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Products & Resources

The CREST Center for Aquatic Chemistry and Environment promotes interdisciplinary collaboration within FIU and beyond, to address the local and regional issues of environmental contamination. Over the course of this project, CREST CAChE will provide various tools to aid both internal and external partners in this collaborative work.

The Products & Resources page will serve as a portal to the Center’s products and outcomes, including information from the original CREST CAChE proposal, presentation slides about the Center and its projects, publications, application information for interested students, funding forms for current participants, citation information and project databases.

Publications & Related Data 

  • 2019

    Erin-Lopez JM., Putnam HM. "Annual Review of Marine Science, Marine Environmental Epigenetics". Annu. Rev. Mar. Sci. 2019. 11:7.1–7.34.

    Suarez-Ulloa V., Rivera-Casas C., Michel M., Eirin-Lopez JM. "Seasonal DNA methylation variation in the flat tree oyster Isognomon Alatus from a mangrove ecosystem in north Biscayne Bay, Florida" Journal of Shellfish Research, Vol. 38, No. 1, 1–10, 2019. center-for-aquatic-chemistry-and-environment/pollution-impacts-and-seasonal-epigenetic-modifications-in-North-Biscayne-Bay

    Castellanos A., Ramirez C., Michalkova V., Nouzova M., Noriega F., Fernandez-Lima F. (2019). "Three Dimensional Secondary Ion Mass Spectrometry Imaging (3D-SIMS) of Aedes aegypti ovarian follicles". Journal of Analytical Atomic Spectrometry. DOI: 10.1039/C8JA00425K

    Supplementary Data             

    Abiy A.Z., Melesse A.M., Abtew W., Whitman D. (2019). "Rainfall trend and variability in Southeast Florida: Implications for freshwater availability in the Everglades." PLoS ONE. 14 (2),  DOI:10.1371/journal.pone.0212008.

    Supplementary Data             

    Leyva D., Valadares L., Porter J., Wolff J., Jaffè R., Fernandez-Lima F. (2019). "Understanding the Structural Complexity of Dissolved Organic Matter: isomeric diversity." Faraday Discussions. DOI:10.1039/C8FD00221E  

    Supplementary Data             

    Angelica Moncada (2019). "Cutting Through the Socioeconomic Barrier to Increase Participation in Science." Opinion article in a special issue on underrepresented minorities in science, Fisheries Magazine.

    Tiffany Yanez. The Effects of Copper Exposure on Fish Locomotory and Predator-Prey Interactions. (2019). Florida International University.

    Regier P., Briceño H., Boyer J.N. (2019) "Analyzing and comparing complex environmental time series using a cumulative sums approach". MethodsX. Vol. 6, pg 779-787.

    Supplementary Data

    Eggenberger C.W., Santos R.O., Frankovich T.A., James W.R., Madden C.J., Nelson J.A., Rehage J.S.(2019) "Coupling telemetry and stable isotope techniques to unravel movement: Snook habitat use across variable nutrient environments". Fisheries Research. 

    Abiy A.Z., Melesse A.M., Abtew W. "Teleconnection of Regional Drought to ENSO, PDO, and AMO: Southern Florida and the Everglades". Atmosphere (2019), 10, 295.

  • 2018

    Hernández-Delgado EA,  Mercado-Molina AE, Suleimán-Ramos SE, and Lucking MA. (March 28th 2018). "Multi-disciplinary Lessons Learned from Low-Tech Coral Farming and Reef Rehabilitation: II. Coral Demography and Social-Ecological Benefits, Corals in a Changing World Carmenza Duque", IntechOpen, DOI: null. Available from:

    Benigni, P., Porter, J., Ridgeway, M.E., Park, M.A., Fernandez-Lima F. “Increasing Analytical Separation and Duty Cycle with Nonlinear Analytical Mobility Scan Functions in TIMS-FT-ICR MS” Anal. Chem., 2018, 90 (4), pp 2446–2450. DOI: 10.1021/acs.analchem.7b04053

    Supplementary Data

    Beal A, Rodriguez-Casariego JA, Rivera-Casas C, Suarez-Ulloa V, Eirin-Lopez JM. #71 "Environmental Epigenomics and Its Applications in Marine Organisms". DOI:10.1007/13836_2018_28.

