SPARC Selected Co-authored Publications

Repeat-Preserving Decoy Database for False Discovery Estimation in Peptide Identification
Journal of Proteome Research. 2020.
Moosa, J. M., Guan, S., Moran, M. F., & Ma, B


Prediction of LC-MS/MS properties of peptides from sequence by deep learning
Molecular & Cellular Proteomics. 2019.
Guan, S., Moran, MF., Ma, B.


Evosep One Enables Robust Deep Proteome Coverage Using Tandem Mass Tags while Significantly Reducing Time
Journal of Proteome Research. 2019.
Krieger, JR., Wybenga-Groot, LE., Tong, J., Bache, N., Tsao, MS., Moran, MF.


Structural and Functional Characterization of Ubiquitin Variant Inhibitors of USP15
Structure. 2019.
Teyra J, Singer AU, Schmitges FW, Jaynes P, Kit Leng Lui S, Polyak MJ, Fodil N, Krieger JR, Tong J, Schwerdtfeger C, Brasher BB, Ceccarelli DFJ, Moffat J, Sicheri F, Moran MF, Gros P, Eichhorn PJA, Lenter M, Boemelt G, Sidhu SS.


Pathologic Oxidation of PTPN12 Underlies ABL1 Phosphorylation in Hereditary Leiomyomatosis and Renal Cell Carcinoma.
Cancer Research. 2018.
Yang XuPaul TaylorJoshua AndradeBeatrix UeberheideBrian ShuchPeter M. GlazerRanjit S. BindraMichael F. MoranW. Marston Linehan and Benjamin G. Neel


A feed forward loop enforces YAP/TAZ signaling during tumorigenesis.
Nature Communications. 2018.
Gill MK, Christova T, Zhang YY, Gregorieff A, Zhang L, Narimatsu M, Song S, Xiong S, Couzens AL, Tong J, Krieger JR, Moran MF, Zlotta AR, van der Kwast TH, Gingras AC, Sicheri F, Wrana JL, Attisano L.


Outer membrane lipoprotein RlpA is a novel periplasmic interaction partner of the cell division protein FtsK in Escherichia coli.
Scientific Reports. 2018.
Berezuk AM, Glavota S, Roach EJ, Goodyear MC, Krieger JR, Khursigara CM.


A neuroprotective agent that inactivates prodegenerative TrkA and preserves mitochondria.
The Journal of Cell Biology. 2017.
Feinberg K, Kolaj A, Wu C, Grinshtein N, Krieger JR, Moran MF, Rubin LL, Miller FD, Kaplan DR.


The Candida albicans transcription factor Cas5 couples stress responses, drug resistance and cell cycle regulation.
Nature Communications. 2017.
Xie JL, Qin L, Miao Z, Grys BT, Diaz JC, Ting K, Krieger JR, Tong J, Tan K, Leach MD, Ketela T, Moran MF, Krysan DJ, Boone C, Andrews BJ, Selmecki A, Ho Wong K, Robbins N1, Cowen LE.


CCM-3 Promotes C. elegans Germline Development by Regulating Vesicle Trafficking Cytokinesis and Polarity.
Current Biology. 2017.
Pal S, Lant B, Yu B, Tian R, Tong J, Krieger JR, Moran MF, Gingras AC, Derry WB.


The ubiquitin-conjugating enzyme UBE2O modulates c-Maf stability and induces myeloma cell apoptosis.
Journal of Hematology & Oncology. 2017.
Xu Y, Zhang Z, Li J, Tong J, Cao B, Taylor P, Tang X, Wu D, Moran MF, Zeng Y, Mao X.


Integrated analysis of proteome, phosphotyrosine-proteome, tyrosine-kinome, and tyrosine-phosphatome in acute myeloid leukemia.
Proteomics. 2017.
Tong J, Helmy M, Cavalli FM, Jin L, St-Germain J, Karisch R, Taylor P, Minden MD, Taylor MD, Neel BG, Bader GD, Moran MF.


Protein-phosphotyrosine proteome profiling by superbinder-SH2 domain affinity purification mass spectrometry, sSH2-AP-MS.
Proteomics. 2017.
Tong J, Cao B, Martyn GD, Krieger JR, Taylor P, Yates B, Sidhu SS, Li SS, Mao X, Moran MF.


