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Thompson GB, Gilchrist AE, Lam VM, Nunes AC, Payan BA, Mora-Boza A, Serrano JF, García AJ, Harley BAC. Gelatin maleimide microgels for hematopoietic progenitor cell encapsulation. J Biomed Mater Res A. 2024 Jun 19;. doi: 10.1002/jbm.a.37765. [Epub ahead of print] PubMed PMID: 38894666; NIHMSID:NIHMS2001816.
Sengupta S, Anastasio MA. A Test Statistic Estimation-Based Approach for Establishing Self-Interpretable CNN-Based Binary Classifiers. IEEE Trans Med Imaging. 2024 May;43(5):1753-1765. doi: 10.1109/TMI.2023.3348699. Epub 2024 May 2. PubMed PMID: 38163307; PubMed Central PMCID: PMC11065575.
Zambuto SG, Jain I, Theriault HS, Underhill GH, Harley BAC. Cell Chirality of Micropatterned Endometrial Microvascular Endothelial Cells. Adv Healthc Mater. 2024 May;13(12):e2303928. doi: 10.1002/adhm.202303928. Epub 2024 Feb 13. PubMed PMID: 38291861; PubMed Central PMCID: PMC11076162.
Ridlon JM, Gaskins HR. Another renaissance for bile acid gastrointestinal microbiology. Nat Rev Gastroenterol Hepatol. 2024 May;21(5):348-364. doi: 10.1038/s41575-024-00896-2. Epub 2024 Feb 21. Review. PubMed PMID: 38383804.
Sorrells JE, Park J, Aksamitiene E, Marjanovic M, Martin EM, Chaney EJ, Higham AM, Cradock KA, Liu ZG, Boppart SA. Label-free nonlinear optical signatures of extracellular vesicles in liquid and tissue biopsies of human breast cancer. Sci Rep. 2024 Mar 6;14(1):5528. doi: 10.1038/s41598-024-55781-4. PubMed PMID: 38448508; PubMed Central PMCID: PMC10917806.
Emon B, Joy MSH, Lalonde L, Ghrayeb A, Doha U, Ladehoff L, Brockstein R, Saengow C, Ewoldt RH, Saif MTA. Nuclear deformation regulates YAP dynamics in cancer associated fibroblasts. Acta Biomater. 2024 Jan 1;173:93-108. doi: 10.1016/j.actbio.2023.11.015. Epub 2023 Nov 16. PubMed PMID: 37977292; PubMed Central PMCID: PMC10848212.
Yeh YH, Kelly VW, Pour RR, Sirk SJ. A molecular toolkit for heterologous protein secretion across Bacteroides species. bioRxiv. 2023 Dec 15;. doi: 10.1101/2023.12.14.571725. PubMed PMID: 38168418; PubMed Central PMCID: PMC10760143.
Bhatta R, Han J, Liu Y, Bo Y, Lee D, Zhou J, Wang Y, Nelson ER, Chen Q, Zhang XS, Hassaneen W, Wang H. Metabolic tagging of extracellular vesicles and development of enhanced extracellular vesicle based cancer vaccines. Nat Commun. 2023 Dec 5;14(1):8047. doi: 10.1038/s41467-023-43914-8. PubMed PMID: 38052869; PubMed Central PMCID: PMC10697976.
Boudreau MW, Tonogai EJ, Schane CP, Xi MX, Fischer JH, Vijayakumar J, Ji Y, Tarasow TM, Fan TM, Hergenrother PJ, Dudek AZ. The combination of PAC-1 and entrectinib for the treatment of metastatic uveal melanoma. Melanoma Res. 2023 Dec 1;33(6):514-524. doi: 10.1097/CMR.0000000000000927. Epub 2023 Sep 22. PubMed PMID: 37738028; PubMed Central PMCID: PMC10615773.
Applegate CC, Nelappana MB, Nielsen EA, Kalinowski L, Dobrucki IT, Dobrucki LW. RAGE as a Novel Biomarker for Prostate Cancer: A Systematic Review and Meta-Analysis. Cancers (Basel). 2023 Oct 9;15(19). doi: 10.3390/cancers15194889. Review. PubMed PMID: 37835583; PubMed Central PMCID: PMC10571903.
Gapinske M, Winter J, Swami D, Gapinske L, Woods WS, Shirguppe S, Miskalis A, Busza A, Joulani D, Kao CJ, Kostan K, Bigot A, Bashir R, Perez-Pinera P. Targeting Duchenne muscular dystrophy by skipping DMD exon 45 with base editors. Mol Ther Nucleic Acids. 2023 Sep 12;33:572-586. doi: 10.1016/j.omtn.2023.07.029. eCollection 2023 Sep 12. PubMed PMID: 37637209; PubMed Central PMCID: PMC10448430.
