacobson, A.16
Pappin, D.J.17
-
83
-
-
40349092949
-
Probabilistic assembly of human protein interaction networks from label-free quantitative proteomics
-
DOI 10.1073/pnas.0706983105
-
Sardiu ME, Cai Y, Jin J, Swanson SK, Conaway RC, Conaway JW, Florens L, Washburn MP. 2008. Probabilistic assembly of human protein interaction networks from label-free quantitative proteomics. Proc Natl Acad Sci USA 105:1454-1459. (Pubitemid 351346535)
-
(2008)
Proceedings of the National Academy of Sciences of the United States of America
, vol.105
, Issue.5
, pp. 1454-1459
-
-
Sardiu, M.E.1
Cai, Y.2
Jin, J.3
Swanson, S.K.4
Conaway, R.C.5
Conaway, J.W.6
Florens, L.7
Washburn, M.P.8
-
84
-
-
67049118963
-
Evaluation of clustering algorithms for protein complex and protein interaction network assembly
-
Sardiu ME, Florens L, Washburn MP. 2009a. Evaluation of clustering algorithms for protein complex and protein interaction network assembly. J Proteome Res 8:2944-2952.
-
(2009)
J Proteome Res
, vol.8
, pp. 2944-2952
-
-
Sardiu, M.E.1
Florens, L.2
Washburn, M.P.3
-
85
-
-
70350212549
-
Determining protein complex connectivity using a probabilistic deletion network derived from quantitative proteomics
-
Sardiu ME, Gilmore JM, Carrozza MJ, Li B, Workman JL, Florens L, Washburn MP. 2009b. Determining protein complex connectivity using a probabilistic deletion network derived from quantitative proteomics. PLoS ONE 4:e7310.
-
(2009)
PLoS ONE
, vol.4
-
-
Sardiu, M.E.1
Gilmore, J.M.2
Carrozza, M.J.3
Li, B.4
Workman, J.L.5
Florens, L.6
Washburn, M.P.7
-
86
-
-
13244260803
-
A novel strategy for quantitative proteomics using isotope-coded protein labels
-
DOI 10.1002/pmic.200400873
-
Schmidt A, Kellermann J, Lottspeich F. 2005. A novel strategy for quantitative proteomics using isotope-coded protein labels. Proteomics 5:4-15. (Pubitemid 40189632)
-
(2005)
Proteomics
, vol.5
, Issue.1
, pp. 4-15
-
-
Schmidt, A.1
Kellermann, J.2
Lottspeich, F.3
-
87
-
-
2542583141
-
Time-controlled transcardiac perfusion cross-linking for the study of protein interactions in complex tissues
-
DOI 10.1038/nbt969
-
Schmitt-Ulms G, Hansen K, Liu J, Cowdrey C, Yang J, DeArmond SJ, Cohen FE, Prusiner SB, Baldwin MA. 2004. Time-controlled transcardiac perfusion cross-linking for the study of protein interactions in complex tissues. Nat Biotechnol 22:724-731. (Pubitemid 38702829)
-
(2004)
Nature Biotechnology
, vol.22
, Issue.6
, pp. 724-731
-
-
Schmitt-Ulms, G.1
Hansen, K.2
Liu, J.3
Cowdrey, C.4
Yang, J.5
DeArmond, S.J.6
Cohen, F.E.7
Prusiner, S.B.8
Baldwin, M.A.9
-
88
-
-
33751230224
-
Protein interaction screening by quantitative immunoprecipitation combined with knockdown (QUICK)
-
DOI 10.1038/nmeth972, PII NMETH972
-
Selbach M, Mann M. 2006. Protein interaction screening by quantitative immunoprecipitation combined with knockdown (QUICK). Nat Methods 3:981-983. (Pubitemid 44782696)
-
(2006)
Nature Methods
, vol.3
, Issue.12
, pp. 981-983
-
-
Selbach, M.1
Mann, M.2
-
89
-
-
0842283944
-
Analysis of Protein Solvent Accessible Surfaces by Photochemical Oxidation and Mass Spectrometry
-
DOI 10.1021/ac0302004
-
Sharp JS, Becker JM, Hettich RL. 2004. Analysis of protein solvent accessible surfaces by photochemical oxidation and mass spectrometry. Anal Chem 76:672-683. (Pubitemid 38166573)
-
(2004)
Analytical Chemistry
, vol.76
, Issue.3
, pp. 672-683
-
-
Sharp, J.S.1
Becker, J.M.2
Hettich, R.L.3
-
90
-
-
0037442729
-
Protein surface mapping by chemical oxidation: Structural analysis by mass spectrometry
-
DOI 10.1016/S0003-2697(02)00612-7
-
Sharp JS, Becker JM, Hettich RL. 2003. Protein surface mapping by chemical oxidation: structural analysis by mass spectrometry. Anal Biochem 313:216-225. (Pubitemid 36259945)
-
(2003)
Analytical Biochemistry
, vol.313
, Issue.2
, pp. 216-225
-
-
Sharp, J.S.1
Becker, J.M.2
Hettich, R.L.3
-
91
-
-
0033519996
-
The 2.0 A structure of malarial purine phosphoribosyltransferase in complex with a transition-state analogue inhibitor
-
Shi W, Li CM, Tyler PC, Furneaux RH, Cahill SM, Girvin ME, Grubmeyer C, Schramm VL, Almo SC. 1999. The 2.0 A structure of malarial purine phosphoribosyltransferase in complex with a transition-state analogue inhibitor. Biochemistry 38:9872-9880.
