The CoreMarketplace: PSU CoM Mass Spec and Proteomics Facility

The Penn State College of Medicine Mass Spec and Proteomics Facility offers complete sample prep services, methods development, and bioinformatic/biostatistical analyses for discovery and targeted proteomics and quantitative proteomics (Identification & Quantitation w DIA-PASEF or iTraq/TMT, plus targeted MRM/SRM assays) as well as for small molecule/lipid quantitation.

Facility Policies

Services are offerred outside of Penn State College of Medicine

Consulting is offerred outside of Penn State College of Medicine

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Services offered:

Computational - Bioinformatics

Computational - Biostatistics

Computational - High Performance Computing

Data Analysis

Laser Capture Microdissection

Mass Spectrometry

Multiphoton Microscopy

Facility Equipment

Bruker TimsTOF Flex

NanoSpray Ion Mobility instrument, plus MALDI MS Imaging

Bruker TimsTOF FLEX
Sciex Selexion 6500+ QTrap
ABSciex TripleTOF 5600+
ABSciex 5800 MALDI TOF-TOF
ABSciex 4000 QTrap

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Publications

Publications associated with this facility (Click To View):

1.) Rice SJ, Belani CP (2024 Aug). Characterization of effective, simple, and low-cost precipitation methods for depleting abundant plasma proteins to enhance the depth and breadth of plasma proteomics. Proteomics, 24(15), e2400071. doi: 10.1002/pmic.202400071. PMID: 38700387.

2.) Torres MC, Rebok A, Sun D, Spratt TE (2024 Jul 1). Activity of DNA polymerase κ across the genome in human fibroblasts Proceedings of the National Academy of Sciences of the United States of America, 121(28), e2403130121. . PMCID: 11252913.

3.) Vanarsa K, Zhang T, Hutcheson J, Kumar SR, Nukala S, Inthavong H, Stanley B, Wu T, Mok CC, Saxena R, Mohan C (2024 May 23). iTRAQ-based mass spectrometry screen to identify serum biomarkers in systemic lupus erythematosus. Lupus science & medicine, 11(1), . . PMID: 38782493.

4.) Chen KM, Sun YW, Krebs NM, Reinhart L, Sun D, Liao J, Cook R, Bond PE, Mallery SR, El-Bayoumy K (2024 Apr 2). The Effects of Black Raspberry as a Whole Food-Based Approach on Biomarkers of Oxidative Stress in Buccal Cells and Urine of Smokers. Cancer prevention research (Philadelphia, Pa.), 17(4), 157-167. . PMID: 38286439.

5.) Xu LC, Booth JL, Lanza M, Ozdemir T, Huffer A, Chen C, Khursheed A, Sun D, Allcock HR, Siedlecki CA (2024 Feb 21). In Vitro and In Vivo Assessment of the Infection Resistance and Biocompatibility of Small-Molecule-Modified Polyurethane Biomaterials. ACS applied materials & interfaces, 16(7), 8474-8483. doi: 10.1021/acsami.3c18231. PMID: 38330222.

6.) Chen KM, Sun YW, Hu J, Balogh K, Gowda K, Aliaga C, Sun D, Christensen N, Amin S, El-Bayoumy K (2024 Feb 20). Gender Difference in DNA Damage Induced by the Environmental Carcinogen Dibenzo[def,p]chrysene Individually and in Combination with Mouse Papillomavirus Infection in the Mouse Oral Cavity. ACS omega, 9(7), 8434-8438. . PMID: 38405470.

7.) Sun D, Kim S, Karelia D, Deng Y, Jiang C, Lü J (2024 Jan 31). 2‐Deoxyglucose and hydroxychloroquine HPLC‐MS–MS analytical methods and pharmacokinetic interactions after oral co‐administration in male rats Pharmacology Research & Perspectives, 12(1), e1173. . PMCID: 10829054.

8.) Lambert GS, Rice BL, Kaddis Maldonado RJ, Chang J, Parent LJ (2024 Jan 18). Comparative analysis of retroviral Gag-host cell interactions: focus on the nuclear interactome bioRxiv, (), 2024.01.18.575255. . PMCID: 10827203.

9.) Rice SJ, Belani CP (2024 Jan). Design of experiments approach for systematic optimization of a single-shot diaPASEF plasma proteomics workflow applicable for high-throughput. Proteomics. Clinical applications, 18(1), e2300006. doi: 10.1002/prca.202300006. PMID: 37650339.

10.) Melkumyan M, Annaswamy VM, Evans AM, Showemimo OF, McCullers ZE, Sun D, Murphy TE, Vrana KE, Arnold AC, Raup-Konsavage WM, Silberman Y (2024). Effects of cannabidiol, with and without ∆9-tetrahydrocannabinol, on anxiety-like behavior following alcohol withdrawal in mice. Frontiers in neuroscience, 18(), 1375440. . PMID: 38957186.

11.) Kazzaz SA, Shaikh KA, White J, Zhou Q, Powell WH, Harhaj EW (2023 Dec 1). Phosphorylation of aryl hydrocarbon receptor interacting protein by TBK1 negatively regulates IRF7 and the type I interferon response The Journal of Biological Chemistry, 300(1), 105525. . PMCID: 10792245.