Louie AY, Kim JS, Drnevich J, Dibaeinia P, Koito H, Sinha S, McKim DB, Soto-Diaz K, Nowak RA, Das A, Steelman AJ. Influenza A virus infection disrupts oligodendrocyte homeostasis and alters the myelin lipidome in the adult mouse. J Neuroinflammation. 2023 Aug 19;20(1):190. doi: 10.1186/s12974-023-02862-2. PubMed PMID: 37596606; PubMed Central PMCID: PMC10439573.
Han J, Bhatta R, Liu Y, Bo Y, Elosegui-Artola A, Wang H. Metabolic glycan labeling immobilizes dendritic cell membrane and enhances antitumor efficacy of dendritic cell vaccine. Nat Commun. 2023 Aug 19;14(1):5049. doi: 10.1038/s41467-023-40886-7. PubMed PMID: 37598185; PubMed Central PMCID: PMC10439884.
Jeong Y, Vyas K, Irudayaraj J. Toxicity of per- and polyfluoroalkyl substances to microorganisms in confined hydrogel structures. J Hazard Mater. 2023 Aug 15;456:131672. doi: 10.1016/j.jhazmat.2023.131672. Epub 2023 May 22. PubMed PMID: 37236111; PubMed Central PMCID: PMC10330869.
Gamage HEV, Shahoei SH, Albright ST, Wang Y, Smith AJ, Farmer R, Fink EC, Jacquin E, Weisser E, Bautista RO, Henn MA, Schane CP, Nelczyk AT, Ma L, Gupta AD, Bendre SV, Nguyen T, Tiwari S, Krawczynska N, He S, Tjoanda E, Chen H, Sverdlov M, Gann PH, Boidot R, Vegran F, Fanning SW, Apetoh L, Hergenrother PJ, Nelson ER. Re-education of myeloid immune cells to reduce regulatory T cell expansion and impede breast cancer progression. bioRxiv. 2023 Aug 14;. doi: 10.1101/2023.08.14.553229. PubMed PMID: 37645737; PubMed Central PMCID: PMC10462080.
Han J, Bhatta R, Wang H. Bio-adhesive Macroporous Hydrogels for In Situ Recruitment and Modulation of Dendritic Cells. Cell Mol Bioeng. 2023 Aug;16(4):355-367. doi: 10.1007/s12195-023-00770-2. eCollection 2023 Aug. PubMed PMID: 37811000; PubMed Central PMCID: PMC10550891.
Emon B, Song YJ, Joy MSH, Kovour MV, Prasanth KV, Saif MTA. Mechanosensitive changes in the expression of genes in colorectal cancer-associated fibroblasts. Sci Data. 2023 Jun 2;10(1):350. doi: 10.1038/s41597-023-02233-9. PubMed PMID: 37268609; PubMed Central PMCID: PMC10238480.
Stanke KL, Larsen RJ, Rund L, Leyshon BJ, Louie AY, Steelman AJ. Automated identification of piglet brain tissue from MRI images using Region-based Convolutional Neural Networks. PLoS One. 2023;18(5):e0284951. doi: 10.1371/journal.pone.0284951. eCollection 2023. PubMed PMID: 37167205; PubMed Central PMCID: PMC10174584.
Zhang Y, Cui J, Chen KY, Kuo SH, Sharma J, Bhatta R, Liu Z, Ellis-Mohr A, An F, Li J, Chen Q, Foss KD, Wang H, Li Y, McCoy AM, Lau GW, Cao Q. A smart coating with integrated physical antimicrobial and strain-mapping functionalities for orthopedic implants. Sci Adv. 2023 May 5;9(18):eadg7397. doi: 10.1126/sciadv.adg7397. Epub 2023 May 5. PubMed PMID: 37146142; PubMed Central PMCID: PMC10162669.
Wolf PG, Kim S, Tussing-Humphreys L. Socioenvironmental Stressors, Gut Microbes, and Colorectal Cancer Inequities: A Chicago Perspective. Am J Gastroenterol. 2023 May 1;118(5):765-768. doi: 10.14309/ajg.0000000000002131. Epub 2022 Dec 23. PubMed PMID: 36689734; PubMed Central PMCID: PMC10159872.