    Rodriguez‐Casariego JA, Ladd MC, Shantz AA, Lopes C, Cheema MS, Kim B, Roberts SB, Fourqurean  JW, Ausio J, Burkepile DE, Erin-Lopez JM." Coral epigenetic responses to nutrient stress: Histone H2A.X phosphorylation dynamics and DNA methylation in the staghorn coral Acropora cervicornis"Ecol Evol2018;00:1–15.

    Supplementary Data              Raw Data

    Banisakher D, Presa-Reyes ME, Eisenberg JD, Allen J, Finlayson MA, Price R, Chen SC. "Ontology-Based Supervised Concept Learning for the Biogeochemical Literature," 2018 IEEE International Conference on Information Reuse and Integration (IRI), Salt Lake City, UT, 2018, pp. 402-410.         

    C. M. Perez, M. Doke, C. Yoo, and Q. Felty (2018). "Molecular determinants of brain vascular disorders from exposure to polychlorinated biphenyls." The Toxicologist: Supplement to Toxicological Sciences. 162 (1), Abstract no. 2127. ISSN: 1096-6080

    Supplementary Data              Raw Data 

    Tose LV, Benigni P, Leyva D, Sundberg A, Ramírez CE, Ridgeway ME (2018). Coupling trapped ion mobility spectrometry to mass spectrometry: trapped ion mobility spectrometry–time-of-flight mass spectrometry versus trapped ion mobility spectrometry–Fourier transform ion cyclotron resonance mass spectrometry. Rapid Communications in Mass Spectrometry. 32 (15), 1287. DOI: 10.1002/rcm.8165

    Supplementary Data            

    Joshua Eisenberg. Automatic Extraction of Narrative Structure from Long Form Text. (2018). Florida International University.

    Smith, Abraham Jeffrey. Development and Application of Aquatic Toxicology Studies for the Assessment of Impacts Due to Chemical Stressors Using Non-Standard Indigenous Organisms. (2018). Florida International University.

    Jason Howard. Understanding drivers of Blue Carbon storage and preservation in seagrass ecosystems. (2018). Florida International University.

    Raw Data

  • 2017

    Benigni, P., Marin, R. Sandoval, K., Gardinali, P., Fernandez-Lima, F., "Chemical Analysis of Water-accommodated Fractions of Crude Oil Spills Using TIMS-FT-ICR MS" Journal of Visualized Experiments (JOVE) 2017 , Issue 121, e55325.

    Benigni, P., Ridgeway, M.E., Park, M.A., Fernandez-Lima, F., "Towards structural molecular analysis of complex samples using TIMS-FT- ICR MS" Emerging Researchers National (ERN) Conference in Science, Technology, Engineering and Mathematics (STEM) 2017, Washington, DC.

    Benigni, P., Sandoval, K., Thompson, C.J., Ridgeway, M.E., Park, M.A., Gardinali, P., Fernandez-Lima, F., "Analysis of Photoirradiated Water Accommodated Fractions of Crude Oils Using Tandem TIMS and FT-ICR MS" Environmental Science & Technology 2017, Vol. 51 (11), pp 5978-5988.

    Supplementary Data 

    Eisenberg, J.D., Banisakher, D., Presa, M., Unthank, K., Finlayson, M., Price, R., & Chen, S.C., "Toward Semantic Search for the Biogeochemical Literature" IEEE International Conference on Information Reuse and Integration (IRI) 2017, pp 517-525.     

    Gonzalez-Raymat, H., Liu, G.L., Liriano, C., Li, Y.B., Yin, Y.G., Shi, J.B., Jiang, G.B., Cai, Y., "Elemental mercury: Its unique properties affect its behavior and fate in the environment" Environmental Pollution 2017, Vol. 229, pp 69-86.

    Gonzalez-Romero, R., Suarez-Ulloa, V., Rodriguez-Casariego, J., Garcia-Souto, D., Diaz, G.,Smith, A., Pasantes, J.J., Rand, G., Eirin-Lopez, J.M., "Effects of Florida Red Tides on histone variant expression and DNA methylation in the Eastern oyster Crassostrea virginica" Aquatic Toxicology 2017, Vol. 186, pp 196–204.

    Pouyanfar, S., and Chen, S.C. "T-LRA: Trend-based Learning Rate Annealing for Deep Neural Networks" IEEE Third International Conference on Multimedia Big Data 2017, pp 50-57.

