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Items: 16

1.

Multi-batch TMT reveals false positives, batch effects and missing values.

Brenes A, Hukelmann JL, Bensaddek D, Lamond AI.

Mol Cell Proteomics. 2019 Jul 22. pii: mcp.RA119.001472. doi: 10.1074/mcp.RA119.001472. [Epub ahead of print]

2.

Signal enhanced proteomics: a biological perspective on dissecting the functional organisation of cell proteomes.

Bensaddek D, Nicolas A, Lamond AI.

Curr Opin Chem Biol. 2019 Feb;48:114-122. doi: 10.1016/j.cbpa.2018.10.011. Epub 2018 Dec 11. Review.

PMID:
30551035
3.

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.

4.

Corrigendum: Common genetic variation drives molecular heterogeneity in human iPSCs.

Kilpinen H, Goncalves A, Leha A, Afzal V, Alasoo K, Ashford S, Bala S, Bensaddek D, Casale FP, Culley OJ, Danecek P, Faulconbridge A, Harrison PW, Kathuria A, McCarthy D, McCarthy SA, Meleckyte R, Memari Y, Moens N, Soares F, Mann A, Streeter I, Agu CA, Alderton A, Nelson R, Harper S, Patel M, White A, Patel SR, Clarke L, Halai R, Kirton CM, Kolb-Kokocinski A, Beales P, Birney E, Danovi D, Lamond AI, Ouwehand WH, Vallier L, Watt FM, Durbin R, Stegle O, Gaffney DJ.

Nature. 2017 Jun 29;546(7660):686. doi: 10.1038/nature23012. Epub 2017 Jun 14.

PMID:
28614302
5.

Common genetic variation drives molecular heterogeneity in human iPSCs.

Kilpinen H, Goncalves A, Leha A, Afzal V, Alasoo K, Ashford S, Bala S, Bensaddek D, Casale FP, Culley OJ, Danecek P, Faulconbridge A, Harrison PW, Kathuria A, McCarthy D, McCarthy SA, Meleckyte R, Memari Y, Moens N, Soares F, Mann A, Streeter I, Agu CA, Alderton A, Nelson R, Harper S, Patel M, White A, Patel SR, Clarke L, Halai R, Kirton CM, Kolb-Kokocinski A, Beales P, Birney E, Danovi D, Lamond AI, Ouwehand WH, Vallier L, Watt FM, Durbin R, Stegle O, Gaffney DJ.

Nature. 2017 Jun 15;546(7658):370-375. doi: 10.1038/nature22403. Epub 2017 May 10. Erratum in: Nature. 2017 Jun 29;546(7660):686.

6.

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, Lamond AI.

J Biol Chem. 2017 Jan 6;292(1):172-184. doi: 10.1074/jbc.M116.751024. Epub 2016 Nov 21.

7.

Unlocking the chromatin code by deciphering protein-DNA interactions.

Bensaddek D, Lamond AI.

Mol Syst Biol. 2016 Nov 10;12(11):887. doi: 10.15252/msb.20167332. No abstract available.

8.

Analysis of Mass Spectrometry Data for Nucleolar Proteomics Experiments.

Nicolas A, Bensaddek D, Lamond AI.

Methods Mol Biol. 2016;1455:263-76. doi: 10.1007/978-1-4939-3792-9_21.

PMID:
27576726
9.

Quantitative Proteomic Analysis of the Human Nucleolus.

Bensaddek D, Nicolas A, Lamond AI.

Methods Mol Biol. 2016;1455:249-62. doi: 10.1007/978-1-4939-3792-9_20.

PMID:
27576725
10.

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.

11.

Evaluating the use of HILIC in large-scale, multi dimensional proteomics: Horses for courses?

Bensaddek D, Nicolas A, Lamond AI.

Int J Mass Spectrom. 2015 Nov 30;391:105-114.

12.

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.

13.

Micro-proteomics with iterative data analysis: Proteome analysis in C. elegans at the single worm level.

Bensaddek D, Narayan V, Nicolas A, Murillo AB, Gartner A, Kenyon CJ, Lamond AI.

Proteomics. 2016 Feb;16(3):381-92. doi: 10.1002/pmic.201500264. Epub 2016 Jan 7.

14.

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 AI.

PLoS One. 2015 Sep 25;10(9):e0138668. doi: 10.1371/journal.pone.0138668. eCollection 2015.

15.

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.

16.

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.

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