2017


The Encyclopedia of Proteome Dynamics: a big data ecosystem for (prote)omics
Alejandro Brenes Vackar Afzal Robert Kent Angus I. Lamond
Nucleic Acids Research https://doi.org/10.1093/nar/gkx807

The Helicase Aquarius/EMB-4 Is Required to Overcome Intronic Barriers to Allow Nuclear RNAi Pathways to Heritably Silence Transcription.
Akay A, Di Domenico T, Suen KM, Nabih A, Parada GE, Larance M, Medhi R, Berkyurek AC, Zhang X, Wedeles CJ, Rudolph KLM, Engelhardt J, Hemberg M, Ma P, Lamond AI, Claycomb JM, Miska EA.
Dev Cell. 2017 Aug 7;42(3):241-255.e6. doi: 10.1016/j.devcel.2017.07.002. PubMed PMID: 28787591.

Multi-omics Analyses of Starvation Responses Reveal a Central Role for Lipoprotein Metabolism in Acute Starvation Survival in C. elegans.
Harvald EB, Sprenger RR, Dall KB, Ejsing CS, Nielsen R, Mandrup S, Murillo AB, Larance M, Gartner A, Lamond AI, Færgeman NJ.
Cell Syst. 2017 Jul 26;5(1):38-52.e4. doi: 10.1016/j.cels.2017.06.004. Epub 2017 Jul 19. PubMed PMID: 28734827.

Brd4-Brd2 isoform switching coordinates pluripotent exit and Smad2-dependent lineage specification.
Fernandez-Alonso R, Davidson L, Hukelmann J, Zengerle M, Prescott AR, Lamond A, Ciulli A, Sapkota GP, Findlay GM.
EMBO Rep. 2017 Jul;18(7):1108-1122. doi: 10.15252/embr.201643534. Epub 2017 Jun 6. PubMed PMID: 28588073; PubMed Central PMCID: PMC5494510.

Comparative genetic, proteomic and phosphoproteomic analysis of C. elegans embryos with a focus on ham-1/STOX and pig-1/MELK in dopaminergic neuron development.
Offenburger SL, Bensaddek D, Murillo AB, Lamond AI, Gartner A.
Sci Rep. 2017 Jun 28;7(1):4314. doi: 10.1038/s41598-017-04375-4. PubMed PMID: 28659600; PubMed Central PMCID: PMC5489525.


Common genetic variation drives molecular heterogeneity in human iPSCs
Helena Kilpinen, Angela Goncalves, Andreas Leha, Vackar Afzal, Kaur Alasoo, Sofie Ashford, Sendu Bala, Dalila Bensaddek, Francesco Paolo Casale, Oliver J Culley, Petr Danecek, Adam Faulconbridge, Peter W Harrison, Annie Kathuria, Davis McCarthy, Shane A McCarthy, Ruta Meleckyte, Yasin Memari, Nathalie Moens, Filipa Soares, Alice Mann, Ian Streeter, Chukwuma A Agu, Alex Alderton, Rachel Nelson et al.
Nature (2017) doi:10.1038/nature22403 Received 11 May 2016 Accepted 27 April 2017 Published online 10 May 2017

The Chromatin Assembly Factor Complex 1 (CAF1) and 5-Azacytidine (5-AzaC) Affect Cell Motility in Src-transformed Human Epithelial Cells
Endo, A., Ly, T., Pippa, R., Bensaddek, D., Nicolas, A. and Lamond A.I.
J Biol Chem. (2017) 292(1):172-184. doi: 10.1074/jbc.M116.751024. PMID: 27872192 / PMCID: PMC5217677

Human RIF1 and protein phosphatase 1 stimulate DNA replication origin licensing but suppress origin activation
Hiraga, S.I., Ly, T., Hořejší, Z., Ohkubo, Y.N., Endo, A., Obuse, C., Boulton, S.J., Lamond, A.I. and Donaldson, A.D.
EMBO Rep. (2017) pii: e201641983. doi: 10.15252/embr.201641983. PMID: 28077461


2016


Deep proteome analysis identifies new age-related processes in C.elegans
Narayan, V., Ly, T., Pourkarimi, E., Murillo, A.B., Gartner, A., Lamond, A.I. and Kenyon, C.
Cell Systems (2016) 3(2):144-59. doi: 10.1016/j.cels.2016.06.011. PMID 27453442

Enhanced snoMEN Vectors Facilitate Establishment of GFP-HIF-1α Protein Replacement Human Cell Lines.
Ono M, Yamada K, Bensaddek D, Afzal V, Biddlestone J, Ortmann B, Mudie S, Boivin V, Scott MS, Rocha S, Lamond AI.
PLoS One. 2016 Apr 29;11(4):e0154759. doi: 10.1371/journal.pone.0154759. eCollection 2016. PubMed PMID: 27128805; PubMed Central PMCID: PMC4851398.


Global Membrane Protein Interactome Analysis using In vivo Crosslinking and MS-based Protein Correlation Profiling. Mol Cell Proteomics.
Larance M, Kirkwood KJ, Tinti M, Murillo AB, Ferguson MA, Lamond AI. 2016 Apr 25. pii: mcp.O115.055467. [Epub ahead of print] PubMed PMID: 27114452.


CDK-dependent phosphorylation of PHD1 on serine 130 alters its substrate preference in cells
Ortmann B, Bensaddek D, Carvalhal S, Moser SC, Mudie S, Griffis ER, Swedlow JR, Lamond AI, Rocha S.
J Cell Sci. 2016 Jan 1;129(1):191-205. doi: 10.1242/jcs.179911. Epub 2015 Dec 7. PubMed PMID: 26644182; PubMed Central PMCID: PMC4732302.


