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Showing 1 to 12 of 44 entries
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Mass spectrometry for translational proteomics: progress and clinical implications.

Genome medicine

Baker ES, Liu T, Petyuk VA, Burnum-Johnson KE, Ibrahim YM, Anderson GA, Smith RD.
PMID: 22943415
Genome Med. 2012 Aug 31;4(8):63. doi: 10.1186/gm364. eCollection 2012.

The utility of mass spectrometry (MS)-based proteomic analyses and their clinical applications have been increasingly recognized over the past decade due to their high sensitivity, specificity and throughput. MS-based proteomic measurements have been used in a wide range of...

An algorithm to correct saturated mass spectrometry ion abundances for enhanced quantitation and mass accuracy in omic studies.

International journal of mass spectrometry

Bilbao A, Gibbons BC, Slysz GW, Crowell KL, Monroe ME, Ibrahim YM, Smith RD, Payne SH, Baker ES.
PMID: 29706793
Int J Mass Spectrom. 2018 Apr;427:91-99. doi: 10.1016/j.ijms.2017.11.003. Epub 2017 Nov 06.

The mass accuracy and peak intensity of ions detected by mass spectrometry (MS) measurements are essential to facilitate compound identification and quantitation. However, high concentration species can yield erroneous results if their ion intensities reach beyond the limits of...

Comparing identified and statistically significant lipids and polar metabolites in 15-year old serum and dried blood spot samples for longitudinal studies.

Rapid communications in mass spectrometry : RCM

Kyle JE, Casey CP, Stratton KG, Zink EM, Kim YM, Zheng X, Monroe ME, Weitz KK, Bloodsworth KJ, Orton DJ, Ibrahim YM, Moore RJ, Lee CG, Pedersen C, Orwoll E, Smith RD, Burnum-Johnson KE, Baker ES.
PMID: 27958645
Rapid Commun Mass Spectrom. 2017 Mar 15;31(5):447-456. doi: 10.1002/rcm.7808.

RATIONALE: The use of dried blood spots (DBS) has many advantages over traditional plasma and serum samples such as the smaller blood volume required, storage at room temperature, and ability to sample in remote locations. However, understanding the robustness...

Towards resolving the spatial metabolome with unambiguous molecular annotations in complex biological systems by coupling mass spectrometry imaging with structures for lossless ion manipulations.

Chemical communications (Cambridge, England)

Nagy G, Veličković D, Chu RK, Carrell AA, Weston DJ, Ibrahim YM, Anderton CR, Smith RD.
PMID: 30534702
Chem Commun (Camb). 2019 Jan 02;55(3):306-309. doi: 10.1039/c8cc07482h.

We demonstrate the coupling of liquid extraction surface analysis (LESA) to structures for lossless ion manipulations in conjunction with serpentine ultralong path with extending routing (SLIM SUPER) ion mobility-mass spectrometry (IM-MS) for the unambiguous annotation of important isomeric glycoforms...

Measurement and Theory of Gas-Phase Ion Mobility Shifts Resulting from Isotopomer Mass Distribution Changes.

Analytical chemistry

Harrilal CP, Gandhi VD, Nagy G, Chen X, Buchanan MG, Wojcik R, Conant CR, Donor MT, Ibrahim YM, Garimella SVB, Smith RD, Larriba-Andaluz C.
PMID: 34726890
Anal Chem. 2021 Nov 16;93(45):14966-14975. doi: 10.1021/acs.analchem.1c01736. Epub 2021 Nov 02.

The unanticipated discovery of recent ultra-high-resolution ion mobility spectrometry (IMS) measurements revealing that isotopomers─compounds that differ only in the isotopic substitution sites─can be separated has raised questions as to the physical basis for their separation. A study comparing IMS...

Dynamic Time-Warping Correction for Shifts in Ultrahigh Resolving Power Ion Mobility Spectrometry and Structures for Lossless Ion Manipulations.

Journal of the American Society for Mass Spectrometry

Hollerbach AL, Conant CR, Nagy G, Monroe ME, Gupta K, Donor M, Giberson CM, Garimella SVB, Smith RD, Ibrahim YM.
PMID: 33666432
J Am Soc Mass Spectrom. 2021 Apr 07;32(4):996-1007. doi: 10.1021/jasms.1c00005. Epub 2021 Mar 05.