Reciprocal stabilization of ABL and TAZ regulates osteoblastogenesis through transcription factor RUNX2.
The Journal of Clinical Investigation. 2016.
Matsumoto Y, La Rose J, Kent OA, Wagner MJ, Narimatsu M, Levy AD, Omar MH, Tong J, Krieger JR, Riggs E, Storozhuk Y, Pasquale J, Ventura M, Yeganeh B, Post M, Moran MF, Grynpas MD, Wrana JL, Superti-Furga G, Koleske AJ, Pendergast AM, Rottapel R.


Molecular heterogeneity of non-small cell lung carcinoma patient-derived xenografts closely reflect their primary tumors.
International Journal of Cancer. 2016.
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.


CHCHD2 Is Coamplified with EGFR in NSCLC and Regulates Mitochondrial Function and Cell Migration.
Molecular Cancer Research. 2015.
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.


Comprehensive identification of phosphorylation sites on the Numb endocytic adaptor protein.
Proteomics. 2015.
Krieger JR, Taylor P, Moran MF, McGlade CJ.


Integrated omic analysis of lung cancer reveals metabolism proteome signatures with prognostic impact.
Nature Communications. 2014.
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.


The major cystic fibrosis causing mutation exhibits defective propensity for phosphorylation.
Proteomics. 2014.
Pasyk S, Molinski S, Ahmadi S, Ramjeesingh M, Huan LJ, Chin S, Du K, Yeger H, Taylor P, Moran MF, Bear CE.


Differential regulation of FGFR3 by PTPN1 and PTPN2.
Proteomics. 2014.
St-Germain JR, Taylor P, Zhang W, Li Z, Ketela T, Moffat J, Neel BG, Trudel S, Moran MF.


Proteomic analysis of the epidermal growth factor receptor (EGFR) interactome and post-translational modifications associated with receptor endocytosis in response to EGF and stress.
Molecular & Cellular Proteomics. 2014.
Tong J, Taylor P, Moran MF.


Proteomic profiles of human lung adeno and squamous cell carcinoma using super-SILAC and label-free quantification approaches.
Proteomics. 2014.
Zhang W, Wei Y, Ignatchenko V, Li L, Sakashita S, Pham NA, Taylor P, Tsao MS, Kislinger T, Moran MF.



SPARC Acknowledged Publications

Pulmonary and systemic responses to aerosolized lysate of Staphylococcus aureus and Escherichia coli in calves
BMC Veterinary Research. 2020.
Bassel, L. L., Co, C., Macdonald, A., Sly, L., Mccandless, E. E., Hewson, J., . . . Caswell, J. L.


The core clock gene, Bmal1, and its downstream target, the SNARE regulatory protein secretagogin, are necessary for circadian secretion of glucagon-like peptide-1
Molecular Metabolism. 2020.
Biancolin, A. D., Martchenko, A., Mitova, E., Gurges, P., Michalchyshyn, E., Chalmers, J. A., . . . Brubaker, P. L. 


Hypoxia influences polysome distribution of human ribosomal protein S12 and alternative splicing of ribosomal protein mRNAs
RNA. 2020.
Brumwell, A., Fell, L., Obress, L., & Uniacke, J


C-Src Phosphorylates and Inhibits the Function of the CIC Tumor Suppressor Protein
Molecular Cancer Research. 2020.
Bunda, S., Heir, P., Li, A. S., Mamatjan, Y., Zadeh, G., & Aldape, K.


Data Dependent Independent Acquisition (DDIA) Proteomics
Journal of Proteome Research. 2020.
Guan, S., Taylor, P. P., Han, Z., Moran, M. F., & Ma, B.


Differential protein abundance associated with delayed regeneration of the scleractinian coral Montastraea cavernosa
Coral Reefs. 2020.
Horricks, R. A., Herbinger, C. M., Vickaryous, M. K., Taylor, P., & Lumsden, J. S.


Growing up gator: a proteomic perspective on cardiac maturation in an oviparous reptile, the American alligator (Alligator mississippiensis)
Journal of Comparative Physiology B. 2020.
Alderman, SL., Corssley II, DA., Elsey, RM., Gillis, TE.


