Publications

2025

Peer-Reviewed Publications

• Exploring the Molecularity of Spices: The Gustatory Perspective.  Thomas, S. S., Bhayani, H. S., & Crasto, C. J. Eur Food Res Tech. (2025): DOI:10.1007/s00217-025-04862-3
• Hepatic transcriptome profiling unveils candidate genes in cattle with liver abscesses under the influence of beef genetics in dairy cattle. Felizari, L. D., Bowman, S. M., Crasto, C. J., Sarturi, J. O., Woerner, D. R., Johnson, B. J. PLOS One, 20(6), e0324209. (2025)
• Cross-study transcriptomic investigation of Alzheimer’s brain tissue discoveries and limitations.  Tsurukawa, F. K., Mao, Y., Sanchez-Villalobos, C., Khanna, N., Crasto, C. J., Lawrence, J., and Pal, R. Nature: Scientific Reports, 15:16041. (2025)
• Effects of innate immune activation by Toll-like receptor agonists on ethanol consumption and preference in FVB/NJ x C57BL/6J hybrid mice. Brent R. Kisby, Isabel Castro-Piedras, Sambantham Shanmugam, Igor Ponomarev. bioRxiv 2025.05.06.652465; doi: https://doi.org/10.1101/2025.05.06.652465
• Differential Effects of Human Immunodeficiency Virus Nef Variants on Pulmonary Vascular Endothelial Cell Dysfunction. Garcia AK, Lujea NC, Baig J, Heath E, Nguyen MT, Rodriguez M, Campbell P, Castro Piedras I, Suarez Martinez E, Almodovar S. Infectious Disease Reports. 2025; 17(3):65. https://doi.org/10.3390/idr17030065
• Intron Retention: A Reemerging Paradigm in RNA Biology and Post-Transcriptional Gene Regulation. Porras-Tobias AL, Caldera A, Castro-Piedras I. Genes. 2025; 16(8):986. https://doi.org/10.3390/genes16080986
• Assessing the Performance of Environmental DNA Metabarcoding in Fish Diversity Surveys of the Texas Gulf Coast. Knauss, Madelyn, et al. Estuaries and Coasts 48.6 (2025): 177.
• TIAM1 drives prostatic branching phenotype and is a potential therapeutic target for benign prostatic hyperplasia."  Khedmatgozar, Hamed, et alJCI insight 10.12 (2025): e188062.
• Deciphering crop-specific rhizobacteriome assembly in cotton, sorghum, and soybean under hot semi-arid field conditions in Texas.  Abdelrahman, Mostafa, et al. Environmental Microbiome 20.1 (2025): 105.
• Fun-Sized Library Prep: Miniaturization is a valid method for per-sample cost reduction in targeted sequencing of angiosperm DNA. Bullock, Madison R., et al.  bioRxiv (2025): 2025-09.
• Molecular Characterization of Fusarium Isolates from Upland Cotton Roots in Uzbekistan and Whole-Genome Comparison with Isolates from the United States. Jobe, Timothy O., et al.  Phytopathology 115.1 (2025): 54-65.

Conference Papers

• Two-dimensional Molecular Fingerprints in Molecules Exhibiting the Sweet Flavor. Albers, C., Manam, S., Bhatta, S., & Crasto, C. J.  International Journal of BioLife Sciences. 4(2):154-160. (2025) --Conference paper

Talks and Presentations

• Connecting the Dots: The Beginning of the Journey to Uncover DVL3’s Role in Cancer Through Biotechnology” TC3R Seminar– School of Veterinary Medicine – Amarillo. Isabel Castro-Piedras, April 24, 2025.
• Two-dimensional Molecular Fingerprints in Molecules Exhibiting the Sweet Flavor. 8th International Conference on Nutritional, Environmental and Agricultural Sciences, Istanbul, Turkey.  Chiquito Crasto May 18, 2025. 
• Molecular Fingerprinting for Environmental Organic Toxins. One Health Innovation Symposium, Texas Tech University Innovation Hub, Lubbock, Texas, USA. Chiquito Crasto May 2, 2025
• Sophrosine Code: Interactive Sonification of Genetic Data for Music Therapy. (Shared talk with Dr. Hideki Isoda, School of Music, TTU).  Texas Tech University.  Lubbock, Texas, USA. Chiquito Crasto April 11, 2025.
• Exploring the Molecularity of Spices – A Computational Approach.  11th Annual World Congress on Food and Nutrition–2024.  Singapore. Chiquito Crasto November 13, 2024. 
• Bioinformatics Stream in the MS Program in Interdisciplinary Studies. Program in Interdisciplinary Studies, Texas Tech University. Chiquito Crasto October 29-30, 2024.
• A chromosome-scale reference genome of Moroccan Argane (Argania spinosa). El Idrissi, H., Iraqi, D., Khoulassa, S., Fokar, M., Badaoui, B., Moussadek, R., & Mentag, R. (2025).
• Effect of inbred mouse strain on the transcriptomic response to exercise training. Massett, Michael, Hyoseon Kim, and Mohamed Fokar. Physiology 40.S1 (2025): 1726.

Book Chapters

• Exploring the Conformational Odorant Space in the Olfactory Receptor Binding Region.   Lokubandara, A., Mandla, V. & Crasto, C.  In: Computational Intelligence Methods for Bioinformatics and Biostatistics.  Eds. Vettoretti, M., Tavazzi, E., Longato, E., Baruzzo, G. & Bellato, M., pp: 101-116/ Padova, Italy (2025).