Detection of arrival time shifts between ion mobility spectrometry (IMS) separations can limit achievable resolving power (Rp), particularly when multiple separations are summed or averaged, as commonly practiced in IMS. Such variations can be apparent in higher Rp measurements...

Meta-analysis of peptides to detect protein significance.

Statistics and its interface

Zhang Y, Ouyang Z, Qian WJ, Smith RD, Wong WH, Davis RW.
PMID: 34055134
Stat Interface. 2020;13(4):465-474. doi: 10.4310/sii.2020.v13.n4.a4. Epub 2020 Jul 31.

Shotgun assays are widely used in biotechnologies to characterize large molecules, which are hard to be measured as a whole directly. For instance, in Liquid Chromatography - Mass Spectrometry (LC-MS) shotgun experiments, proteins in biological samples are digested into...

A Structures for Lossless Ion Manipulations (SLIM) Module for Collision Induced Dissociation.

Journal of the American Society for Mass Spectrometry

Webb IK, Garimella SV, Norheim RV, Baker ES, Ibrahim YM, Smith RD.
PMID: 27098413
J Am Soc Mass Spectrom. 2016 Jul;27(7):1285-8. doi: 10.1007/s13361-016-1397-x. Epub 2016 Apr 20.

A collision induced dissociation (CID) structure for lossless ion manipulations (SLIM) module is introduced and coupled to a quadrupole time-of-flight (QTOF) mass spectrometer. The SLIM CID module was mounted after an ion mobility (IM) drift tube to enable IM/CID/MS...

Exposure to an Environmental Mixture of Polycyclic Aromatic Hydrocarbons Induces Hepatic Cytochrome P450 Enzymes in Mice.

Chemical research in toxicology

Stoddard EG, Nag S, Martin J, Tyrrell KJ, Gibbins T, Anderson KA, Shukla AK, Corley R, Wright AT, Smith JN.
PMID: 34472326
Chem Res Toxicol. 2021 Sep 20;34(9):2145-2156. doi: 10.1021/acs.chemrestox.1c00235. Epub 2021 Sep 02.

Cytochrome P450 enzymes (CYPs) play an important role in bioactivating or detoxifying polycyclic aromatic hydrocarbons (PAHs), common environmental contaminants. While it is widely accepted that exposure to PAHs induces CYPs, effectively increasing rates of xenobiotic metabolism, dose- and time-response...

Proteomic Analysis of Exosomes for Discovery of Protein Biomarkers for Prostate and Bladder Cancer.

Cancers

Wang YT, Shi T, Srivastava S, Kagan J, Liu T, Rodland KD.
PMID: 32825017
Cancers (Basel). 2020 Aug 19;12(9). doi: 10.3390/cancers12092335.

Extracellular vesicles (EVs) are released by nearly all cell types as part of normal cell physiology, transporting biological cargo, including nucleic acids and proteins, across the cell membrane. In pathological states such as cancer, EV-derived cargo may mirror the...

A Hybrid Constant and Oscillatory Field Ion Mobility Analyzer Using Structures for Lossless Ion Manipulations.

Journal of the American Society for Mass Spectrometry

Prabhakaran A, Hamid AM, Garimella SVB, Valenzuela BR, Ewing RG, Ibrahim YM, Smith RD.
PMID: 29235041
J Am Soc Mass Spectrom. 2018 Feb;29(2):342-351. doi: 10.1007/s13361-017-1841-6. Epub 2017 Dec 12.

Here we explore the combination of constant and oscillatory fields applied in a single device to affect the continuous separation and filtering of ions based on their mobilities. The device explored allows confining and manipulating ions utilizing a combination...

Urinary Virome Perturbations in Kidney Transplantation.

Frontiers in medicine

Sigdel TK, Mercer N, Nandoe S, Nicora CD, Burnum-Johnson K, Qian WJ, Sarwal MM.
PMID: 29725592
Front Med (Lausanne). 2018 Apr 19;5:72. doi: 10.3389/fmed.2018.00072. eCollection 2018.

The human microbiome is important for health and plays a role in essential metabolic functions and protection from certain pathogens. Conversely, dysbiosis of the microbiome is seen in the context of various diseases. Recent studies have highlighted that a...

Showing 1 to 12 of 44 entries