The cytotoxic T cell proteome and its shaping by the kinase mTOR.
Hukelmann JL, Anderson KE, Sinclair LV, Grzes KM, Murillo AB, Hawkins PT, Stephens LR, Lamond AI, Cantrell DA.
Nat Immunol. 2016 Jan;17(1):104-12. doi: 10.1038/ni.3314. Epub 2015 Nov 9. PubMed PMID: 26551880; PubMed Central PMCID: PMC4685757.


Micro-proteomics with iterative data analysis: Proteome analysis in C. elegans at the single worm level.
Bensaddek D, Narayan V, Nicolas A, Brenes Murillo A, Gartner A, Kenyon CJ, Lamond AI.
Proteomics. 2016 Feb;16(3):381-92. doi: 10.1002/pmic.201500264. Epub 2016 Jan 7. PubMed PMID: 26552604.


2015


The cytotoxic T cell proteome and its shaping by the kinase mTOR.
Hukelmann JL, Anderson KE, Sinclair LV, Grzes KM, Murillo AB, Hawkins PT, Stephens LR, Lamond AI, Cantrell DA.
Nat Immunol. 2015 Nov 9. doi: 10.1038/ni.3314. [Epub ahead of print] PubMed PMID: 26551880.


Targeted Knock-Down of miR21 Primary Transcripts Using snoMEN Vectors Induces Apoptosis in Human Cancer Cell Lines
Ono M, Yamada K, Avolio F, Afzal V, Bensaddek D, Lamond A I.
PLoS One. 2015 Sep 25;10(9):e0138668. doi: 10.1371/journal.pone.0138668. eCollection 2015. PubMed PMID: 26405811; PubMed Central PMCID: PMC4583369.

Evaluating the use of HILIC in large-scale, multi dimensional proteomics: Horses for courses?
Bensaddek D, Nicolas A, Lamond A.I
2015, August 19. doi:10.1016/j.ijms.2015.07.029

Global proteomics analysis of the response to starvation in C. elegans. Mol Cell Proteomics.
Larance M, Pourkarimi E, Wang B, Murillo AB, Kent R, Lamond AI, Gartner A.
2015 May 11. pii: mcp.M114.044289. [Epub ahead of print]
PubMed PMID: 25963834.

The NEDD8 inhibitor MLN4924 increases the size of the nucleolus and activates p53 through the ribosomal-Mdm2 pathway.
Bailly A, Perrin A, Bou Malhab LJ, Pion E, Larance M, Nagala M, Smith P, O'Donohue MF, Gleizes PE, Zomerdijk J, Lamond AI, Xirodimas DP.
Oncogene. 2015, 1-12, Apr 13. doi: 10.1038/onc.2015.104. PubMed PMID: 25867069.


Multidimensional proteomics for cell biology.
Larance M, Lamond AI.
Nat Rev Mol Cell Biol. 2015 May;16(5):269-80. doi: 10.1038/nrm3970. Epub 2015 Apr 10.
PubMed PMID: 25857810.
www.nature.com/nrm/journal/v16/n5/full/nrm3970.html

Proteomic analysis of the response to cell cycle arrests in human myeloid leukemia cells
Ly, T., Endo A., Lamond A.I.
eLife 2015;4:e04534
DOI:10.7554/eLife.04534

Time-Lapse Imaging of Nuclear Bodies
Hutten, S., Swift, S., Lamond, AI.
Nuclear Bodies and Noncoding RNAs, Methods in Molecular Biology Volume 1262, 2015, pp 55-67
doi: 10.1007/978-1-4939-2253-6_4.
PMID:25555575


2014



FMDV replicons encoding green fluorescent protein are replication competent
Tulloch, F., Pathania, U., Luke, G.A., Nicholson, J., Stonehouse, N.J., Rowlands, D.J., Jackson, T., Tuthill, T., Haas, J., Lamond, A.I. and Ryan, M.
Journal of Virological Methods 2014, 209, 35-40
PMID: 25194890 doi: 10.1016/j.jviromet.2014.08.020.


Identification of small molecule inhibitors of pre-mRNA splicing.
Pawellek A, McElroy S, Samatov T, Mitchell L, Woodland A, Ryder U, Gray D, Lührmann R, Lamond AI.
J Biol Chem. 2014 Dec 12;289(50):34683-98. doi:10.1074/jbc.M114.590976.
Epub 2014 Oct 3. PubMed PMID: 25281741; PubMed Central PMCID: PMC4263873.


Proteomic and 3D structure analyses highlight the C/D box snoRNP assembly mechanism and its control
Bizarro, J., Charron, C., Boulon. S., Westman, B., Pradet-Balade, B., Vandermoere, F., Chagot, M., Hallais, M., Ahmad, Y., Leonhardt, H., Lamond, A., Manival, X., Branlant, C., Charpentier, B., Verheggen, C. and Bertrand, E.
J. Cell Biol. MS 201404160




A proteomic chronology of gene expression through the cell cycle in human myeloid leukemia cells.
Ly T, Ahmad Y, Shlien A, Soroka D, Mills A, Emanuele MJ, Stratton MR, Lamond AI.
Elife. 2014 March 4;3:e01630. doi: 10.7554/eLife.01630.
PubMed PMID: 24596151; PubMed Central PMCID: PMC3936288.