-
(1999)
Biochemistry
, vol.38
, pp. 9872-9880
-
-
Shi, W.1
Li, C.M.2
Tyler, P.C.3
Furneaux, R.H.4
Cahill, S.M.5
Girvin, M.E.6
Grubmeyer, C.7
Schramm, V.L.8
Almo, S.C.9
-
92
-
-
0022405719
-
Multiple forms of the CheB methylesterase in bacterial chemosensing
-
Simms SA, Keane MG, Stock J. 1985. Multiple forms of the CheB methylesterase in bacterial chemosensing. J Biol Chem 260:10161-10168. (Pubitemid 16246549)
-
(1985)
Journal of Biological Chemistry
, vol.260
, Issue.18
, pp. 10161-10168
-
-
Simms, S.A.1
Keane, M.G.2
Stock, J.3
-
93
-
-
33745742438
-
Chemical cross-linking and mass spectrometry to map three-dimensional protein structures and protein-protein interactions
-
DOI 10.1002/mas.20082
-
Sinz A. 2006. Chemical cross-linking and mass spectrometry to map three-dimensional protein structures and protein-protein interactions. Mass Spectrom Rev 25:663-682. (Pubitemid 44014105)
-
(2006)
Mass Spectrometry Reviews
, vol.25
, Issue.4
, pp. 663-682
-
-
Sinz, A.1
-
94
-
-
35348859706
-
Investigation of protein-ligand interactions by mass spectrometry
-
Sinz A. 2007. Investigation of protein-ligand interactions by mass spectrometry. ChemMedChem 2:425-431.
-
(2007)
ChemMedChem
, vol.2
, pp. 425-431
-
-
Sinz, A.1
-
95
-
-
77956058146
-
Investigation of protein-protein interactions in living cells by chemical crosslinking and mass spectrometry
-
Sinz A. 2010. Investigation of protein-protein interactions in living cells by chemical crosslinking and mass spectrometry. Anal Bioanal Chem 397:3433-3440.
-
(2010)
Anal Bioanal Chem
, vol.397
, pp. 3433-3440
-
-
Sinz, A.1
-
96
-
-
67649634849
-
Defning the human deubiquitinating enzyme interaction landscape
-
Sowa ME, Bennett EJ, Gygi SP, Harper JW. 2009. Defning the human deubiquitinating enzyme interaction landscape. Cell 138:389-403.
-
(2009)
Cell
, vol.138
, pp. 389-403
-
-
Sowa, M.E.1
Bennett, E.J.2
Gygi, S.P.3
Harper, J.W.4
-
97
-
-
70349389516
-
Biomedical applications of protein microarrays
-
Spisák S, Guttman A. 2009. Biomedical applications of protein microarrays. Curr Med Chem 16:2806-2815.