Ostadi Moghaddam A, Arshee MR, Lin Z, Sivaguru M, Phillips H, McFarlin BL, Toussaint KC, Wagoner Johnson AJ. An indentation-based framework for probing the glycosaminoglycan-mediated interactions of collagen fibrils. J Mech Behav Biomed Mater. 2023 Apr;140:105726. doi: 10.1016/j.jmbbm.2023.105726. Epub 2023 Feb 15. PubMed PMID: 36827935; PubMed Central PMCID: PMC10061372.
Chembazhi UV, Tung WS, Hwang H, Wang Y, Lalwani A, Nguyen KL, Bangru S, Yee D, Chin K, Yang J, Kalsotra A, Mei W. PTBP1 controls intestinal epithelial regeneration through post-transcriptional regulation of gene expression. Nucleic Acids Res. 2023 Mar 21;51(5):2397-2414. doi: 10.1093/nar/gkad042. PubMed PMID: 36744439; PubMed Central PMCID: PMC10018364.
Ostadi Moghaddam A, Arshee MR, Lin Z, Sivaguru M, Phillips H, McFarlin BL, Toussaint KC, Wagoner Johnson AJ. Orientation-dependent indentation reveals the crosslink-mediated deformation mechanisms of collagen fibrils. Acta Biomater. 2023 Mar 1;158:347-357. doi: 10.1016/j.actbio.2023.01.005. Epub 2023 Jan 11. PubMed PMID: 36638936; PubMed Central PMCID: PMC10039649.
Jeong Y, Irudayaraj J. Hierarchical encapsulation of bacteria in functional hydrogel beads for inter- and intra- species communication. Acta Biomater. 2023 Mar 1;158:203-215. doi: 10.1016/j.actbio.2023.01.003. Epub 2023 Jan 9. PubMed PMID: 36632875; PubMed Central PMCID: PMC10209895.
Hsieh PH, Phal Y, Prasanth KV, Bhargava R. Cell Phase Identification in a Three-Dimensional Engineered Tumor Model by Infrared Spectroscopic Imaging. Anal Chem. 2023 Feb 14;95(6):3349-3357. doi: 10.1021/acs.analchem.2c04554. Epub 2022 Dec 27. PubMed PMID: 36574385; PubMed Central PMCID: PMC10214899.
Arif W, Mathur B, Saikali MF, Chembazhi UV, Toohill K, Song YJ, Hao Q, Karimi S, Blue SM, Yee BA, Van Nostrand EL, Bangru S, Guzman G, Yeo GW, Prasanth KV, Anakk S, Cummins CL, Kalsotra A. Splicing factor SRSF1 deficiency in the liver triggers NASH-like pathology and cell death. Nat Commun. 2023 Feb 9;14(1):551. doi: 10.1038/s41467-023-35932-3. PubMed PMID: 36759613; PubMed Central PMCID: PMC9911759.
Bhatta R, Han J, Liu Y, Bo Y, Wang H. T cell-responsive macroporous hydrogels for in situ T cell expansion and enhanced antitumor efficacy. Biomaterials. 2023 Feb;293:121972. doi: 10.1016/j.biomaterials.2022.121972. Epub 2022 Dec 16. PubMed PMID: 36566554; PubMed Central PMCID: PMC9868092.
Sonam S, Bangru S, Perry KJ, Chembazhi UV, Kalsotra A, Henry JJ. Cellular and molecular profiles of larval and adult Xenopus corneal epithelia resolved at the single-cell level. Dev Biol. 2022 Nov;491:13-30. doi: 10.1016/j.ydbio.2022.08.007. Epub 2022 Aug 29. PubMed PMID: 36049533; PubMed Central PMCID: PMC10241109.
Zambuto SG, Jain I, Clancy KBH, Underhill GH, Harley BAC. Role of Extracellular Matrix Biomolecules on Endometrial Epithelial Cell Attachment and Cytokeratin 18 Expression on Gelatin Hydrogels. ACS Biomater Sci Eng. 2022 Sep 12;8(9):3819-3830. doi: 10.1021/acsbiomaterials.2c00247. Epub 2022 Aug 22. PubMed PMID: 35994527; PubMed Central PMCID: PMC9581737.
Pastrana-Otero I, Majumdar S, Gilchrist AE, Harley BAC, Kraft ML. Identification of the Differentiation Stages of Living Cells from the Six Most Immature Murine Hematopoietic Cell Populations by Multivariate Analysis of Single-Cell Raman Spectra. Anal Chem. 2022 Sep 6;94(35):11999-12007. doi: 10.1021/acs.analchem.2c00714. Epub 2022 Aug 24. PubMed PMID: 36001072; PubMed Central PMCID: PMC9628127.