A role for theCB-associated SUMO isopeptidase USPL1 in RNAPII-mediated snRNA transcription.
Hutten S, Chachami G, Winter U, Melchior F, Lamond AI.
J Cell Sci. 2014 Jan 10. PubMed PMID: 24413172.


A perspective on proteomics in cell biology.
Ahmad Y, Lamond AI.
Trends Cell Biol. Volume 24, Issue 4, p257–264, April 2014 pii: S0962-8924(13)00191-8. doi: 10.1016/j.tcb.2013.10.010. PMC ID: 3989996







2013



Characterization of native protein complexes and protein isoform variation using size-fractionation-based quantitative proteomics.
Kirkwood KJ, Ahmad Y, Larance M, Lamond AI.
Mol Cell Proteomics. 2013 Dec;12(12):3851-73. doi:10.1074/mcp.M113.032367. Epub 2013 Sep 16. PubMed PMID: 24043423; PubMed Central PMCID: PMC3861729.


RNA-binding protein GLD-1/quaking genetically interacts with the mir-35 and the let-7 miRNA pathways in Caenorhabditis elegans.
Akay A, Craig A, Lehrbach N, Larance M, Pourkarimi E, Wright JE, Lamond A, Miska E, Gartner A. Open Biol.
2013 Nov 20;3(11):130151. doi: 10.1098/rsob.130151. PubMed PMID: 24258276; PubMed Central PMCID: PMC3843822.

PHD1 links cell-cycle progression to oxygen sensing through hydroxylation of the centrosomal protein Cep192.
Moser SC, Bensaddek D, Ortmann B, Maure JF, Mudie S, Blow JJ, Lamond AI, Swedlow JR, Rocha S.
Dev Cell. 2013 Aug 26;26(4):381-92. doi: 10.1016/j.devcel.2013.06.014. Epub 2013 Aug 8. PubMed PMID: 23932902; PubMed Central PMCID: PMC3757158.


Cleaning up the masses: exclusion lists to reduce contamination with HPLC-MS/MS.
Hodge K, Have ST, Hutton L, Lamond AI.
J Proteomics. 2013 Aug 2;88:92-103. doi:10.1016/j.jprot.2013.02.023. Epub 2013 Mar 15. PubMed PMID: 23501838; PubMed Central PMCID: PMC3714598.

FMN2 is a novel regulator of the cyclin-dependent kinase inhibitor p21.
Yamada K, Ono M, Bensaddek D, Lamond AI, Rocha S.
Cell Cycle 2013 Aug 1;12(15):2348-54. doi: 10.4161/cc.25511. Epub 2013 Jul 1. PubMed PMID: 23839046; PubMed Central PMCID: PMC3841313.

Modulation of Higher Order Chromatin Conformation in Mammalian Cell Nuclei Can Be Mediated by Polyamines and Divalent Cations.
Visvanathan A, Ahmed K, Even-Faitelson L, Lleres D, Bazett-Jones DP, Lamond AI.
PLoS One. 2013 Jun 26;8(6):e67689. Print 2013. PubMed PMID: 23840764; PubMed Central PMCID: PMC3694102.

Analysis of human protein replacement stable cell lines established using snoMEN-PR vector.
Ono M, Yamada K, Endo A, Avolio F, Lamond AI.
PLoS One. 2013 Apr 25;8(4):e62305. doi: 10.1371/journal.pone.0062305. Print 2013. PubMed PMID: 23638031; PubMed Central PMCID: PMC3636044.

Identification and functional characterization of FMN2, a regulator of the cyclin-dependent kinase inhibitor p21.
Yamada K, Ono M, Perkins ND, Rocha S, Lamond AI.
Mol Cell. 2013 Mar 7;49(5):922-33. doi: 10.1016/j.molcel.2012.12.023. Epub 2013 Jan 31. PubMed PMID: 23375502; PubMed Central PMCID: PMC3594747.

Global subcellular characterization of protein degradation using quantitative proteomics.
Larance M, Ahmad Y, Kirkwood KJ, Ly T, Lamond AI.
Mol Cell Proteomics. 2013 Mar;12(3):638-50. doi: 10.1074/mcp.M112.024547. Epub 2012 Dec 12. PubMed PMID: 23242552; PubMed Central PMCID: PMC3591657.


Plant SILAC: stable-isotope labelling with amino acids of arabidopsis seedlings for quantitative proteomics.
Lewandowska D, ten Have S, Hodge K, Tillemans V, Lamond AI, Brown JW.
PLoS One. 2013 Aug 20;8(8):e72207. doi:10.1371/journal.pone.0072207. eCollection 2013. PubMed PMID: 23977254; PubMed Central PMCID: PMC3748079.


2012

Human box C/D snoRNA processing conservation across multiple cell types.
Scott MS, Ono M, Yamada K, Endo A, Barton GJ, Lamond AI.
Nucleic Acids Res. 2012 Apr;40(8):3676-88. doi: 10.1093/nar/gkr1233. Epub 2011 Dec 22. PubMed PMID: 22199253; PubMed Central PMCID: PMC3333852.

Advancing cell biology through proteomics in space and time (PROSPECTS).
Lamond AI, Uhlen M, Horning S, Makarov A, Robinson CV, Serrano L, Hartl FU,
Baumeister W, Werenskiold AK, Andersen JS, Vorm O, Linial M, Aebersold R, Mann M.
Mol CellProteomics. 2012 Mar;11(3):O112.017731. doi: 10.1074/mcp.O112.017731. Epub 2012 Feb 6. PubMed PMID: 22311636; PubMed Central PMCID: PMC3316737.