Peptidomic analysis of urine from youths with early type 1 diabetes reveals novel bioactivity of uromodulin peptides in vitro
Molecular & Cellular Proteomics. 2019.
Dung Van JA, Clotet-freixas S, Batruch I, Sun C, Glogauer M, Rampoldi L, Elia Y, Mahmud F, Sochett E, Diamandis EP, Scholey J, Konvalinka A.


Effects of essential amino acid supplementation to promote honey bee gland and muscle development in cages of colonies
Journal of Insect Physiology. 2019.
Hendriksma, HP., Pachow, CD., Nieh, JC.


Fingerprinting of Proteins that Mediate Quagga Mussel Adhesion using a De Novo Assembled Foot Transcriptome
Scientific Reports. 2019.
Rees, DJ., Hanifi, A., Obille, A., Alexander, R., Sone, ED.


Strategies for purification of the bacteriophage HK97 small and large terminase subunits that yield pure and homogenous samples that are functional
Protein Expression and Purification. 2019.
Weiditch, SA., Seraphim, TV., Houry, WA., Kanelis, V.


Hydrophobic matching of HIV-1 Vpu transmembrane helix-helix interactions is optimized for subcellular location
BBA – Biomembranes. 2019.
Cole, GB., Sharpe, S.


Hypoxia-induced reprogramming of the cardiac phenotype in American alligators(Alligator mississippiensis) revealed by quantitative proteomics.
Scientific Reports. 2019.
Alderman SL, Crossley DA, Elsey RM, Gillis TE.


Differential protein abundance during the first month of regeneration of the Caribbean star coral Monstastraea
Journal of International Coral Reef Society. 2018.
Horricks, RA., Hebringer, CM., Lillie, BN., Taylor, P., Lumsden, JS.


Activation of peroxisome proliferator-activated receptors α and δ Synergizes with Inflammatory Signals to Enhance Adoptive Cell Therapy 
Cancer Research. 2018.
Saibil, SD., St.Paul, M., Laister, RC., Garcia-Batres, CR., Israni-Winger, K., Elford, AR., Grimshaw, N., Robert-Tissot, C., Roy, DG., Jones, RG., Nguyen, LT., Ohashi, PS.


Insertion sequence 1 from calpain-3 is functional in calpain-2 as an internal propeptide.
Journal of Biological Chemistry. 2018.
McCartney CE, Ye Q, Campbell RL, Davies PL.


Pseudomonas aeruginosa defends against phages through type IV pilus glycosylation.
Nature Microbiology. 2018.
Harvey H, Bondy-Denomy J, Marquis H, Sztanko KM, Davidson AR, Burrows LL.


Molecular Therapy for Degenerative Disc Disease: Clues from Secretome Analysis of the Notochordal Cell-Rich Nucleus Pulposus

Scientific Reports. 2017.
Matta A, Karim MZ, Isenman DE, Erwin WM.


Glutathione Primes T Cell Metabolism for Inflammation.
Immunity. 2017.
Mak TW, Grusdat M, Duncan GS, Dostert C, Nonnenmacher Y, Cox M, Binsfeld C, Hao Z, Brüstle A, Itsumi M, Jäger C, Chen Y, Pinkenburg O, Camara B, Ollert M, Bindslev-Jensen C, Vasiliou V, Gorrini C, Lang PA, Lohoff M, Harris IS, Hiller K, Brenner D.


FRET Analysis of the Promiscuous yet Specific Interactions of the HIV-1 Vpu TransmembraneDomain.
Biophysical Journal. 2017.
Cole GB, Reichheld SE, Sharpe S.


Data for iTRAQ-based quantification of the cardiac proteome of rainbow trout (Oncorhynchusmykiss) at rest and with exercise training.
Data Brief. 2017.
Dindia LA, Alderman SL, Gillis TE.


Resilient protein co-expression network in male orbitofrontal cortex layer 2/3 during human aging.
Neurobiology of Aging. 2017.
Mohan Pabba, Enzo Scifo, Fenika Kapadia, Yuliya S. Nikolova, Tianzhou Ma, Naguib Mechawar, George C. Tseng, Etienne Sibille.


Sustained Molecular Pathology Across Episodes and Remission in Major Depressive Disorder.
Biological Psychiatry. 2017.
Enzo Scifo, Mohan Pabba, Fenika Kapadia, Tianzhou Ma, David A. Lewis, George C. Tseng, Etienne Sibille.