US 20140378531A1
· Miller et al.
· 2014
[cited by applicant]
US 20160120915A1
· Blaser et al.
· 2016
[cited by applicant]
US 20210213073A1
· Zeng
· 2021
[cited by applicant]
US 20210260092A1
· Miller
· 2021
[cited by applicant]
US 20210315947A1
· Lynch
· 2021
[cited by applicant]
US 20210353694A1
· Possemiers
· 2021
[cited by applicant]
WO WO2006089406A1
· 2006
[cited by examiner]
WO 2015075688A1
· 2015
[cited by applicant]
WO 2016172657
· 2016
[cited by applicant]
WO 2018145082
· 2018
[cited by applicant]
WO 2020243705A1
· 2020
[cited by applicant]
WO 2020243731
· 2020
[cited by applicant]
Luo et al. (Pancreas vol. 48 No. 6, pp. 817-822, Jul. 2019).
[cited by examiner]
Chiorean et al. (Drug Design, Development and Therapy, vol. 5 No. 9, pp. 3529-3545, 2016).
[cited by examiner]
Akshintala, V. et al., “The Gut Microbiome in Pancreatic Disease” Clinical Gastroenterology and Hepatology (2019) Abstract, vol. 17, No. 2, 2 pages total.
[cited by applicant]
Chen, S-M. et al., “The Synergistic Tumor Growth-Inhibitory Effect of Probiotic Lactobacillus on Transgenic Mouse Model of Pancreatic Cancer Treated with Gemcitabine” Scientific Reports (2020) vol. 10, No. 20319, 12 pag…
[cited by applicant]
Gopalakrishnan, V. et al., “Intervention Strategies for Microbial Terapeutics in Cancer Immunotherapy” Immuno-Oncology Technology (2020) vol. 6, Issue C. pp. 9-17.
[cited by applicant]
Highlander, S.K. et al., “Gastrointestinal Microbiome Changes in Stage IV Pancreatic Cancer Patients Treated with Pembrolizumab With or Without Paricalcitol on the Stand Up to Cancer (SU2C) Pancreas Catalyst Trial” Amer…
[cited by applicant]
Thomas, R. M. et al., “Microbiota in Pancreatic Health and Disease: The Next Frontier in Microbiome Research” Castroentrology & Hepatology (2020) vol. 17, pp. 53-64.
[cited by applicant]
Zhou, W. et al., “The Fecal Microbiota of Patients with Pancreatic Ductal Adenocarcinoma and Autoimmune Pancreatitis Characterized by Metagenomic Sequencing” Journal of Translational Medicine (2021) vol. 19, No. 215, 12…
[cited by applicant]
Afshar-Kharghan, V. The role of the complement system in cancer. J. Clin. Invest. 127, 780-789 (2017).
[cited by applicant]
Brown, J.H., Whitham, T.G., Morgan Ernest, S.K. & Gehring, C.A. Complex Species Interactions and the Dynamics of Ecological Systems: Long-Term Experiments. Science 293, 643-650 (2001).
[cited by applicant]
Caporaso, J. G. et al. QIIME allows analysis of high-throughput community sequencing data. Nat. Methods 7, 335-336 (2010).
[cited by applicant]
Caporaso, J.G., et al. Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms. The ISME Journal 6, 1621-1624 (2012).
[cited by applicant]
Cho, M. S. et al. Autocrine effects of tumor-derived complement. Cell Reports 6, 1085-1095 (2014).
[cited by applicant]
Communication (International Preliminary Report on Patentability) issued by the International Searching Authority in International Application No. PCT/US2018/017052 dated Aug. 6, 2019, 13 pages total.
[cited by applicant]
Communication (International Search Report) issued by the International Searching Authority in International Application No. PCT/US2018/017052 dated May 8, 2018, 4 pages total.
[cited by applicant]
Communication (Written Opinion) issued by the International Searching Authority in International Application No. PCT/US2018/017052 dated May 8, 2018, 12 pages total.
[cited by applicant]
Edgar, R.C. Search and clustering orders of magnitude faster than BLAST. Bioinformatics 26, 2460-2461 (2010).
[cited by applicant]
Farrell, J.J., et al. Variations of oral microbiota are associated with pancreatic diseases including pancreatic cancer. Gut 61, 582-588 (2012).