Characterization of MRFAP1 Turnover and Interactions Downstream of the NEDD8 Pathway.
Larance M, Kirkwood KJ, Xirodimas DP, Lundberg E, Uhlen M, Lamond AI.
Mol Cell Proteomics. 2012 Mar;11(3) PubMed PMID: 22038470.

Systematic analysis of protein pools, isoforms and modifications affecting turnover and subcellular localisation.
Ahmad Y, Boisvert FM, Lundberg E, Uhlen M, Lamond AI.
Mol Cell Proteomics. 2012 Mar;11(3) PubMed PMID: 22002106.

A quantitative spatial proteomics analysis of proteome turnover in human cells.
Boisvert FM, Ahmad Y, Gierlinski M, Charrière F, Lamond D, Scott M, Barton G, Lamond AI.
Mol Cell Proteomics. 2012 Mar;11(3) PubMed PMID: 21937730.


2011

From snoRNA to miRNA: Dual function regulatory non-coding RNAs.
Scott MS, Ono M.
Biochimie. 2011 Nov. 93, 1987-1992.


Proteomics- Current Novelties and Future Directions.
ten Have S, Ahmad Y, Lamond AI
J Anal Bioanal Techniques S3:001. doi:10.4172/2155-9872.S3-001

Stable-isotope labeling with amino acids in nematodes.
Larance M, Bailly AP, Pourkarimi E, Hay RT, Buchanan G, Coulthurst S, Xirodimas DP, Gartner A, Lamond AI.
Nat Methods. 2011 Aug 28;8(10):849-51. doi: 10.1038/nmeth.1679. PubMed PMID: 21874007; PubMed Central PMCID: PMC3184259.

An intranucleolar body associated with rDNA.
Hutten S, Prescott A, James J, Riesenberg S, Boulon S, Lam YW, Lamond AI.
Chromosoma. 2011 Oct;120(5):481-99. Epub 2011 Jun 23. PubMed PMID: 21698343.

Mass spectrometry-based immuno-precipitation proteomics - The user's guide.
Ten Have S, Boulon S, Ahmad Y, Lamond AI.
Proteomics. 2011 Mar;11(6):1153-9. doi: 10.1002/pmic.201000548. Epub 2011 Feb 16.


PNAC: a protein nucleolar association classifier.
Scott MS, Boisvert FM, Lamond AI, Barton GJ.
BMC Genomics. 2011 Jan 27;12:74.


Identification of human miRNA precursors that resemble box C/D snoRNAs.
Ono M, Scott MS, Yamada K, Avolio F, Barton GJ, Lamond AI.
Nucleic Acids Res. 2011 Jan 18.

A role for SUMOylation in snoRNP biogenesis revealed by quantitative proteomics.
Westman BJ, Lamond AI.
Nucleus. 2011 Jan;2(1):30-7. PubMed PMID: 21647297; PubMed Central PMCID: PMC3104807.


2010

p53-Dependent subcellular proteome localization following DNA damage.
Boisvert FM, Lamond AI.
Proteomics. 2010 Nov;10(22):4087-97. doi: 10.1002/pmic.201000213. Epub 2010 Nov 2.

The nuclear ATPase/adenylate kinase hCINAP is recruited to perinucleolar caps generated upon RNA pol.II inhibition.
Malekkou A, Lederer CW, Lamond AI, Santama N.
FEBS Lett. 2010 Nov 19;584(22):4559-64. Epub 2010 Oct 26.


The nucleolus under stress.
Boulon S, Westman BJ, Hutten S, Boisvert FM, Lamond AI.
Mol Cell. 2010 Oct 22;40(2):216-27. Review.


RRP1B targets PP1 to mammalian cell nucleoli and is associated with Pre-60S ribosomal subunits.
Chamousset D, De Wever V, Moorhead GB, Chen Y, Boisvert FM, Lamond AI, Trinkle-Mulcahy L.
Mol Biol Cell. 2010 Dec;21(23):4212-26. Epub 2010 Oct 6.


Nuclear Speckles.
Spector DL, Lamond AI.
Cold Spring Harb Perspect Biol. 2010 Oct 6.


HSP90 and its R2TP/Prefoldin-like cochaperone are involved in the cytoplasmic assembly of RNA polymerase II.
Boulon S, Pradet-Balade B, Verheggen C, Molle D, Boireau S, Georgieva M, Azzag K, Robert MC, Ahmad Y, Neel H, Lamond AI, Bertrand E.
Mol Cell. 2010 Sep 24;39(6):912-24.

High-resolution whole-genome sequencing reveals that specific chromatin domains from most human chromosomes associate with nucleoli.
van Koningsbruggen S, Gierlinski M, Schofield P, Martin D, Barton GJ, Ariyurek Y, den Dunnen JT, Lamond AI.
Mol Biol Cell. 2010 Nov;21(21):3735-48. Epub 2010 Sep 8.


The serine/arginine-rich protein SF2/ASF regulates protein sumoylation.
Pelisch F, Gerez J, Druker J, Schor IE, Munoz MJ, Risso G, Petrillo E, Westman BJ, Lamond AI, Arzt E, Srebrow A.
Proc Natl Acad Sci U S A. 2010 Sep 14;107(37):16119-24. Epub 2010 Aug 30.