    Prego-Faraldo, M.V., Vieira, L.R., Eirin-Lopez, J.M., Mendez, J., Guilhermino, L., "Transcriptional and biochemical analysis of antioxidant enzymes in the mussel Mytilus galloprovincialis during experimental exposures to the toxic dinoflagellate Prorocentrum lima" Marine Environmental Research 2017, Vol. 129, pp 304-315.

    Regier, P. “Linking Organic Matter Dynamics to Management, Restoration, and Climate in the Florida Everglades” (2017) FIU Electronic Theses and Dissertations.3385

    Rivera-Casas, C., Gonzalez-Romero, R., Garduño, R.A., Cheema, M.S., Ausio, J., Eirin-Lopez, J.M., "Molecular and Biochemical Methods Useful for the Epigenetic Characterization of Chromatin-Associated Proteins in Bivalve Molluscs" Frontiers in Pysiology 2017, Vol. 8 (490).

    Tian, H.M., and Chen, S.C. "MCA-NN: Multiple Correspondence Analysis based Neural Network for Disaster Information Detection" IEEE Third International Conference on Multimedia Big Data 2017, pp 268-275.

  • 2016

    Flower, H., Rains, M., Lewis, D., Zhang, J., Price, R., "Saltwater intrusion as potential driver of phosphorus release from limestone bedrock in a coastal aquifer" Estuarine, Coastal and Shelf Science 2016, Vol. 184, pp 166-176.

    Pouyanfar, S., and Chen, S.C., "Semantic Concept Detection Using Weighted Discretization Multiple Correspondence Analysis for Disaster Information Management" IEEE 17th International Conference on Information Reuse and Integration (IRI) 2016, pp 556-564.

    Pouyanfar, S. and Chen S.C., "Semantic Event Detection Using Ensemble Deep Learning" IEEE International Symposium on Multimedia (ISM) 2016, San Jose, CA. pp 203-208.

    Rodriguez-Casariego, J., Campbell, S., Ladd, M., Shantz, A., Roberts, S., Burkepile, D., Eirin-Lopez, J.M. "Preliminary analysis of the epigenetic mechanisms underlying acclimatory responses to nutrient pollution in stony corals" 7th Society of Environmental Toxicology and Chemistry (SETAC) North America 37th Annual Meeting 2016, Orlando, FL.

    Sadiq, S., Yan, Y., Shyu, M.L., Chen, S.C., & Ishwaran, H. "Enhancing Multimedia Imbalanced Concept Detection Using VIMP in Random Forests" Proceedings of the IEEE International Conference on Information Reuse and Integration 2016, pp 601–608.

    Yan, Y., Zhu, Q., Shyu, M. L., & Chen, S.C. "A classifier ensemble framework for multimedia big data classification" IEEE 17th International Conference on Information Reuse and Integration (IRI) 2016, pp 615-622

Facilities & Equipment

CREST CAChE provides computer stations, labs and workspaces on both the Modesto Maidique and Biscayne Bay Campuses at Florida International University, which are available to all affiliated students, postdocs, faculty and staff.

The Center also operates the CAChE Nutrient Analysis Lab, which represents three distinct services; first, it serves as a NELAC-accredited nutrient analysis laboratory to directly support research; second, it contains a dedicated student area for education and training related to traditional water quality analyses; and finally, it provides a space where students and faculty can work to improve or innovate technologies, and develop alternative or novel techniques.

Research & Development Lab (MMC: CASE-158)

  • YSI research buoys
  • Handheld YSI sonde
  • Field laptops/tablets
  • HOBO water level loggers
  • GoPro field cameras

Data Synthesis & Visualization Lab (MMC: OE-112)

  • Computer stations, including:
    • 43" 4K monitor
    • dual 27" monitors
  • ARC GIS software
  • Molgen software

CREST CAChE Biscayne Bay Offices (BBC: AC1-331)

  • Computer stations
  • Science drones
  • GoPro Field Cameras
  • Office supplies
  • Student library


Here are the different variations of our standardized CREST CAChE logos, plus a guide on how to acknowledge NSF and more in all CREST-supported posters and/or presentations: Poster/Presentation Acknowledgment Guidelines