-
(2009)
Curr Med Chem
, vol.16
, pp. 2806-2815
-
-
Spisák, S.1
Guttman, A.2
-
99
-
-
46849099222
-
Utility of formaldehyde cross-linking and mass spectrometry in the study of protein-protein interactions
-
DOI 10.1002/jms.1415
-
Sutherland BW, Toews J, Kast J. 2008. Utility of formaldehyde cross-linking and mass spectrometry in the study of protein-protein interactions. J Mass Spectrom 43:699-715. (Pubitemid 351954805)
-
(2008)
Journal of Mass Spectrometry
, vol.43
, Issue.6
, pp. 699-715
-
-
Sutherland, B.W.1
Toews, J.2
Kast, J.3
-
100
-
-
77957220498
-
Conformation changes in E. coli Rho monitored by hydrogen/deuterium exchange and mass spectrometry: Response to ligand binding
-
Stitt BL, Xiao H. 2010. Conformation changes in E. coli Rho monitored by hydrogen/deuterium exchange and mass spectrometry: response to ligand binding. J Mol Biol 402:813-824.
-
(2010)
J Mol Biol
, vol.402
, pp. 813-824
-
-
Stitt, B.L.1
Xiao, H.2
-
101
-
-
26844556166
-
I-DIRT, a general method for distinguishing between specific and nonspecific protein interactions
-
DOI 10.1021/pr050225e
-
Tackett AJ, DeGrasse JA, Sekedat MD, Oefnger M, Rout MP, Chait BT. 2005. I-DIRT, a general method for distinguishing between specifc and nonspecifc protein interactions. J Proteome Res 4:1752-1756. (Pubitemid 41464803)
-
(2005)
Journal of Proteome Research
, vol.4
, Issue.5
, pp. 1752-1756
-
-
Tackett, A.J.1
DeGrasse, J.A.2
Sekedat, M.D.3
Oeffinger, M.4
Rout, M.P.5
Chait, B.T.6
-
103
-
-
33745041235
-
Radiolytic protein footprinting with mass spectrometry to probe the structure of macromolecular complexes
-
DOI 10.1146/annurev.biophys.35.040405.102050
-
Takamoto K, Chance MR. 2006. Radiolytic protein footprinting with mass spectrometry to probe the structure of macromolecular complexes. Annu Rev Biophys Biomol Struct 35:251-276. (Pubitemid 43877378)
-
(2006)
Annual Review of Biophysics and Biomolecular Structure
, vol.35
, pp. 251-276
-
-
Takamoto, K.1
Chance, M.R.2
-
104
-
-
77952536672
-
A new cross-linking strategy: Protein interaction reporter (PIR) technology for protein-protein interaction studies
-
Tang X, Bruce JE. 2010. A new cross-linking strategy: protein interaction reporter (PIR) technology for protein-protein interaction studies. Mol Biosyst 6:939-947.
-
(2010)
Mol Biosyst
, vol.6
, pp. 939-947
-
-
Tang, X.1
Bruce, J.E.2
-
105
-
-
35448956141
-
Hydrogen/deuterium exchange-mass spectrometry: A powerful tool for probing protein structure, dynamics and interactions
-
DOI 10.2174/092986707781745596
-
Tsutsui Y, Wintrode PL. 2007. Hydrogen/deuterium exchange-mass spectrometry: a powerful tool for probing protein structure, dynamics and interactions. Curr Med Chem 14:2344-2358. (Pubitemid 47618043)
-
(2007)
Current Medicinal Chemistry
, vol.14
, Issue.22
, pp. 2344-2358
-
-
Tsutsui, Y.1
Wintrode, P.L.2
-
106
-
-
10644254712
-
Identification of protein-protein interactions using in vivo cross-linking and mass spectrometry
-
DOI 10.1002/pmic.200400856
-
Vasilescu J, Guo X, Kast J. 2004. Identifcation of protein-protein interactions using in vivo cross-linking and mass spectrometry. Proteomics 4:3845-3854. (Pubitemid 39657461)
-
(2004)
Proteomics
, vol.4
, Issue.12
, pp. 3845-3854
-
-
Vasilescu, J.1
Guo, X.2
Kast, J.3
-
107
-
-
33644761306
-
Hydrogen exchange mass spectrometry for the analysis of protein dynamics
-
Wales TE, Engen JR. 2006. Hydrogen exchange mass spectrometry for the analysis of protein dynamics. Mass Spectrom Rev 25: 158-170.