A proteomic screen for nucleolar SUMO targets shows SUMOylation modulates the function of Nop5/Nop58.
Westman BJ, Verheggen C, Hutten S, Lam YW, Bertrand E, Lamond AI
Mol Cell. 2010 Aug 27;39(4):618-31.


Live-cell imaging RNAi screen identifies PP2A-B55alpha and importin-beta1 as key mitotic exit regulators in human cells.
Schmitz MH, Held M, Janssens V, Hutchins JR, Hudecz O, Ivanova E, Goris J, Trinkle-Mulcahy L, Lamond AI, Poser I, Hyman AA, Mechtler K, Peters JM, Gerlich DW.
Nat Cell Biol. 2010 Sep;12(9):886-93. Epub 2010 Aug 15.

Characterization and prediction of protein nucleolar localization sequences.
Scott MS, Boisvert FM, McDowall MD, Lamond AI, Barton GJ.
Nucleic Acids Res. 2010 Nov 1;38(21):7388-99. Epub 2010 Jul 26.

Paraspeckles.
Fox AH, Lamond AI.
Cold Spring Harb Perspect Biol. 2010 Jul 1;2(7):a000687. Epub 2010 Jun 23.

Direct interaction between hnRNP-M and CDC5L/PLRG1 proteins affects alternative splice site choice.
Lleres D, Denegri M, Biggiogera M, Ajuh P, Lamond AI.
EMBO Rep. 2010 Jun;11(6):445-51. Epub 2010 May 14.

Analysis of Human Nucleolar snoRNAs and the Development of snoRNA Modulator of Gene Expression (snoMEN) Vectors.
Ono M, Yamada K, Avolio F, Scott MS, van Koningsbruggen S, Barton GJ, Lamond AI.
Mol Biol Cell. May 1;21(9):1569-84. Epub 2010 Mar 10.

A quantitative proteomics analysis of subcellular proteome localization and changes induced by DNA damage.
Boisvert FM, Lam YW, Lamont D, Lamond AI.
Mol Cell Proteomics. 2010 Mar;9(3):457-70.

Proteomics analysis of the nucleolus in adenovirus-infected cells.
Lam YW, Evans VC, Heesom KJ, Lamond AI, Matthews DA.
Mol Cell Proteomics. 2010 Jan;9(1):117-30.


Establishment of a protein frequency library and its application in the reliable identification of specific protein interaction partners.
Boulon S, Ahmad Y, Trinkle-Mulcahy L, Verheggen C, Cobley A, Gregor P, Bertrand E, Whitehorn M, Lamond AI.
Mol Cell Proteomics
2010 May;9(5):861-79.



2009



Cell fate decisions are specified by the dynamic ERK interactome.
von Kriegsheim A, Baiocchi D, Birtwistle M, Sumpton D, Bienvenut W, Morrice N, Yamada K, Lamond A, Kalna G, Orton R, Gilbert D, Kolch W.
Nat Cell Biol. 2009 Dec;11(12):1458-64. Epub 2009 Nov 22.


Quantitative analysis of chromatin compaction in living cells using FLIM-FRET.
Lleres D, James J, Swift S, Norman DG, Lamond AI.
J Cell Biol. 2009 Nov 16;187(4):481-96.


Blom7alpha is a novel heterogeneous nuclear ribonucleoprotein K homology domain protein involved in pre-mRNA splicing that interacts with SNEVPrp19-Pso4.
Grillari J, Loscher M, Denegri M, Lee K, Fortschegger K, Eisenhaber F, Ajuh P, Lamond AI, Katinger H, Grillari-Voglauer R.
J Biol Chem. 2009 Oct 16;284(42):29193-204.


Human miRNA precursors with box H/ACA snoRNA features
Scott MS, Avolio F, Ono M, Lamond AI, Barton GJ.
PLoS Comput Biol. 2009 Sep;5(9):e1000507.


2008

Reversible accumulation of PEGylated single-walled carbon nanotubes in the mammalian nucleus. (2009)
Cheng J, Fernando KA, Veca LM, Sun YP, Lamond AI, Lam YW, Cheng SH.
ACS Nano. 2008 Oct. 28;2(10):2085-94.


NOPdb: Nucleolar Proteome Database--2008 update.
Ahmad Y, Boisvert FM, Gregor P, Cobley A, Lamond AI.
Nucleic Acids Res. Jan;37(Database issue):D181-4. Epub 2008 Nov 4.
2008


Reversible accumulation of PEGylated single-walled carbon nanotubes in the mammalian nucleus. (2008)
Cheng J, Fernando KA, Veca LM, Sun YP, Lamond AI, Lam YW, Cheng SH. ACS Nano. 2008 Oct 28;2(10):2085-94.


Displacement affinity chromatography of protein phosphatase one (PP1) complexes. (2008)
Moorhead GB, Trinkle-Mulcahy L, Nimick M, De Wever V, Campbell DG, Gourlay R, Lam YW, Lamond AI. BMC Biochem. Nov 10;9:28.


Detecting protein-protein interactions in vivo with FRET using multiphoton fluorescence lifetime imaging microscopy (FLIM). (2008)
Lleres D, Swift S, Lamond AI. Curr Protoc Cytom. Oct;Chapter 12:Unit12.10.

Where in the cell is the minor spliceosome? (2008)
Steitz JA, Dreyfuss G, Krainer AR, Lamond AI, Matera AG, Padgett RA. Proc Natl Acad Sci U S A. 105(25): 8485-6.