Posters

• -Endogenous tagging using CRISPR/CAS9 to purify native proteins from human cells. Akinniyi K.O, Sheikh Alard A., Cuello L.G, Castro-Piedras, 2025 Graduate Poster Competition TTU – Lubbock
• -Pan-cancer analysis of the oncogenic role and immunological function of DVL3 in multiple tumors. Sheikh Alard A., Akinniyi K., Castro-Piedras, 2025 Graduate Poster Competition TTU – Lubbock
• KCNIP1 at the Convergence of Retinoic Acid Receptor Regulation, Ion Channel Dysfunction, and Alzheimer’s Disease: A Bioinformatics Study. Nishtha Khanna, Fernando Tsurukawa, Cesar Augusto Sanchez-Villalobos, Isabel Castro, Chanda Bose, Chiquito Crasto, Ranadip Pal, and J. Josh Lawrence. 

Book

• Biopython for Beginners. Crasto, C. J. (2025). Sentia Publishers, Lakeway, Texas.Biopython for Beginners. Crasto, C. J. (2025). Sentia Publishers, Lakeway, Texas.
  
  

2024

Peer-Reviewed Publication

• Human Olfactory Receptor Comparative Sequence Assessments from the Genome. (Review) Marenco, L. N., & Crasto, C. J., Open Acc Biostat Bioinform. 3(5). OABB.000571. (2024). DOI: 10.31031/OABB.2024.03.000571
• Diversity Within Olfactory Receptor Gene Families: A Case Study of Humans, Mice, Rats, and Elephants. Inan, F. A., Gopaldas, R., Marenco, L. N, & Crasto, C. J. JOJ Wildlife and Biodiversity.  5(1): 555654. (2024)
  

Conference Abstracts

• Exploring the Molecularity of Spices- The Olfactory Perspective. Thomas, S.S. & Crasto. C.J. The Obesity Research Institute-One Health: Metabolic Health. Author Name: Sona Sara Thomas. April 2024
• Far Peripheral Vision as an Early Biomarker for Neurodegenerative Disorders. Bidiwala, E.S. & Chiquito Crasto. Promoting Cross-Disciplinary Faculty Collaborations in One Health Research Conference. Lubbock, Texas. April 2024. Poster

Talks and Presentations

• Exploring the Molecularity of Spices – A Computational Approach.  11th Annual World Congress on Food and Nutrition–2024.  Singapore. November 13, 2024. 
  Bioinformatics Stream in the MS Program In Interdisciplinary Studies. Program in Interdisciplinary Studies, Texas Tech University. October 29-30, 2024.

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Recent advances in mass spectrometric analysis of glycoproteins
Alireza Banazadeh, Lucas Veillon, Kerry M. Wooding, Masoud Zabet‐Moghaddam, Yehia Mechref
Electrophoresis 38 (1), 162-189, 2017

Quantitative proteomic analysis of human testis reveals system-wide molecular and cellular pathways associated with non-obstructive azoospermia
M Alikhani, M Mirzaei, M Sabbaghian, P Parsamatin, R Karamzadeh, S Adib, N Sodeifi, M Gilani, M Zabet-Moghaddam, L Parker, Y Wu, V Gupta, P Haynes, H Gourabi, H Baharvand, G Salekdeh
Journal of proteomics 162, 141-154, 2017

Nanospray liquid chromatography/tandem mass spectrometry analysis of steroids from gray whale blubber
M Hayden, R Bhawal, J Escobedo, C Harmon, TM O'Hara, D Klein, S San‐Francisco, M Zabet‐Moghaddam, C Godard‐Codding
Rapid Communications in Mass Spectrometry 31 (13), 1088-1094, 2017

Magnetic carbon nanocomposites as a MALDI co-matrix enhancing MS-based glycomics
YM Alireza Banazadeh, Seth Williamson, Masoud Zabet, Ahmed Hussien
Analytical and Bioanalytical Chemistry 410 (28), 7395–7404, 2018

Distribution and development of molecularly distinct perineuronal nets in visual thalamus
F Sabbagh, Ubadah, A Monavarfeshani, K Su, M Zabet-Moghadam, J Cole, E Carnival, J Su, M Mirzaei, V Gupta, GH Salekdeh, M IA
Journal of Neurochemistry, 2018

Root endophytic fungus Piriformospora indica improves drought stress adaptation in barley by metabolic and proteomic reprogramming
MR Ghaffari, M Mirzaei, M Ghabooli, B Khatabi, Y Wu, M Zabet-Moghaddam, G Mohammadi-Nejad, P Haynes, MR Hajirezaei, M Sepehri, GH Salekdeh
Environmental and experimental botany 157, 197-210, 2019

Elucidating Olfactory Receptor-Odorant Interactions: Leveraging Drug-Design Ideations
CJ Crasto, A Lokubandara, V Mandla, D Buzatu
Biophysical Journal 116 (3), 53a-54a , 2019

The Editors would like to thank those listed below who have given their valuable help over the last year, between 1st October 2017 and 30th September 2018, in the review of ...
M Albers, M Aoki, R Apfelbach, A Arzi, E Beckett, M Behrens, M Bensafi, ...
Chemical Senses 44 (1), 69-70, 2019

Sm-p80-based schistosomiasis vaccine: double-blind pre-clinical trial in baboons demonstrates comprehensive prophylactic and parasite transmission blocking efficacy
W Zhang, AJ Molehin, JU Rojo, J Sudduth, PK Ganapathy, E Kim, ...
Annals of the New York Academy of Sciences 1425 (1), 38, 2018

Integrated Transcriptomics, Proteomics, and Glycomics Reveals the Association between Up-regulation of Sialylated N-glycans/Integrin and Breast Cancer Brain Metastasis
Wenjing Peng, Rui Zhu, Shiyue Zhou, Parvin Mirzaei & Yehia Mechref
Scientific Reports volume 9, Article number: 17361, 2019