-
(2006)
Mass Spectrom Rev
, vol.25
, pp. 158-170
-
-
Wales, T.E.1
Engen, J.R.2
-
108
-
-
0032480809
-
Conformational and dynamic changes of Yersinia protein tyrosine phosphatase induced by ligand binding and active site mutation and revealed by H/D exchange and electrospray ionization fourier transform ion cyclotron resonance mass spectrometry
-
DOI 10.1021/bi981481q
-
Wang F, Li W, Emmett MR, Hendrickson CL, Marshall AG, Zhang YL, Wu L, Zhang ZY. 1998. Conformational and dynamic changes of Yersinia protein tyrosine phosphatase induced by ligand binding and active site mutation and revealed by H/D exchange and electrospray ionization Fourier transform ion cyclotron resonance mass spectrometry. Biochemistry 37:15289-15299. (Pubitemid 28515989)
-
(1998)
Biochemistry
, vol.37
, Issue.44
, pp. 15289-15299
-
-
Wang, F.1
Li, W.2
Emmett, M.R.3
Hendrickson, C.L.4
Marshall, A.G.5
Zhang, Y.-L.6
Wu, L.7
Zhang, Z.-Y.8
-
109
-
-
0035838469
-
A transition-state analogue reduces protein dynamics in hypoxanthine-guanine phosphoribosyltransferase
-
DOI 10.1021/bi010203f
-
Wang F, Shi W, Nieves E, Angeletti RH, Schramm VL, Grubmeyer C. 2001a. A transition-state analogue reduces protein dynamics in hypoxanthine-guanine phosphoribosyltransferase. Biochemistry 40:8043-8054. (Pubitemid 32641201)
-
(2001)
Biochemistry
, vol.40
, Issue.27
, pp. 8043-8054
-
-
Wang, F.1
Shi, W.2
Nieves, E.3
Angeletti, R.H.4
Schramm, V.L.5
Grubmeyer, C.6
-
110
-
-
0035019857
-
Detecting structural changes in viral capsids by hydrogen exchange and mass spectrometry
-
DOI 10.1110/ps.100101
-
Wang L, Lane LC, Smith DL. 2001b. Detecting structural changes in viral capsids by hydrogen exchange and mass spectrometry. Protein Sci 10:1234-1243. (Pubitemid 32476484)
-
(2001)
Protein Science
, vol.10
, Issue.6
, pp. 1234-1243
-
-
Wang, L.1
Lane, L.C.2
Smith, D.L.3
-
111
-
-
39049117451
-
Identifying dynamic interactors of protein complexes by quantitative mass spectrometry
-
DOI 10.1074/mcp.M700261-MCP200
-
Wang X, Huang L. 2008. Identifying dynamic interactors of protein complexes by quantitative mass spectrometry. Mol Cell Proteomics 7:46-57. (Pubitemid 351248233)
-
(2008)
Molecular and Cellular Proteomics
, vol.7
, Issue.1
, pp. 46-57
-
-
Wang, X.1
Huang, L.2
-
113
-
-
0042318880
-
Solution structure and dynamics of a heat shock protein assembly probed by hydrogen exchange and mass spectrometry
-
DOI 10.1021/bi034117m
-
Wintrode PL, Friedrich KL, Vierling E, Smith JB, Smith DL. 2003. Solution structure and dynamics of a heat shock protein assembly probed by hydrogen exchange and mass spectrometry. Biochemistry 42:10667-10673. (Pubitemid 37102106)
-
(2003)
Biochemistry
, vol.42
, Issue.36
, pp. 10667-10673
-
-
Wintrode, P.L.1
Friedrich, K.L.2
Vierling, E.3
Smith, J.B.4
Smith, D.L.5
-
114
-
-
34548337296
-
Hydroxyl radical-mediated modification of proteins as probes for structural proteomics
-
DOI 10.1021/cr0682047
-
Xu G, Chance MR. 2007. Hydroxyl radical-mediated modifcation of proteins as probes for structural proteomics. Chem Rev 107:3514-3543. (Pubitemid 47333548)
-
(2007)
Chemical Reviews
, vol.107
, Issue.8
, pp. 3514-3543
-
-
Xu, G.1
Chance, M.R.2
-
115
-
-
63049125531
-
Quantitative proteomics reveals the function of unconventional ubiquitin chains in proteasomal degradation
-
Xu P, Duong DM, Seyfried NT, Cheng D, Xie Y, Robert J, Rush J, Hochstrasser M, Finley D, Peng J. 2009. Quantitative proteomics reveals the function of unconventional ubiquitin chains in proteasomal degradation. Cell 137:133-145.