Ellis 2008 Front PageSpatial mapping of splicing factor complexes involved in exon and intron definition. (2008)
Ellis, J.D., Lleres, D., Denegri, M., Lamond, A.I. and Caceres, J.F. J Cell Biol. 181:921-934.


Nuclear functions in space and time: Gene expression in a dynamic, constrained environment. (2008)
Trinkle-Mulcahy, L. and Lamond, A.I. FEBS Lett. 582:1960-70.


2007

Toward a high-resolution view of nuclear dynamics. (2007) Trinkle-Mulcahy, L. and Lamond, A.I. Science. 318:1402-07.

The nuclear PP1 interacting protein ZAP3 (ZAP) is a putative nucleoside kinase that complexes with SAM68, CIA, NF110/45, and HNRNP-G. (2007) Ulke-Lem�e A, Trinkle-Mulcahy L, Chaulk S, Bernstein NK, Morrice N, Glover M, Lamond AI, Moorhead GB. Biochim Biophys Acta. 10:1339-50.


RNA polymerase II transcription in living color. (2007) Lamond, A.I. and Swedlow, J.R (2007) Nat. Struct. Mol. Biol. 14:796-806.


In vivo identification of human SUMO polymerization sites by high accuracy mass spectrometry and an in vitro to in vivo strategy. (2007) Matic, I., van Hagen, M., Schimmel, J., Macek, B., Ogg, S.C., Tatham, M.H., Hay, R.T., Lamond, A.I., Mann, M. and Vertegaal, A.C. Mol. Cell Proteomics, 7:132-44.


Two distinct arginine methyltransferases are required for biogenesis of Sm-class ribonucleoproteins. (2007) Gonsalvez, G.B., Tian, L., Ospina, J.K., Boisvert, F.M., Lamond, A.I. and Matera, A.G. J. Cell Biol. 178:733-40.

The multifunctional nucleolus. (2007) Boisvert, F.M., van Koningsbruggen, S., Navascues, J. and Lamond, A.I. Nat. Rev. Mol. Cell. Biol. 8:574-85.

Analysis of nucleolar protein dynamics reveals the nuclear degradation of ribosomal proteins. (2007) Lam, Y.W., Lamond, A.I., Mann, M. and Andersen, J.S. Curr. Biol. 17:749-60.


Detecting Protein-Protein Interactions In Vivo with FRET using Multiphoton Fluorescence Lifetime Imaging Microscopy (FLIM) (2007) Lleres, D. Swift, S. and Lamond, A.I. Curr. Protocol. Cytom.(2007). 42:12.10.1-12.10.19.

2006

Distinct and overlapping sets of SUMO-1 and SUMO-2 target proteins revealed by quantitative proteomics (2006) Vertegaal, A.C., Andersen, J.S., Ogg, S.C., Hay, R.T., Mann, M.. and Lamond, A.I. Mol. Cell Proteomics. 12:2298-310.


Mitotic phosphatases: no longer silent partners (2006) Trinkle-Mulcahy, L. and Lamond, A.I. Curr. Opinion in Cell Biol. 18:623-31.


UV-induced fragmentation of Cajal bodies (2006) Cioce, M. Boulon, S., Matera, A.G. and Lamond, A.I. J. Cell Biol. 175:401-13.


Condensin and Repo-Man/PP1 co-operate in the regulation of chromosome architecture during mitosis (2006) Vagnarelli, P., Hudson, D.F., Ribeiro, S.A., Trinkle-Mulcahy, L., Spence, J.M., Lai, F., Farr, C.J., Lamond, A.I. and W.C. Earnshaw. Nat. Cell Biol. 8:1133-42.



Repo-Man recruits PP1γ to chromatin and is essential for cell viability (2006)
Trinkle-Mulcahy, L., Andersen, J., Lam, Y.W., Moorhead, G., Mann, M. and Lamond, A.I. . J. Cell Biol. 172:679-92.

Trinkle 2006 Front Page

Visualization of intracellular PP1 targeting through transiently and stably expressed fluorescent protein fusions (2006) Trinkle-Mulcahy, L., Chusainow, J., Lam, Y.W., Swift, S. and Lamond, A.I. Methods in Molecular Biology. 365:133-54.

NoPdb: Nucleolar Proteome Database (2006)
Leung, A.K., Trinkle-Mulcahy, L., Lam, Y.W., Andersen, J.S., Mann, M. and Lamond, A.I. Nucleic Acids Res. 34:D218-20, 2006.

2005

P54nrb forms a heterodimer with PSP1 that localises to paraspeckles in a RNA-dependent manner.; Fox AH., Bond CS. and Lamond AI. (2005) Mol. Biol. Cell 16:5304-5315.

Characterization of hCINAP, a novel coilin-interacting protein encoded by a transcript from the transcription factor TAFIID32 locus (2005) Santama, N., Ogg, S.C., Malekkou, A., Zographos, S.E., Weis, K. and A.I. Lamond. J. Biol. Chem. 280:36429-41.

FRET analyses of the U2AF complex localize the U2AF35/U2AF65 interaction in vivo and reveal a novel self-interaction of U2AF35 (2005) Chusainow, J. Ajuh, P.M., Trinkle-Mulcahy, L., Sleeman, J.E., Ellenberg, J. and A.I.Lamond (2005) RNA, 11:1201-14.

Cajal bodies: a long history of discovery (2005) Cioce, M. and A.I. Lamond. Annu. Rev. Cell Dev. Biol. 21:105-31.