Iyer RR, Renteria CA, Yang L, Sorrells JE, Park J, Sun L, Yu Z, Huang Y, Marjanovic M, Mirica LM, Boppart SA. Tracking the binding of multi-functional fluorescent tags for Alzheimer's disease using quantitative multiphoton microscopy. J Biophotonics. 2022 Sep;15(9):e202200105. doi: 10.1002/jbio.202200105. Epub 2022 Jun 24. PubMed PMID: 35686672; PubMed Central PMCID: PMC9728943.
Zuo Q, Mogol AN, Liu YJ, Santaliz Casiano A, Chien C, Drnevich J, Imir OB, Kulkoyluoglu-Cotul E, Park NH, Shapiro DJ, Park BH, Ziegler Y, Katzenellenbogen BS, Aranda E, O'Neill JD, Raghavendra AS, Tripathy D, Madak Erdogan Z. Targeting Metabolic Adaptations in the Breast Cancer-Liver Metastatic Niche Using Dietary Approaches to Improve Endocrine Therapy Efficacy. Mol Cancer Res. 2022 Jun 3;20(6):923-937. doi: 10.1158/1541-7786.MCR-21-0781. PubMed PMID: 35259269; PubMed Central PMCID: PMC9177734.
Iyer RR, Liu YZ, Renteria CA, Tibble BE, Choi H, Žurauskas M, Boppart SA. Ultra-parallel label-free optophysiology of neural activity. iScience. 2022 May 20;25(5):104307. doi: 10.1016/j.isci.2022.104307. eCollection 2022 May 20. PubMed PMID: 35602935; PubMed Central PMCID: PMC9114528.
Wolf PG, Cowley ES, Breister A, Matatov S, Lucio L, Polak P, Ridlon JM, Gaskins HR, Anantharaman K. Diversity and distribution of sulfur metabolic genes in the human gut microbiome and their association with colorectal cancer. Microbiome. 2022 Apr 19;10(1):64. doi: 10.1186/s40168-022-01242-x. PubMed PMID: 35440042; PubMed Central PMCID: PMC9016944.
Chen JE, Leary S, Barnhouse V, Sarkaria JN, Harley BAC. Matrix Hyaluronic Acid and Hypoxia Influence a CD133(+) Subset of Patient-Derived Glioblastoma Cells. Tissue Eng Part A. 2022 Apr;28(7-8):330-340. doi: 10.1089/ten.TEA.2021.0117. Epub 2021 Dec 27. PubMed PMID: 34435883; PubMed Central PMCID: PMC9057908.
Gilchrist AE, Harley BAC. Engineered Tissue Models to Replicate Dynamic Interactions within the Hematopoietic Stem Cell Niche. Adv Healthc Mater. 2022 Apr;11(7):e2102130. doi: 10.1002/adhm.202102130. Epub 2022 Jan 7. Review. PubMed PMID: 34936239; PubMed Central PMCID: PMC8986554.
Iyer RR, Sorrells JE, Yang L, Chaney EJ, Spillman DR Jr, Tibble BE, Renteria CA, Tu H, Žurauskas M, Marjanovic M, Boppart SA. Label-free metabolic and structural profiling of dynamic biological samples using multimodal optical microscopy with sensorless adaptive optics. Sci Rep. 2022 Mar 2;12(1):3438. doi: 10.1038/s41598-022-06926-w. PubMed PMID: 35236862; PubMed Central PMCID: PMC8891278.
Moghaddam AO, Lin Z, Sivaguru M, Phillips H, McFarlin BL, Toussaint KC, Johnson AJW. Heterogeneous microstructural changes of the cervix influence cervical funneling. Acta Biomater. 2022 Mar 1;140:434-445. doi: 10.1016/j.actbio.2021.12.025. Epub 2021 Dec 25. PubMed PMID: 34958969; PubMed Central PMCID: PMC8828692.
Wolf PG, Byrd DA, Cares K, Dai H, Odoms-Young A, Gaskins HR, Ridlon JM, Tussing-Humphreys L. Bile Acids, Gut Microbes, and the Neighborhood Food Environment-a Potential Driver of Colorectal Cancer Health Disparities. mSystems. 2022 Feb 22;7(1):e0117421. doi: 10.1128/msystems.01174-21. Epub 2022 Feb 1. Review. PubMed PMID: 35103491; PubMed Central PMCID: PMC8805634.
Ngo MT, Barnhouse VR, Gilchrist AE, Mahadik BP, Hunter CJ, Hensold JN, Petrikas N, Harley BAC. Hydrogels Containing Gradients in Vascular Density Reveal Dose-Dependent Role of Angiocrine Cues on Stem Cell Behavior. Adv Funct Mater. 2021 Dec 16;31(51). doi: 10.1002/adfm.202101541. Epub 2021 Sep 17. PubMed PMID: 35558090; PubMed Central PMCID: PMC9090181.
