Publications


July 18, 2018

Conservation of Two-Component Signal Transduction Systems in E. coli, Salmonella, and Across 100,000 Bacteria of Various Bacterial Phyla

Trudy M. Wassenaar, Visanu Wanchai, Duah Alkam, Intawat Nookaew, David W. Ussery Chapter 7 in Molecular Mechanisms of Microbial Evolution, P. H. Rampelotto (ed.); Springer International Publishing AG, part of Springer Nature 2018Grand Challenges in Biology and Biotechnology, https://doi.org/10.1007/978-3-319-69078-0_7


Diabetes-associated alterations in the cecal microbiome and metabolome are independent of diet or environment in the UC Davis type 2-diabetes mellitus rat model

AJP-Endocrinology and Metabolism, in the press, July 2018 Brian Piccolo, James Graham, Kimber Stanhope, Intawat Nookaew, Kelly Mecer, Sree Chintapalli, Umesh Wankhade, Kartik Shankar, Peter Havel, Sean Adams Abstract Many factors contribute to, or can modify, the development of diseases such as obesity and type 2 diabetes, including the naturally occurring bacteria residing in the…


Imaging and clinical data archive for head and neck squamous cell carcinoma patients treated with radiotherapy

Scientific Data at Nature (2018) Aaron Grossberg, Abdallah Sherif Radwan Mohamed, Hesham Elhalawani, William Bennett, Kirk Smith, Tracy Nolan, Bowman Williams, Sasikarn Chamchod, Jolien Heukelom, Michael Kantor, Theodora Browne, Katherine Hutcheson, G Brandon Gunn, Adam Garden, William Morrison, Steven Frank, David Rosenthal, John Freymann, Clifton Fuller


Protocol for the Analysis of Laser Capture Microdissected Fresh-Frozen Tissue Homogenates by Silver-Stained 1D SDS-PAGE

Methods Mol Biol. 2018;1723:95-110. doi: 10.1007/978-1-4939-7558-7_4. Prieto DA, Whitely G, Johann DJ Jr, Blonder J Abstract The heterogeneity present in solid tumors adds significant difficulty to scientific analysis and improved understanding. Fundamentally, solid tumor formation consists of cancer cells proper along with stromal elements. The burgeoning malignant process is dependent upon modified stromal elements. Collectively,…


July 13, 2018

PARP1 is up-regulated in Non-small cell lung cancer tissues in the presence of the cyanobacterial toxin microcystin

Front. Microbiol. | doi: 10.3389/fmicb.2018.01757 Patrick Apopa, Lisa Alley, Rosalind Penney, Konstantinos Arnaoutakis, Mathew Steliga, Susan Jeffus, Emine Bircan, Banu Gopalan, Jing Jin, Preecha Patumcharoenpol, Piroon Jenjaroenpun, Thidathip Wongsurawat, Nishi Shah, Gunnar Boysen, David Ussery, Intawat Nookaew, Pebbles Fagan, Gurkan Bebek, Mohammed Orloff Abstract Non-small cell lung cancer (NSCLC) is the major form of lung…


June 18, 2018

Highly accurate model for prediction of lung nodule malignancy with CT scans

Scientific Reports, Nature. volume 8, Article number: 9286 (2018) Jason L. Causey, Junyu Zhang, Shiqian Ma, Bo Jiang, Jake A. Qualls, David G. Politte, Fred Prior, Shuzhong Zhang, Xiuzhen Huang Abstract Computed tomography (CT) examinations are commonly used to predict lung nodule malignancy in patients, which are shown to improve noninvasive early diagnosis of lung cancer. It remains challenging for…


June 17, 2018

E. coli and colorectal cancer, a complex relationship that deserves a critical mindset

Crit Rev Microbiol. 2018 Jun 17:1-14. doi: 10.1080/1040841X.2018.1481013 Trudy M. Wassenaar Abstract To the multiple factors that may eventually result in colorectal cancer (CRC), strains of E. coli have now been added, in particular strains producing colibactin from their polyketide synthesis (pks) locus. The evidence and mechanistic explanations for this unfortunate effect of what is in…


June 15, 2018

Reengineering Workflow for Curation of DICOM Datasets

J Digital Imaging (15 Jun 2018). https://doi.org/10.1007/s10278-018-0097-4 William Bennett, Kirk Smith, Quasar Jarosz, Tracy Nolan, Walter Bosch Abstract Reusable, publicly available data is a pillar of open science and rapid advancement of cancer imaging research. Sharing data from completed research studies not only saves research dollars required to collect data, but also helps insure that…


June 8, 2018

Identification of novel mutational drivers reveals oncogene dependencies in multiple myeloma

Blood. 2018 Jun 8. pii: blood-2018-03-840132. doi: 10.1182/blood-2018-03-840132 Walker BA, Mavrommatis K, Wardell CP, Ashby TC, Bauer M, Davies FE, Rosenthal A, Wang H, Qu P, Hoering A, Samur M, Towfic F, Ortiz M, Flynt E, Yu Z, Yang Z, Rozelle D, Obenauer J, Trotter M, Auclair D, Keats J, Bolli N, Fulciniti M, Szalat…


May 18, 2018

Gene expression profile analysis of aortic vascular smooth muscle cells reveals upregulation of cadherin genes in myocardial infarction patients

Physiol Genomics. 2018 May 18. doi: 10.1152/physiolgenomics.00042.2017 Derda AA, Woo CC, Wongsurawat T, Richards M, Lee CN, Kofidis T, Kuznetsov VA, Sorokin VA Abstract Myocardial infarction (MI) induced by acute coronary arterial occlusion is usually secondary to atherosclerotic plaque rupture. Dysregulated response of vascular smooth muscle cells (VSMCs) in atherosclerotic plaques may promote plaque rupture….



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