Lam 2005 Front PageLam, Y.W., Trinkle-Mulcahy, L. and Lamond, A.I. The Nucleolus. J. Cell Sci., 118:1335-1337, 2005.
Nucleolar proteome dynamics (2005) Andersen JS, Lam YW, Leung AK, Ong SE, Lyon CE, Lamond AI, Mann M. Nature, 433:77-83.

Condensed mitotic chromatin is accessible to transcription factors and chromatin structural proteins (2005) Chen D, Dundr M, Wang C, Leung A, Lamond A, Misteli T, Huang S J. Cell Biol., 168:41-54.


Interaction of U-box E3 ligase SNEV with PSMB4, the beta7 subunit of the 20S proteasome (2005) Loscher, M., Fortschegger, K., Ritter, G., Wostry, M., Voglauer, R., Schmid, J.A., Watters, S., Rivett, A.J., Ajuh, P.M., Lamond, A.I., Katinger, H. and J. Grillari. Biochem. J. 388:593-603.

Proteomic analysis of the Arabidopsis nucleolus suggests novel nucleolar functions (2005) Pendle, A.F., Clark, G.P., Boon, R., Lewandowska, D., Lam, Y.W., Andersen, J., Mann, M., Lamond, A.I., Brown, J.W. and P.J. Shaw. Mol. Biol. Cell, 16:260-9.

2004

Quantitative kinetic analysis of nucleolar breakdown and reassembly during mitosis in live human cells �(2004) Leung, A.K.L., Gerlich, D., Miller, G., Lyon, C., Lam, Y.W., Lleres, D., Daigle, N., Zomerdijk, J., Ellenberg, J. and Lamond, A.I. J. Cell Biol., 166:787-800.

A Proteomic Study of SUMO-2 Target Proteins (2004) Vertegaal, A.C.O., Ogg, S.C., Jaffray, E., Rodriguez, M.S., Hay, R.T., Andersen, J.S., Mann, M. and Lamond, A.I. J.Biol. Chem., 279:33791-33798.

Swift 2004 Front PageSwift, S.R. and L. Trinkle-Mulcahy. Basic principles of FRAP, FLIM and FRET. Proc. Royal Mic. Soc., 39:3-10, 2004.

3D3/lyric: a novel transmembrane protein of the endoplasmic reticulum and nuclear envelope, which is also present in the nucleolus; Sutherland H.G., Lam Y.W., Briers S., Lamond A.I. and Bickmore W.A. (2004) Exp. Cell Res., 294, pp. 94-105.

Proteomics of the Nucleus; Lam, Y.W., Fox, A.H., Leung, A.K., Andersen, J., Mann, M. and Lamond, A.I. (2004) in The Nucleolus Olsen, Mark O.J. (Ed) Kluwer Academic/Plenum 16 pp. 302-314.

Nuclear organisation and subnuclear bodies (2004) Platani M. and A.I. Lamond. Prog. Mol. Subcell. Biol. 35:1-22.

2003

Nuclear substructure and dynamics (2003) Lamond, A.I. and Sleeman, J.E. Curr. Biol.13:R825-R828.

Identification of peptide inhibitors of pre-mRNA splicing derived from the essential interaction domains of CDC5L and PLRG1 (2003) Ajuh, P.M. and Lamond, A.I. Nucleic Acids Res., 31:6104-16.

Bioinformatic analysis of the nucleolus (2003) Leung, A.K.L., Andersen, J.S., Mann, M. and Lamond, A.I. Biochem. J., 376:553-69.

Proteomics of the nucleolus (2003) Lam, Y.W., Fox, A.H., Leung, A.K.L., Andersen, J., Mann, M. and Lamond, A.I. In The Nucleolus, M. Olson Editor, Landes Bioscience, In Press.

hLodestar/HuF2 interacts with CDC5L and is involved in pre-mRNA splicing (2003) Leonard, D., Ajuh, P., Lamond, A.I. and Legerski, R.J. Biochem. Biophys. Res. Commun., 308:793-801.

Nuclear speckles: a model for nuclear organelles (2003) Lamond, A.I. and Spector, D.L. Nat. Rev. Mol. Cell Biol. 4:605-12.

The dynamics of the nucleolus (2003) Leung, A.K.L. and Lamond, A.I. Critical Reviews in Eukaryotic Gene Expression, 13:49-64.

Cajal body proteins SMN and Coilin show differential dynamic behavious in vivo (2003) Sleeman, J.E., Trinkle-Mulcahy, L., Prescott, A., Ogg, S.C. and Angus I. Lamond. J. Cell Sci., 116:2039-2050.

Protein phosphatase 4 interacts with the Survival of Motor Neurons complex and enhances the temporal localisation of snRNPs . (2003) Carnegie, G.K., Sleeman, J.E., Morrice, N., Hastie, C.J., Peggie, M.W., Philp, A., Lamond, A.I. and Patricia T. W. Cohen . J. Cell Sci., 116:1905-1913.

Trinkle 2003 Front PageTrinkle-Mulcahy, L., Andrews, P.D., Wickramasinghe, S., Sleeman, J., Prescott, A., Lam, Y.W., Lyon, C., Swedlow, J.R. and Lamond, A.I. Time-lapse imaging reveals dynamic relocalization of PP1γ throughout the mammalian cell cycle. Mol. Biol. Cell, 14:107-117, 2003.


2002

A novel function for human factor C1 (HCF-1), a host protein required for herpes simplex virus infection, in pre-mRNA splicing. (2002) Ajuh, P., Chusainow, J., Ryder, U. and Angus I. Lamond. EMBO J, 21 (23): 6590-6602.