12.) Khajuria DK, Karuppagounder V, Nowak I, Sepulveda DE, Lewis GS, Norbury CC, Raup-Konsavage WM, Vrana KE, Kamal F, Elbarbary RA (2023 Nov). Cannabidiol and Cannabigerol, Nonpsychotropic Cannabinoids, as Analgesics that Effectively Manage Bone Fracture Pain and Promote Healing in Mice. Journal of bone and mineral research : the official journal of the American Society for Bone and Mineral Research, 38(11), 1560-1576. . PMID: 37597163.

13.) Ochetto A, Sun D, Siedlecki CA, Xu LC (2023 Jun 12). Nucleotide Messenger Signaling of Staphylococci in Responding to Nitric Oxide - Releasing Biomaterials. ACS biomaterials science & engineering, 9(6), 3285-3296. . PMID: 37155716.

14.) Sun D, Kim S, Karelia D, Deng Y, Jiang C, Lü J (2023 Mar 14). 2-Deoxyglucose and hydroxychloroquine HPLC-MS-MS analytical methods and pharmacokinetic interactions after oral co-administration in male rats Research Square, (), rs.3.rs-2675386. . PMCID: 10055671.

15.) Kincheloe GN, Roberson PA, Toro AL, Stanley BA, Stanley AE, Jefferson LS, Dennis MD, Kimball SR (2023 Jan 1). Loss of 4E-BPs prevents the hindlimb immobilization-induced decrease in protein synthesis in skeletal muscle. Journal of applied physiology (Bethesda, Md. : 1985), 134(1), 72-83. . PMID: 36454675.

16.) Sepulveda DE, Morris DP, Raup-Konsavage WM, Sun D, Vrana KE, Graziane NM (2022 Oct). Cannabigerol (CBG) attenuates mechanical hypersensitivity elicited by chemotherapy-induced peripheral neuropathy. European journal of pain (London, England), 26(9), 1950-1966. doi: 10.1002/ejp.2016. PMID: 35899583.

17.) Chauhan SS, Marotta NJ, Karls AC, Weinert EE (2022 Sep 21). Binding of 2′,3′-Cyclic Nucleotide Monophosphates to Bacterial Ribosomes Inhibits Translation ACS Central Science, 8(11), 1518-1526. . PMCID: 9686202.

18.) Rice SJ, Belani CP (2022 Sep). Optimizing data-independent acquisition (DIA) spectral library workflows for plasma proteomics studies. Proteomics, 22(17), e2200125. doi: 10.1002/pmic.202200125. PMID: 35708973.

19.) Douton JE, Acharya NK, Stoltzfus B, Sun D, Grigson PS, Nyland JE (2022 Aug 1). Acute glucagon-like peptide-1 receptor agonist liraglutide prevents cue-, stress-, and drug-induced heroin-seeking in rats. Behavioural pharmacology, 33(5), 364-378. . PMID: 35695511.

20.) DOUTON JE, ACHARYA NK, STOLTZFUS B, SUN D, GRIGSON PS, NYLAND JE (2022 Jun 7). Acute Glucagon-Like Peptide-1 Receptor Agonist Liraglutide Prevents Cue-, Stress- and Drug-Induced Heroin Seeking in Rats Behavioural pharmacology, 33(5), 364-378. . PMCID: 9308649.

21.) Hnath B, Dokholyan NV (2022 Jun 7). Toxic SOD1 trimers are off-pathway in the formation of amyloid-like fibrils in ALS. Biophysical journal, 121(11), 2084-2095. . PMID: 35505609.

22.) Coleman CS, Stanley BA, Lang CH (2022 Jan 14). Enrichment of Newly Synthesized Proteins following treatment of C2C12 Myotubes with Endotoxin and Interferon-γ Inflammation, 45(3), 1313-1331. . PMCID: 9106851.

23.) Acevedo FE, Stanley BA, Stanley A, Peiffer M, Luthe DS, Felton GW (2017 Jul). Quantitative proteomic analysis of the fall armyworm saliva. Insect biochemistry and molecular biology, 86(1), 81-92. . ID: 28591565.

24.) Acevedo FE, Peiffer M, Tan CW, Stanley BA, Stanley A, Wang J, Jones AG, Hoover K, Rosa C, Luthe D, Felton G (2017 Feb). Fall Armyworm-Associated Gut Bacteria Modulate Plant Defense Responses. Molecular plant-microbe interactions : MPMI, 30(2), 127-137. doi: 10.1094/MPMI-11-16-0240-R. ID: 28027025.

25.) Lu D, Ni W, Stanley BA, Ma H (2016 Mar 3). Proteomics and transcriptomics analyses of Arabidopsis floral buds uncover important functions of ARABIDOPSIS SKP1-LIKE1. BMC plant biology, 16(12), 61. doi: 10.1186/s12870-015-0571-9. ID: 26940208.

