Lunenfeld-Tanenbaum Research Institute

Contact Info:

Cassandra Wong

600 University Avenue

Mount Sinai Hospital, Sinai Health

Toronto, ON M5G 1X5

https://nbcc.lunenfeld.ca

Grants and Identifiers:

RRID: RRID:SCR_025375

Instrumentation:

Services Provided:

Assay Development

Mass Spectrometry - Proteins And Peptides

Proteomics

Proteomics Analysis

Proximity-Dependent Biotinylation

Quantitative Phosphoproteomics

Quantitative Proteomics - TMT

Sample Preparation

Relevant Publications:

1.) Kuzmin E, Baker TM, Lesluyes T, Monlong J, Abe KT, Coelho PP, Schwartz M, Del Corpo J, Zou D, Morin G, Pacis A, Yang Y, Martinez C, Barber J, Kuasne H, Li R, Bourgey M, Fortier AM, Davison PG, Omeroglu A, Guiot MC, Morris Q, Kleinman CL, Huang S, Gingras AC, Ragoussis J, Bourque G, Van Loo P, Park M (2024 Apr 23). Evolution of chromosome-arm aberrations in breast cancer through genetic network rewiring. Cell reports, 43(4), 113988. . ID: 38517886.

2.) Lü Y, Cho T, Mukherjee S, Suarez CF, Gonzalez-Foutel NS, Malik A, Martinez S, Dervovic D, Oh RH, Langille E, Al-Zahrani KN, Hoeg L, Lin ZY, Tsai R, Mbamalu G, Rotter V, Ashton-Prolla P, Moffat J, Chemes LB, Gingras AC, Oren M, Durocher D, Schramek D (2024 Apr 5). Genome-wide CRISPR screens identify novel regulators of wild-type and mutant p53 stability. Molecular systems biology, (), . doi: 10.1038/s44320-024-00032-x. ID: 38580884.

3.) Poirson J, Cho H, Dhillon A, Haider S, Imrit AZ, Lam MHY, Alerasool N, Lacoste J, Mizan L, Wong C, Gingras AC, Schramek D, Taipale M (2024 Apr). Proteome-scale discovery of protein degradation and stabilization effectors. Nature, 628(8009), 878-886. doi: 10.1038/s41586-024-07224-3. ID: 38509365.

4.) Liu D, Dredge BK, Bert AG, Pillman KA, Toubia J, Guo W, Dyakov BJA, Migault MM, Conn VM, Conn SJ, Gregory PA, Gingras AC, Patel D, Wu B, Goodall GJ (2024 Feb 9). ESRP1 controls biogenesis and function of a large abundant multiexon circRNA. Nucleic acids research, 52(3), 1387-1403. . ID: 38015468.

5.) Janer A, Morris JL, Krols M, Antonicka H, Aaltonen MJ, Lin ZY, Anand H, Gingras AC, Prudent J, Shoubridge EA (2024 Jan). ESYT1 tethers the ER to mitochondria and is required for mitochondrial lipid and calcium homeostasis. Life science alliance, 7(1), . . ID: 37931956.

6.) Wu C, Lei J, Meng F, Wang X, Wong CJ, Peng J, Lin G, Gingras AC, Ma J, Zhang S (2023 Dec 12). Trace Sample Proteome Quantification by Data-Dependent Acquisition without Dynamic Exclusion. Analytical chemistry, 95(49), 17981-17987. . ID: 38032138.

7.) Roth JF, Braunschweig U, Wu M, Li JD, Lin ZY, Larsen B, Weatheritt RJ, Gingras AC, Blencowe BJ (2023 Dec 7). Systematic analysis of alternative exon-dependent interactome remodeling reveals multitasking functions of gene regulatory factors. Molecular cell, 83(23), 4222-4238.e10. doi: 10.1016/j.molcel.2023.10.034. ID: 38065061.

8.) Zhang C, Shafaq-Zadah M, Pawling J, Hesketh GG, Dransart E, Pacholczyk K, Longo J, Gingras AC, Penn LZ, Johannes L, Dennis JW (2023 Dec). SLC3A2 N-glycosylation and Golgi remodeling regulate SLC7A amino acid exchangers and stress mitigation. The Journal of biological chemistry, 299(12), 105416. . ID: 37918808.