[cited by applicant]
Haas, B.J., et al. Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons. Genome Research 21, 494-504 (2011).
[cited by applicant]
Hamada, S. et al., “Differences in Gut Microbiota Profiles between Autoimmune Pancreatitis and Chronic Pancreatitis” Tohoku Journal of Experimental Medicine (2018) vol. 244, No. 2, pp. 113-117.
[cited by applicant]
Herlemann, D.P.R., et al. Transitions in bacterial communities along the 2000km salinity gradient of the Baltic Sea. ISME J 5, 1571-1579 (2011).
[cited by applicant]
Hingorani, S. R. et al. Preinvasive and invasive ductal pancreatic cancer and its early detection in the mouse. Cancer Cell 4, 437-450 (2003).
[cited by applicant]
Hingorani, S. R. et al. Trp53R172H and KrasG12D cooperate to promote chromosomal instability and widely metastatic pancreatic ductal adenocarcinoma in mice. Cancer Cell 7, 469-483 (2005).
[cited by applicant]
Hruban. R. H. et al. Pancreatic intraepithelial neoplasia: a new nomenclature and classification system for pancreatic duct lesions. Am. J. Surg. Pathol. 25, 579-586 (2001).
[cited by applicant]
Ino, Y., et al. Immune cell infiltration as an indicator of the immune microenvironment of pancreatic cancer. British journal of cancer 108, 914-923 (2013).
[cited by applicant]
Ishikawa, T. et al. Identification of distinct ligands for the C-type lectin receptors mincle and dectin-2 in the pathogenic fungus Malassezia. Cell Host Microbe 13, 477-488 (2013).
[cited by applicant]
Kamada, N., Seo, S.-U., Chen, G.Y. & Nunez, G. Role of the gut microbiota in immunity and inflammatory disease. Nat Rev Immunol 13, 321-335 (2013).
[cited by applicant]
Klindworth, A., et al. Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies. Nucleic Acids Research 41, e1-e1 (2013).
[cited by applicant]
Leal-Lopes, C. et al., “Roles of Commensal Microbiota in Pancreas Homeostasis and Pancreatic Pathologies” Hindawi Publishing Corporation (2015) vol. 2015m Article ID 284680, 20 pages total.
[cited by applicant]
Masella, A.P., Bartram, A.K., Truszkowski, J.M., Brown, D.G. & Neufeld, J.D. PANDAseq; paired-end assembler for Illumina sequences. BMC Bioinformatics 13, 31-31 (2012).
[cited by applicant]
Mi, H., Muruganujan, A., Casagrande, J.T. & Thomas, P.D. Large-scale gene function analysis with the PANTHER classification system. Nature protocols 8, 1551-1566 (2013).
[cited by applicant]
Michaud, D.S., Joshipura, K., Giovannucci, E. & Fuchs, C.S. A Prospective Study of Periodontal Disease and Pancreatic Cancer in US Male Health Professionals, Journal of the National Cancer Institute 99, 171-175 (2007).
[cited by applicant]
Mitsuhashi, K., et al. Association of Fusobacterium species in pancreatic cancer tissues with molecular features and prognosis. Oncotarget; vol. 6, No. 9 (2015).
[cited by applicant]
Navas-Molina, J.A., et al. Advancing our understanding of the human microbiome using QIIME. Methods in Enzymology 531, 371-444 (2013).
[cited by applicant]
Plottel, C.S. & Blaser, M.J. Microbiome and Malignancy. Cell host & microbe 10, 324-335 (2011).
[cited by applicant]
Price, M.N., Dehal, P.S. & Arkin, A.P. FastTree: Computing Large Minimum Evolution Trees with Profiles instead of a Distance Matrix. Molecular Biology and Evolution 26, 1641-1650 (2009).
[cited by applicant]
Pushalkar, S. et al., “The Pancreatic Cancer Microbiome Promotes Oncogenesis by Induction of Innate and Adaptive Immune Suppression” Cancer Discovery (2018) vol. 8. No. 4, pp. 403-416.
[cited by applicant]
Pushalkar, S., et al. Comparison of oral microbiota in tumor and non-tumor tissues of patients with oral squamous cell carcinoma. BMC Microbiology 12, 144-144 (2012).