-
(2009)
Cell
, vol.137
, pp. 133-145
-
-
Xu, P.1
Duong, D.M.2
Seyfried, N.T.3
Cheng, D.4
Xie, Y.5
Robert, J.6
Rush, J.7
Hochstrasser, M.8
Finley, D.9
Peng, J.10
-
116
-
-
77952052526
-
Use of a label-free quantitative platform based on MS/MS average TIC to calculate dynamics of protein complexes in insulin signaling
-
Yang X, Friedman A, Nagpal S, Perrimon N, Asara JM. 2009. Use of a label-free quantitative platform based on MS/MS average TIC to calculate dynamics of protein complexes in insulin signaling. J Biomol Tech 20:272-277.
-
(2009)
J Biomol Tech
, vol.20
, pp. 272-277
-
-
Yang, X.1
Friedman, A.2
Nagpal, S.3
Perrimon, N.4
Asara, J.M.5
-
117
-
-
58149340844
-
Visualization of protein interactions in living cells
-
Zal T. 2008. Visualization of protein interactions in living cells. Adv Exp Med Biol 640:183-197.
-
(2008)
Adv Exp Med Biol
, vol.640
, pp. 183-197
-
-
Zal, T.1
-
118
-
-
11844258744
-
PLIMSTEX: A novel mass spectrometric method for the quantification of protein-ligand interactions in solution
-
DOI 10.1016/j.ijms.2004.09.012, PII S1387380604003938
-
Zhu MM, Chitta R, Gross ML. 2005. PLIMSTEX: a novel mass spectrometric method for the quantifcation of protein-ligand interactions in solution. Int J Mass Spectrom 240:213-220. (Pubitemid 40093976)
-
(2005)
International Journal of Mass Spectrometry
, vol.240
, Issue.SPEC. ISS. 3
, pp. 213-220
-
-
Zhu, M.M.1
Chitta, R.2
Gross, M.L.3
-
119
-
-
0038293125
-
Quantification of protein-ligand interactions by mass spectrometry, titration, and H/D exchange: PLIMSTEX
-
DOI 10.1021/ja029460d
-
Zhu MM, Rempel DL, Du Z, Gross ML. 2003a. Quantifcation of protein-ligand interactions by mass spectrometry, titration, and H/D exchange: PLIMSTEX. J Am Chem Soc 125:5252-5253. (Pubitemid 36582715)
-
(2003)
Journal of the American Chemical Society
, vol.125
, Issue.18
, pp. 5252-5253
-
-
Zhu, M.M.1
Rempel, D.L.2
Du, Z.3
Gross, M.L.4
-
120
-
-
0346431875
-
2+-Induced Conformational Changes in Porcine Calmodulin by H/D Exchange and ESI-MS: Effect of Cations and Ionic Strength
-
DOI 10.1021/bi035188o
-
Zhu MM, Rempel DL, Zhao J, Giblin DE, Gross ML. 2003b. Probing Ca2+-induced conformational changes in porcine calmodulin by H/D exchange and ESI-MS: efect of cations and ionic strength. Biochemistry 42:15388-15397. (Pubitemid 38035156)
-
(2003)
Biochemistry
, vol.42
, Issue.51
, pp. 15388-15397
-
-
Zhu, M.M.1
Rempel, D.L.2
Zhao, J.3
Giblin, D.E.4
Gross, M.L.5
-
121
-
-
80055122067
-
Isolation of labile multi-protein complexes by in vivo controlled cellular cross-linking and immuno-magnetic afnity chromatography
-
Zlatic SA, Ryder PV, Salazar G, Faundez V. 2010. Isolation of labile multi-protein complexes by in vivo controlled cellular cross-linking and immuno-magnetic afnity chromatography. J Vis Exp 37:pii1855.
-
(2010)
J Vis Exp
, vol.37
-
-
Zlatic, S.A.1
Ryder, P.V.2
Salazar, G.3
Faundez, V.4
-
122
-
-
33748319353
-
Statistical analysis of membrane proteome expression changes in Saccharomyces cerevisiae
-
DOI 10.1021/pr060161n
-
Zybailov B, Mosley AL, Sardiu ME, Coleman MK, Florens L, Washburn MP. 2006. Statistical analysis of membrane proteome expression changes in Saccharomyces cerevisiae. J Proteome Res 5:2339-2347. (Pubitemid 44330827)
-
(2006)
Journal of Proteome Research
, vol.5
, Issue.9
, pp. 2339-2347
-
-
Zybailov, B.1
Mosley, A.L.2
Sardiu, M.E.3
Coleman, M.K.4
Florens, L.5
Washburn, M.P.6
|