9.) Silveira KC, Fonseca IC, Oborn C, Wengryn P, Ghafoor S, Beke A, Dreseris ES, Wong C, Iacovone A, Soltys CL, Babul-Hirji R, Artigalas O, Antolini-Tavares A, Gingras AC, Campos E, Cavalcanti DP, Kannu P (2023 Nov). CYP26B1-related disorder: expanding the ends of the spectrum through clinical and molecular evidence. Human genetics, 142(11), 1571-1586. . ID: 37755482.

10.) Iyer KR, Li SC, Revie NM, Lou JW, Duncan D, Fallah S, Sanchez H, Skulska I, Ušaj MM, Safizadeh H, Larsen B, Wong C, Aman A, Kiyota T, Yoshimura M, Kimura H, Hirano H, Yoshida M, Osada H, Gingras AC, Andes DR, Shapiro RS, Robbins N, Mazhab-Jafari MT, Whitesell L, Yashiroda Y, Boone C, Cowen LE (2023 Jul 20). Identification of triazenyl indoles as inhibitors of fungal fatty acid biosynthesis with broad-spectrum activity. Cell chemical biology, 30(7), 795-810.e8. . ID: 37369212.

11.) Aprosoff CM, Dyakov BJA, Cheung VHW, Wong CJ, Palandra M, Gingras AC, Wyatt HDM (2023 Jun 2). Comprehensive Interactome Mapping of the DNA Repair Scaffold SLX4 Using Proximity Labeling and Affinity Purification. Journal of proteome research, 22(6), 1660-1681. . ID: 37071664.

12.) Tsekitsidou E, Wong CJ, Ulengin-Talkish I, Barth AIM, Stearns T, Gingras AC, Wang JT, Cyert MS (2023 Apr 15). Calcineurin associates with centrosomes and regulates cilia length maintenance. Journal of cell science, 136(8), . . ID: 37013443.

13.) Khazaei S, Chen CCL, Andrade AF, Kabir N, Azarafshar P, Morcos SM, França JA, Lopes M, Lund PJ, Danieau G, Worme S, Adnani L, Nzirorera N, Chen X, Yogarajah G, Russo C, Zeinieh M, Wong CJ, Bryant L, Hébert S, Tong B, Sihota TS, Faury D, Puligandla E, Jawhar W, Sandy V, Cowan M, Nakada EM, Jerome-Majewska LA, Ellezam B, Gomes CC, Denecke J, Lessel D, McDonald MT, Pizoli CE, Taylor K, Cocanougher BT, Bhoj EJ, Gingras AC, Garcia BA, Lu C, Campos EI, Kleinman CL, Garzia L, Jabado N (2023 Mar 16). Single substitution in H3.3G34 alters DNMT3A recruitment to cause progressive neurodegeneration. Cell, 186(6), 1162-1178.e20. . ID: 36931244.

14.) Mabanglo MF, Wong KS, Barghash MM, Leung E, Chuang SHW, Ardalan A, Majaesic EM, Wong CJ, Zhang S, Lang H, Karanewsky DS, Iwanowicz AA, Graves LM, Iwanowicz EJ, Gingras AC, Houry WA (2023 Feb 2). Potent ClpP agonists with anticancer properties bind with improved structural complementarity and alter the mitochondrial N-terminome. Structure (London, England : 1993), 31(2), 185-200.e10. . ID: 36586405.

15.) Masud SN, Chandrashekhar M, Aregger M, Tan G, Zhang X, Mero P, Pirman DA, Zaslaver O, Smolen GA, Lin ZY, Wong CJ, Boone C, Gingras AC, Montenegro-Burke JR, Moffat J (2022 Dec). Chemical genomics with pyrvinium identifies C1orf115 as a regulator of drug efflux. Nature chemical biology, 18(12), 1370-1379. doi: 10.1038/s41589-022-01109-0. ID: 35970996.

16.) Zhang S, Larsen B, Colwill K, Wong CJ, Youn JY, Gingras AC (2022 Aug 2). Mapping Protein-Protein Interactions Using Data-Dependent Acquisition without Dynamic Exclusion. Analytical chemistry, 94(30), 10579-10583. doi: 10.1021/acs.analchem.2c00755. ID: 35848333.