Cajal bodies and coilin-moving towards function. (2002) Ogg, S.C. and Lamond, A.I. Journal of Cell Biology, 159:17-21.

Large-scale isolation of Cajal bodies from HeLa cells. (2002) Lam, Y.W., Lyon, C. and Lamond, A.I. Molecular Biology of the Cell, 13:2461-2473.

Cajal Body dynamics and association with chromatin are ATP-dependent.. Platani M, Goldberg I, Lamond AI, Swedlow JR. (2002) Nature Cell Biology, 4:502-508.

Large-scale proteomic analysis of the human spliceosome. Rappsilber, J., Ryder, U., Lamond, A. I. and Mann, M. (2002) Genome Research 8:1231-1245.

Splicing regulation at the second catalytic step by Sex-lethal involves 3' splice site recognition by SPF45. Lallena, M. J. Chalmers, K. J. Llamazares, S. Lamond, A. I. and Valcarcel, J. (2002) Cell 109:285-296.

In vivo analysis of NHPX reveals a novel nucleolar localization pathway involving a transient accumulation in splicing speckles. A.K.L. Leung and A.I. Lamond (2002) The Journal of Cell Biology, 157:615-629.

Nuclear Proteins Get Around: View Comments on article in JCB



Yeast Pescadillo is required for multiple activities during 60S ribosomal subunit synthesis. Oeffinger, M., Leung, A., Lamond, A. and Tollervey, D. (2002) RNA, 8:626-636.

Directed Proteomic Analysis of the Human Nucleolus; Andersen, J.S., Lyon, C.E., Fox, A., Leung, A., Lam, Y.W., Steen, H., Mann, M. and Lamond, A.I. (2002) Current Biology, 12:1-11.

Our Nucleolar Protein Database, an online accompaniment to our proteomic study of purified mammalian nucleoli, is now available


Paraspeckles: A novel nuclear domain; Fox, A.H., Lam, Y.W., Leung, A., Lyon, C., Andersen, J., Mann, M. and Lamond, A.I. (2002) Current Biology, 12:13-25.

2001

snRNP protein expression enhances the formation of Cajal bodies containing p80-coilin and SMN ; Sleeman, J.E., Ajuh, P.M. and Lamond, A.I. (2001) J. Cell Sci. 114:4407-4419.

A direct interaction between the carboxyl terminal region of CDC5L and the WD40 domain of PLRG1 is essential for pre-mRNA splicing; Ajuh, P., Sleeman, J., Chusainow, J. and Lamond, A.I. (2001) J. Biol. Chem. 276:42370-42381.

Dynamic targeting of protein phosphatase 1 within the nuclei of living mammalian cells; Trinkle-Mulcahy, L., Sleeman, J. and Lamond, A.I. (2001) J. Cell Sci.114:4219-4228.

SPF30, an essential human splice factor required for assembly of U4/U5/U6 tri-snRNP into the spliceosome. Rappsilber, J., Ajuh, P.M., Lamond, A.I. and Mann, M. (2001) J. Biol. Chem. 276:31142-31150.

Nuclear dynamics: where genes are and how they got there. �Swedlow, J.R. and Lamond, A.I. (2001) Genome Biology. 2:3.

2000

In vivo analysis of cajal body movement, separation and joining in live human cells. �Platani, M., Goldberg, I., Swedlow, J.R. and Lamond, A.I. (2000) J.Cell Biol. 151:1561-1574.

Functional analysis of the human CDC5L complex and identification of its components by mass spectrometry. Ajuh, P.M., Kuster, B., Panov, K., Zomerdijk, J.C.B.M., Mann, M. and Lamond, A.I. (2000) EMBO J. 19:6569-81.

Functional coexpression of serine protein kinase SRPK1 and its substrate ASF/SF2 in Escherichia coli. Yue B.G., Ajuh P., Akusjarvi G., Lamond A.I., Kreivi J.P. (2000) Nucleic Acids Res Mar 1;28(5):E14.

PRCC, the commonest TFE3 fusion partner in papillary renal carcinoma is associated with pre-mRNA splicing factors. Skalsky, Y.M., Ajuh, P.M., Parker, C., Lamond, A.I., Goodwin, G., Cooper, C.S. (2001) Oncogene Jan 11;19(2):178-187.

The nucleolus (Quick Guide). Lyon, C.E. and Lamond, A.I. (2000) Current Biology 10:R23.

Association of a protein phosphatase 1 activity with the human factor C1 (HCF) complex; Ajuh, P.M., Brown, G.J., Hawkes, N.A., Cohen, P.T.W., Roberts, S.G.E. and Lamond, A.I. (2000) Nucleic Acids Research 28: 678-686.

1999

Newly assembled snRNPs associate with coiled bodies before speckles, suggesting a nuclear snRNP maturation pathway; Sleeman, J.E. and Lamond, A.I. (1999) Current Biology 9, pp 1065-1074.

Nuclear organization of pre-mRNA splicing factors; Sleeman, J.E. and Lamond, A.I. (1999) Current Opinions in Cell Biology 11, pp 372-377.

Nuclear organisation of NIPP1, a regulatory subunit of protein phosphatase 1 that associates with pre-mRNA splicing factors; Trinkle-Mulcahy, L., Ajuh, P., Prescott, A., Claverie-Martin, F., Cohen, Stanley, Lamond, A.I. and Cohen, P. (1999) Journal of Cell Science 112, pp 157-168.

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