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Items: 33

1.

N-Glycoproteomics of Patient-Derived Xenografts: A Strategy to Discover Tumor-Associated Proteins in High-Grade Serous Ovarian Cancer.

Sinha A, Hussain A, Ignatchenko V, Ignatchenko A, Tang KH, Ho VWH, Neel BG, Clarke B, Bernardini MQ, Ailles L, Kislinger T.

Cell Syst. 2019 Apr 24;8(4):345-351.e4. doi: 10.1016/j.cels.2019.03.011. Epub 2019 Apr 10.

2.

The Proteogenomic Landscape of Curable Prostate Cancer.

Sinha A, Huang V, Livingstone J, Wang J, Fox NS, Kurganovs N, Ignatchenko V, Fritsch K, Donmez N, Heisler LE, Shiah YJ, Yao CQ, Alfaro JA, Volik S, Lapuk A, Fraser M, Kron K, Murison A, Lupien M, Sahinalp C, Collins CC, Tetu B, Masoomian M, Berman DM, van der Kwast T, Bristow RG, Kislinger T, Boutros PC.

Cancer Cell. 2019 Mar 18;35(3):414-427.e6. doi: 10.1016/j.ccell.2019.02.005.

PMID:
30889379
3.

Proteomic Analysis of Cancer-Associated Fibroblasts Reveals a Paracrine Role for MFAP5 in Human Oral Tongue Squamous Cell Carcinoma.

Principe S, Mejia-Guerrero S, Ignatchenko V, Sinha A, Ignatchenko A, Shi W, Pereira K, Su S, Huang SH, O'Sullivan B, Xu W, Goldstein DP, Weinreb I, Ailles L, Liu FF, Kislinger T.

J Proteome Res. 2018 Jun 1;17(6):2045-2059. doi: 10.1021/acs.jproteome.7b00925. Epub 2018 May 2.

PMID:
29681158
4.

Proteomic Profiling of Secreted Proteins, Exosomes, and Microvesicles in Cell Culture Conditioned Media.

Sinha A, Principe S, Alfaro J, Ignatchenko A, Ignatchenko V, Kislinger T.

Methods Mol Biol. 2018;1722:91-102. doi: 10.1007/978-1-4939-7553-2_6.

PMID:
29264800
5.

Proteomic Response of Human Umbilical Vein Endothelial Cells to Histamine Stimulation.

Emirbayer PE, Sinha A, Ignatchenko V, Hoyer S, Dörrie J, Schaft N, Pischetsrieder M, Kislinger T.

Proteomics. 2017 Nov;17(21). doi: 10.1002/pmic.201700116. Epub 2017 Oct 12.

PMID:
28921918
6.

Detecting protein variants by mass spectrometry: a comprehensive study in cancer cell-lines.

Alfaro JA, Ignatchenko A, Ignatchenko V, Sinha A, Boutros PC, Kislinger T.

Genome Med. 2017 Jul 18;9(1):62. doi: 10.1186/s13073-017-0454-9.

7.

Molecular heterogeneity of non-small cell lung carcinoma patient-derived xenografts closely reflect their primary tumors.

Wang D, Pham NA, Tong J, Sakashita S, Allo G, Kim L, Yanagawa N, Raghavan V, Wei Y, To C, Trinh QM, Starmans MH, Chan-Seng-Yue MA, Chadwick D, Li L, Zhu CQ, Liu N, Li M, Lee S, Ignatchenko V, Strumpf D, Taylor P, Moghal N, Liu G, Boutros PC, Kislinger T, Pintilie M, Jurisica I, Shepherd FA, McPherson JD, Muthuswamy L, Moran MF, Tsao MS.

Int J Cancer. 2017 Feb 1;140(3):662-673. doi: 10.1002/ijc.30472. Epub 2016 Nov 7.

8.

Ectopic miR-125a Expression Induces Long-Term Repopulating Stem Cell Capacity in Mouse and Human Hematopoietic Progenitors.