Gomez-Perez SL, Zhang Y, Mourtzakis M, Tussing-Humphreys L, Ridlon J, Gaskins HR, Mutlu E. Comparison between handheld ultrasound and regional and whole-body dual energy x-ray absorptiometry (DXA) for body fat assessment. Clin Nutr ESPEN. 2021 Dec;46:386-393. doi: 10.1016/j.clnesp.2021.08.038. Epub 2021 Oct 12. PubMed PMID: 34857225; PubMed Central PMCID: PMC8646977.
Gilchrist AE, Serrano JF, Ngo MT, Hrnjak Z, Kim S, Harley BAC. Encapsulation of murine hematopoietic stem and progenitor cells in a thiol-crosslinked maleimide-functionalized gelatin hydrogel. Acta Biomater. 2021 Sep 1;131:138-148. doi: 10.1016/j.actbio.2021.06.028. Epub 2021 Jun 20. PubMed PMID: 34161871; PubMed Central PMCID: PMC8373770.
Zambuto SG, Clancy KBH, Harley BAC. Tuning Trophoblast Motility in a Gelatin Hydrogel via Soluble Cues from the Maternal-Fetal Interface. Tissue Eng Part A. 2021 Aug;27(15-16):1064-1073. doi: 10.1089/ten.tea.2020.0097. Epub 2020 Nov 20. PubMed PMID: 33216701; PubMed Central PMCID: PMC8392096.
Zeballos C MA, Gaj T. Next-Generation CRISPR Technologies and Their Applications in Gene and Cell Therapy. Trends Biotechnol. 2021 Jul;39(7):692-705. doi: 10.1016/j.tibtech.2020.10.010. Review. PubMed PMID: 33277043; PubMed Central PMCID: PMC8166939.
Emon MAB, Knoll S, Doha U, Ladehoff L, Lalonde L, Baietto D, Sivaguru M, Bhargava R, Saif MTA. Dose-independent threshold illumination for non-invasive time-lapse fluorescence imaging of live cells. Extreme Mech Lett. 2021 Jul;46. doi: 10.1016/j.eml.2021.101249. Epub 2021 Mar 3. PubMed PMID: 34095408; PubMed Central PMCID: PMC8171180.
Berg IC, Mohagheghian E, Habing K, Wang N, Underhill GH. Microtissue Geometry and Cell-Generated Forces Drive Patterning of Liver Progenitor Cell Differentiation in 3D. Adv Healthc Mater. 2021 Jun;10(12):e2100223. doi: 10.1002/adhm.202100223. Epub 2021 Apr 23. PubMed PMID: 33890430; PubMed Central PMCID: PMC8222189.
Wolf PG, Devendran S, Doden HL, Ly LK, Moore T, Takei H, Nittono H, Murai T, Kurosawa T, Chlipala GE, Green SJ, Kakiyama G, Kashyap P, McCracken VJ, Gaskins HR, Gillevet PM, Ridlon JM. Berberine alters gut microbial function through modulation of bile acids. BMC Microbiol. 2021 Jan 11;21(1):24. doi: 10.1186/s12866-020-02020-1. PubMed PMID: 33430766; PubMed Central PMCID: PMC7798349.
Doden HL, Wolf PG, Gaskins HR, Anantharaman K, Alves JMP, Ridlon JM. Completion of the gut microbial epi-bile acid pathway. Gut Microbes. 2021 Jan-Dec;13(1):1-20. doi: 10.1080/19490976.2021.1907271. PubMed PMID: 33938389; PubMed Central PMCID: PMC8096331.
Chen JE, Lumibao J, Leary S, Sarkaria JN, Steelman AJ, Gaskins HR, Harley BAC. Crosstalk between microglia and patient-derived glioblastoma cells inhibit invasion in a three-dimensional gelatin hydrogel model. J Neuroinflammation. 2020 Nov 18;17(1):346. doi: 10.1186/s12974-020-02026-6. PubMed PMID: 33208156; PubMed Central PMCID: PMC7677841.
Pastrana-Otero I, Majumdar S, Gilchrist AE, Gorman BL, Harley BAC, Kraft ML. Development of an inexpensive Raman-compatible substrate for the construction of a microarray screening platform. Analyst. 2020 Oct 26;145(21):7030-7039. doi: 10.1039/d0an01153c. PubMed PMID: 33103665; PubMed Central PMCID: PMC7594104.
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