17.) Bongolan T, Whiteley J, Castillo-Prado J, Fantin A, Larsen B, Wong CJ, Mazilescu L, Kawamura M, Urbanellis P, Jonebring A, Salter E, Collingridge G, Gladdy R, Hicks R, Gingras AC, Selzner M, Rogers IM (2022 May 31). Decellularization of porcine kidney with submicellar concentrations of SDS results in the retention of ECM proteins required for the adhesion and maintenance of human adult renal epithelial cells. Biomaterials science, 10(11), 2972-2990. doi: 10.1039/d1bm01017d. ID: 35521809.

18.) Fu C, Zhang X, Veri AO, Iyer KR, Lash E, Xue A, Yan H, Revie NM, Wong C, Lin ZY, Polvi EJ, Liston SD, VanderSluis B, Hou J, Yashiroda Y, Gingras AC, Boone C, O (2021 Nov 11). Leveraging machine learning essentiality predictions and chemogenomic interactions to identify antifungal targets. Nature communications, 12(1), 6497. . ID: 34764269.

19.) Case NT, Duah K, Larsen B, Wong CJ, Gingras AC, O (2021 Aug 24). The macrophage-derived protein PTMA induces filamentation of the human fungal pathogen Candida albicans. Cell reports, 36(8), 109584. . ID: 34433036.

20.) Go CD, Knight JDR, Rajasekharan A, Rathod B, Hesketh GG, Abe KT, Youn JY, Samavarchi-Tehrani P, Zhang H, Zhu LY, Popiel E, Lambert JP, Coyaud É, Cheung SWT, Rajendran D, Wong CJ, Antonicka H, Pelletier L, Palazzo AF, Shoubridge EA, Raught B, Gingras AC (2021 Jul). A proximity-dependent biotinylation map of a human cell. Nature, 595(7865), 120-124. doi: 10.1038/s41586-021-03592-2. ID: 34079125.

21.) Kawashima AT, Wong C, Lordén G, King CC, Lara-Gonzalez P, Desai A, Gingras AC, Newton AC (2021 Feb 23). The PHLPP1 N-Terminal Extension Is a Mitotic Cdk1 Substrate and Controls an Interactome Switch. Molecular and cellular biology, 41(3), e0033320. . ID: 33397691.

22.) Posternak G, Tang X, Maisonneuve P, Jin T, Lavoie H, Daou S, Orlicky S, Goullet de Rugy T, Caldwell L, Chan K, Aman A, Prakesch M, Poda G, Mader P, Wong C, Maier S, Kitaygorodsky J, Larsen B, Colwill K, Yin Z, Ceccarelli DF, Batey RA, Taipale M, Kurinov I, Uehling D, Wrana J, Durocher D, Gingras AC, Al-Awar R, Therrien M, Sicheri F (2020 Nov). Functional characterization of a PROTAC directed against BRAF mutant V600E. Nature chemical biology, 16(11), 1170-1178. . ID: 32778845.

23.) Kazazian K, Go C, Wu H, Brashavitskaya O, Xu R, Dennis JW, Gingras AC, Swallow CJ (2017 Jan 15). Plk4 Promotes Cancer Invasion and Metastasis through Arp2/3 Complex Regulation of the Actin Cytoskeleton. Cancer research, 77(2), 434-447. doi: 10.1158/0008-5472.CAN-16-2060. ID: 27872092.

24.) Lambert JP, Tucholska M, Go C, Knight JD, Gingras AC (2015 Apr 6). Proximity biotinylation and affinity purification are complementary approaches for the interactome mapping of chromatin-associated protein complexes. Journal of proteomics, 118(), 81-94. . ID: 25281560.

Description:

The proteomics facility of the Network Biology Collaborative Centre (NBCC) provides mass-spectrometry based identification and quantification of proteins and is open to all users. Directed by Dr. Anne-Claude Gingras, the facility specializes in functional proteomics with a focus on protein proximity and protein interaction mapping. Our full-service offerings include access to reagents (plasmids), sample preparation, mass spectrometry, and data analysis. Applications include: proximity-dependent biotinylation mapping to identify neighboring proteins in cells protein-protein interaction mapping differential protein abundance post-translational modification identification (with a focus on phosphorylation) chemical proteomics (identifying on- and off-target binding to small molecules or biologics)