Wojtowicz EE, Lechman ER, Hermans KG, Schoof EM, Wienholds E, Isserlin R, van Veelen PA, Broekhuis MJ, Janssen GM, Trotman-Grant A, Dobson SM, Krivdova G, Elzinga J, Kennedy J, Gan OI, Sinha A, Ignatchenko V, Kislinger T, Dethmers-Ausema B, Weersing E, Alemdehy MF, de Looper HW, Bader GD, Ritsema M, Erkeland SJ, Bystrykh LV, Dick JE, de Haan G.

Cell Stem Cell. 2016 Sep 1;19(3):383-96. doi: 10.1016/j.stem.2016.06.008. Epub 2016 Jul 14.

9.

Targeted proteomics identifies liquid-biopsy signatures for extracapsular prostate cancer.

Kim Y, Jeon J, Mejia S, Yao CQ, Ignatchenko V, Nyalwidhe JO, Gramolini AO, Lance RS, Troyer DA, Drake RR, Boutros PC, Semmes OJ, Kislinger T.

Nat Commun. 2016 Jun 28;7:11906. doi: 10.1038/ncomms11906.

10.

Evolutionarily conserved intercalated disc protein Tmem65 regulates cardiac conduction and connexin 43 function.

Sharma P, Abbasi C, Lazic S, Teng ACT, Wang D, Dubois N, Ignatchenko V, Wong V, Liu J, Araki T, Tiburcy M, Ackerley C, Zimmermann WH, Hamilton R, Sun Y, Liu PP, Keller G, Stagljar I, Scott IC, Kislinger T, Gramolini AO.

Nat Commun. 2015 Sep 25;6:8391. doi: 10.1038/ncomms9391.

PMID:
26403541
11.

A Genome Scale Screen for Mutants with Delayed Exit from Mitosis: Ire1-Independent Induction of Autophagy Integrates ER Homeostasis into Mitotic Lifespan.

Ghavidel A, Baxi K, Ignatchenko V, Prusinkiewicz M, Arnason TG, Kislinger T, Carvalho CE, Harkness TA.

PLoS Genet. 2015 Aug 6;11(8):e1005429. doi: 10.1371/journal.pgen.1005429. eCollection 2015 Aug.

12.

CHCHD2 Is Coamplified with EGFR in NSCLC and Regulates Mitochondrial Function and Cell Migration.

Wei Y, Vellanki RN, Coyaud É, Ignatchenko V, Li L, Krieger JR, Taylor P, Tong J, Pham NA, Liu G, Raught B, Wouters BG, Kislinger T, Tsao MS, Moran MF.

Mol Cancer Res. 2015 Jul;13(7):1119-29. doi: 10.1158/1541-7786.MCR-14-0165-T. Epub 2015 Mar 17.

13.

VennDIS: a JavaFX-based Venn and Euler diagram software to generate publication quality figures.

Ignatchenko V, Ignatchenko A, Sinha A, Boutros PC, Kislinger T.

Proteomics. 2015 Apr;15(7):1239-44. doi: 10.1002/pmic.201400320. Epub 2015 Jan 23.

PMID:
25545689
14.

Integrated omic analysis of lung cancer reveals metabolism proteome signatures with prognostic impact.

Li L, Wei Y, To C, Zhu CQ, Tong J, Pham NA, Taylor P, Ignatchenko V, Ignatchenko A, Zhang W, Wang D, Yanagawa N, Li M, Pintilie M, Liu G, Muthuswamy L, Shepherd FA, Tsao MS, Kislinger T, Moran MF.

Nat Commun. 2014 Nov 28;5:5469. doi: 10.1038/ncomms6469.

PMID:
25429762
15.

Integrated omic analysis of oropharyngeal carcinomas reveals human papillomavirus (HPV)-dependent regulation of the activator protein 1 (AP-1) pathway.

Sepiashvili L, Waggott D, Hui A, Shi W, Su S, Ignatchenko A, Ignatchenko V, Laureano M, Huang SH, Xu W, Weinreb I, Waldron J, O'Sullivan B, Irish JC, Boutros PC, Liu FF, Kislinger T.