26.) Shukla S, Shankavaram UT, Nguyen P, Stanley BA, Smart DK (2015 Oct 2). Radiation-Induced Alteration of the Brain Proteome: Understanding the Role of the Sirtuin 2 Deacetylase in a Murine Model. Journal of proteome research, 14(10), 4104-17. doi: 10.1021/acs.jproteome.5b00083. ID: 26373435.

27.) Wase N, Black PN, Stanley BA, DiRusso CC (2014 Mar 7). Integrated quantitative analysis of nitrogen stress response in Chlamydomonas reinhardtii using metabolite and protein profiling. Journal of proteome research, 13(3), 1373-96. doi: 10.1021/pr400952z. ID: 24528286.

28.) Giardina BJ, Stanley BA, Chiang HL (2014 Feb 12). Glucose induces rapid changes in the secretome of Saccharomyces cerevisiae. Proteome science, 12(1), 9. doi: 10.1021/pr400952z. ID: 24520859.

29.) Bansal R, Helmus RA, Stanley BA, Zhu J, Liermann LJ, Brantley SL, Tien M (2013 Oct 4). Survival during long-term starvation: global proteomics analysis of Geobacter sulfurreducens under prolonged electron-acceptor limitation. Journal of proteome research, 12(10), 4316-26. doi: 10.1021/pr400266m. ID: 23980722.

30.) Jones KA, Kim PD, Patel BB, Kelsen SG, Braverman A, Swinton DJ, Gafken PR, Jones LA, Lane WS, Neveu JM, Leung HE, Shaffer SA, Leszyk JD, Stanley BA, Fox TE, Stanley A, Hall MJ, Hampel H, South CD, de la Chapelle A, Burt RW, Jones DA, Kopelovich L, Yeung AT (2013 Oct 4). Immunodepletion plasma proteomics by tripleTOF 5600 and Orbitrap elite/LTQ-Orbitrap Velos/Q exactive mass spectrometers. Journal of proteome research, 12(10), 4351-65. doi: 10.1021/pr400307u. ID: 24004147.

31.) Skibinski CG, Thompson HJ, Das A, Manni A, Bortner JD, Stanley A, Stanley BA, El-Bayoumy K (2013 Sep). Proteomic changes induced by effective chemopreventive ratios of n-3:n-6 fatty acids and tamoxifen against MNU-induced mammary cancer in the rat. Cancer prevention research (Philadelphia, Pa.), 6(9), 979-88. doi: 10.1089/ars.2012.5057. ID: 23880232.

32.) Dennis MD, Shenberger JS, Stanley BA, Kimball SR, Jefferson LS (2013 Jul). Hyperglycemia mediates a shift from cap-dependent to cap-independent translation via a 4E-BP1-dependent mechanism. Diabetes, 62(7), 2204-14. doi: 10.1089/ars.2012.5057. ID: 23434932.

33.) Das A, Bortner JD Jr, Aliaga CA, Baker A, Stanley A, Stanley BA, Kaag M, Richie JP Jr, El-Bayoumy K (2013 Mar). Changes in proteomic profiles in different prostate lobes of male rats throughout growth and development and aging stages of the life span. The Prostate, 73(4), 363-75. doi: 10.1002/pros.22576. ID: 22911278.

34.) Rivera-Vega LJ, Stanley BA, Stanley A, Felton GW (2018 May - Jun). Proteomic analysis of labial saliva of the generalist cabbage looper (Trichoplusia ni) and its role in interactions with host plants. Journal of insect physiology, 107(1), 97-103. . ID: 29505761.

35.) Yau E, Yang L, Chen Y, Umstead TM, Stanley AE, Halstead ES, Gandhi CK, Yewdell JW, Chroneos ZC (2024 Mar-Apr). SP-R210 isoforms of Myosin18A modulate endosomal sorting and recognition of influenza A virus infection in macrophages. Microbes and infection, 26(3), 105280. . PMID: 38135024.

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Associations

ABRF

Association of Biomolecular Resource Facilities

Cancer Center

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Metadata

Links

All the links listed resolve to this core profile

https://coremarketplace.org/?FacilityID=617
https://coremarketplace.org/RRID:SCR_017831

SciCrunch Data Imports (data maintained by https://scicrunch.org)

Keywords:

Mass, spectrometry, analysis, identification, protein, peptide, oligonucleotide, carbohydrate, molecule, separation, complex, mixture, expression, analysis, quantitation, bioinformatics, gel, imaging, service, core, ABRF

Resource Type:

core facility, service resource, access service resource

Citation:

Penn State College of Medicine Mass Spectrometry and Proteomics Core Facility (RRID:SCR_017831)

PSU CoM Mass Spec and Proteomics Facility (Mass Spectrometry)

Quicklinks:

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Facility RRID

Facility Details

Facility Policies

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Services offered:

Facility Equipment

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Publications

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Associations

ABRF

Cancer Center

CTSA

MAD SSCi

NERLSCD

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Metadata

SciCrunch Data Imports (data maintained by https://scicrunch.org)

Facility Profile QR Code (links to this profile)

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Contact Anne E. Stanley

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PSU CoM Mass Spec and Proteomics Facility

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