[cited by applicant]
Pushalkar, S., et al. Oral microbiota and host innate immune response in bisphosphonate-related osteonecrosis of the jaw. In J Oral Sci 6, 219-226 (2014).
[cited by applicant]
Reikvam, D. H. et al. Depletion of murine intestinal microbiota: effects on gut mucosa and epithelial gene expression. PLoS One 6, e17996 (2011).
[cited by applicant]
Rutkowski, M.R., et al. Microbially driven TLR5-dependent signaling governs distal malignant progression through tumor-promoting inflammation. Cancer cell 27, 27-40 (2015).
[cited by applicant]
Sam, Q. H., Chang, M. W. & Chai, L. Y. The fungal mycobiome and its interaction with gut bacteria in the host. Int. J. Mol. Sci. 18, 330 (2017).
[cited by applicant]
Schwabe, R.F. & Jobin, C. The microbiome and cancer. Nature reviews. Cancer 13, 800-812 (2013).
[cited by applicant]
Segata, N., et al. Metagenomic biomarker discovery and explanation. Genome Biology 12, R60-R60 (2011).
[cited by applicant]
Seifert, L. et al. The necrosome promotes pancreatic oncogenesis via CXCL1 and Mincle-induced immune suppression. Nature 532, 245-249 (2016).
[cited by applicant]
Seifert. L., et al. Radiation Therapy Induces Macrophages to Suppress Immune Responses Against Pancreatic Tumors in Mice. Gastroenterology (2016).
[cited by applicant]
Skalski, J. H. et al. Expansion of commensal fungus Wallemia mellicola in the gastrointestinal mycobiota enhances the severity of allergic airway disease in mice. PLoS Pathog. 14, e1007260 (2018).
[cited by applicant]
Van Asbeck, et al., “Mannose binding lectin plays a crucial role in innate immunity against yeast by enhanced complement activation and enhanced uptake of polymorphonuclear cells” BMC Microbiol. 8, 229 (2008).
[cited by applicant]
Walters, W. et al. Improved bacterial 16S rRNA gene (V4 and V4-5) and fungal internal transcribed spacer marker gene primers for microbial community surveys. mSystems 1, e00009-15 (2015).
[cited by applicant]
Zambirinis, C.P., et al. TLR9 ligation in pancreatic stellate cells promotes tumorigenesis. The Journal of Experimental Medicine 212, 2077-2094 (2015).
[cited by applicant]
Office Action issued Aug. 5, 2021 in connection with U.S. Appl. No. 16/484,080.
[cited by applicant]
Office Action issued Mar. 17, 2022 in connection with U.S. Appl. No. 16/484,080.
[cited by applicant]
Shah et al., “Trends in Food Science & Technology,” 102 (2020) 178-192. available online Jun. 23, 2020 (Year: 2020).
[cited by applicant]
Routy et al., European Urology 74 (2018) 521-526 (Year: 2018).
[cited by applicant]
Routy et al., Nature Reviews, Clinical Oncology. Jun. 2018, 15:385-396. published online: Apr. 10, 2018 (Year: 2018).
[cited by applicant]
Messaoudene et al., Cancer Research (Aug. 2020) vol. 80, No. 16 Suppl. Abstract No. 5730 (Year: 2020).
[cited by applicant]
Office Action issued Nov. 1, 2022 in connection with U.S. Appl. No. 16/484,080.
[cited by applicant]
Janda et al., “16S rRNA Gene Sequencing for Bacterial Identification in the Diagnostic Laboratory: Pluses, Perils, and Pitfalls”, Sep. 2007, Journal of Clinical Microbiology, vol. 45, No. 9, p. 2761-2764, (Year: 2007).
[cited by applicant]
Jiang et al., “Targeting focal adhesion kinase renders pancreatic cancers responsive to checkpoint immunotherapy”, Aug. 2016, Nature Medicine, vol. 22, No. 8, p. 851-860. (Year: 2016).
[cited by applicant]
Dingemanse et al., “Akkermansia muciniphila and Helicobacter typhlonius modulate intestinal tumor development in mice”, 2015, Carcinogenesis, vol. 36, No. 11, p. 1388-1396 (Year: 2015).
[cited by applicant]
Aykut et al., “The Fungal Mycobiome Promotes Pancreatic Oncogenesis via Activation of MBL” Nature 2019 vol. 574:264-267.
[cited by applicant]