Mol Cell Proteomics. 2014 Dec;13(12):3572-84. doi: 10.1074/mcp.M114.041764. Epub 2014 Sep 30.

16.

Global proteome analysis identifies active immunoproteasome subunits in human platelets.

Klockenbusch C, Walsh GM, Brown LM, Hoffman MD, Ignatchenko V, Kislinger T, Kast J.

Mol Cell Proteomics. 2014 Dec;13(12):3308-19. doi: 10.1074/mcp.M113.031757. Epub 2014 Aug 21.

17.

Proteomic profiles of human lung adeno and squamous cell carcinoma using super-SILAC and label-free quantification approaches.

Zhang W, Wei Y, Ignatchenko V, Li L, Sakashita S, Pham NA, Taylor P, Tsao MS, Kislinger T, Moran MF.

Proteomics. 2014 Mar;14(6):795-803. doi: 10.1002/pmic.201300382.

PMID:
24453208
18.

In-depth proteomic analyses of ovarian cancer cell line exosomes reveals differential enrichment of functional categories compared to the NCI 60 proteome.

Sinha A, Ignatchenko V, Ignatchenko A, Mejia-Guerrero S, Kislinger T.

Biochem Biophys Res Commun. 2014 Mar 21;445(4):694-701. doi: 10.1016/j.bbrc.2013.12.070. Epub 2014 Jan 14.

PMID:
24434149
19.

A combination of H2A.Z and H4 acetylation recruits Brd2 to chromatin during transcriptional activation.

Draker R, Ng MK, Sarcinella E, Ignatchenko V, Kislinger T, Cheung P.

PLoS Genet. 2012;8(11):e1003047. doi: 10.1371/journal.pgen.1003047. Epub 2012 Nov 8.

20.

Identification of differentially expressed proteins in direct expressed prostatic secretions of men with organ-confined versus extracapsular prostate cancer.

Kim Y, Ignatchenko V, Yao CQ, Kalatskaya I, Nyalwidhe JO, Lance RS, Gramolini AO, Troyer DA, Stein LD, Boutros PC, Medin JA, Semmes OJ, Drake RR, Kislinger T.

Mol Cell Proteomics. 2012 Dec;11(12):1870-84. doi: 10.1074/mcp.M112.017889. Epub 2012 Sep 17.

21.

Potentially novel candidate biomarkers for head and neck squamous cell carcinoma identified using an integrated cell line-based discovery strategy.

Sepiashvili L, Hui A, Ignatchenko V, Shi W, Su S, Xu W, Huang SH, O'Sullivan B, Waldron J, Irish JC, Perez-Ordonez B, Liu FF, Kislinger T.

Mol Cell Proteomics. 2012 Nov;11(11):1404-15. doi: 10.1074/mcp.M112.020933. Epub 2012 Aug 23.

22.

Proteomic profiling of the planarian Schmidtea mediterranea and its mucous reveals similarities with human secretions and those predicted for parasitic flatworms.

Bocchinfuso DG, Taylor P, Ross E, Ignatchenko A, Ignatchenko V, Kislinger T, Pearson BJ, Moran MF.

Mol Cell Proteomics. 2012 Sep;11(9):681-91. doi: 10.1074/mcp.M112.019026. Epub 2012 May 31.

23.

Cell-surface proteomics identifies lineage-specific markers of embryo-derived stem cells.

Rugg-Gunn PJ, Cox BJ, Lanner F, Sharma P, Ignatchenko V, McDonald AC, Garner J, Gramolini AO, Rossant J, Kislinger T.

Dev Cell. 2012 Apr 17;22(4):887-901. doi: 10.1016/j.devcel.2012.01.005. Epub 2012 Mar 15.

24.

Identification of prostate-enriched proteins by in-depth proteomic analyses of expressed prostatic secretions in urine.

Principe S, Kim Y, Fontana S, Ignatchenko V, Nyalwidhe JO, Lance RS, Troyer DA, Alessandro R, Semmes OJ, Kislinger T, Drake RR, Medin JA.

J Proteome Res. 2012 Apr 6;11(4):2386-96. doi: 10.1021/pr2011236. Epub 2012 Feb 29.

25.

Translational analysis of mouse and human placental protein and mRNA reveals distinct molecular pathologies in human preeclampsia.

Cox B, Sharma P, Evangelou AI, Whiteley K, Ignatchenko V, Ignatchenko A, Baczyk D, Czikk M, Kingdom J, Rossant J, Gramolini AO, Adamson SL, Kislinger T.

Mol Cell Proteomics. 2011 Dec;10(12):M111.012526. doi: 10.1074/mcp.M111.012526. Epub 2011 Oct 10.

26.

In-depth proteomics of ovarian cancer ascites: combining shotgun proteomics and selected reaction monitoring mass spectrometry.

Elschenbroich S, Ignatchenko V, Clarke B, Kalloger SE, Boutros PC, Gramolini AO, Shaw P, Jurisica I, Kislinger T.

J Proteome Res. 2011 May 6;10(5):2286-99. doi: 10.1021/pr1011087. Epub 2011 Apr 14.

PMID:
21491939
27.

Identification of an FHL1 protein complex containing ACTN1, ACTN4, and PDLIM1 using affinity purifications and MS-based protein-protein interaction analysis.

Sharma P, Shathasivam T, Ignatchenko V, Kislinger T, Gramolini AO.

Mol Biosyst. 2011 Apr;7(4):1185-96. doi: 10.1039/c0mb00235f. Epub 2011 Jan 18.

28.

Primary tumor xenografts of human lung adeno and squamous cell carcinoma express distinct proteomic signatures.

Wei Y, Tong J, Taylor P, Strumpf D, Ignatchenko V, Pham NA, Yanagawa N, Liu G, Jurisica I, Shepherd FA, Tsao MS, Kislinger T, Moran MF.

J Proteome Res. 2011 Jan 7;10(1):161-74. doi: 10.1021/pr100491e. Epub 2010 Sep 24.

PMID:
20815376
29.

Endoplasmic reticulum protein targeting of phospholamban: a common role for an N-terminal di-arginine motif in ER retention?

Sharma P, Ignatchenko V, Grace K, Ursprung C, Kislinger T, Gramolini AO.

PLoS One. 2010 Jul 9;5(7):e11496. doi: 10.1371/journal.pone.0011496.

30.

In-depth proteomic analyses of direct expressed prostatic secretions.

Drake RR, Elschenbroich S, Lopez-Perez O, Kim Y, Ignatchenko V, Ignatchenko A, Nyalwidhe JO, Basu G, Wilkins CE, Gjurich B, Lance RS, Semmes OJ, Medin JA, Kislinger T.

J Proteome Res. 2010 May 7;9(5):2109-16. doi: 10.1021/pr1001498.

31.

Peptide separations by on-line MudPIT compared to isoelectric focusing in an off-gel format: application to a membrane-enriched fraction from C2C12 mouse skeletal muscle cells.

Elschenbroich S, Ignatchenko V, Sharma P, Schmitt-Ulms G, Gramolini AO, Kislinger T.

J Proteome Res. 2009 Oct;8(10):4860-9. doi: 10.1021/pr900318k.

32.

Comparative systems biology of human and mouse as a tool to guide the modeling of human placental pathology.

Cox B, Kotlyar M, Evangelou AI, Ignatchenko V, Ignatchenko A, Whiteley K, Jurisica I, Adamson SL, Rossant J, Kislinger T.

Mol Syst Biol. 2009;5:279. doi: 10.1038/msb.2009.37. Epub 2009 Jun 16.

33.

Disorder-induced resonance coupling of waves.

Ignatchenko VA, Deich LI.

Phys Rev B Condens Matter. 1994 Dec 1;50(22):16364-16372. No abstract available.

PMID:
9976021

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