HTSeq--a Python framework to work with high-throughput sequencing data, Bioinformatics, vol.13, issue.1, pp.166-169, 2015. ,
DOI : 10.1093/bioinformatics/btp616
Sox2(+) stem/progenitor cells in the adult mouse pituitary support organ homeostasis and have tumor-inducing potential, Cell Stem Cell, vol.13, pp.433-445, 2013. ,
Colonic polyposis caused by mTOR-mediated chromosomal instability in Apc+/??716 Cdx2
+/???
compound mutant mice, Nature Genetics, vol.253, issue.4, pp.323-330, 2003. ,
DOI : 10.1016/S0012-1606(02)00020-9
Loss of CDX2 expression is associated with poor prognosis in colorectal cancer patients, World Journal of Gastroenterology, vol.21, issue.5, pp.1457-1467, 2015. ,
DOI : 10.1002/pmic.201300377
IL-15 suppresses colitis-associated colon carcinogenesis by inducing antitumor immunity, OncoImmunology, vol.25, issue.9, 2015. ,
DOI : 10.1016/j.ccr.2014.02.019
URL : http://europepmc.org/articles/pmc4570106?pdf=render
Fine-tuning and autoregulation of the intestinal determinant and tumor suppressor homeobox gene CDX2 by alternative splicing, Cell Death and Differentiation, vol.210, issue.12, pp.2173-2186, 2017. ,
DOI : 10.1006/dbio.1999.9270
Crypt stem cells as the cells-of-origin of intestinal cancer, Nature, vol.104, issue.7229, pp.608-611, 2009. ,
DOI : 10.1038/nature07602
Sox9 regulates cell proliferation and is required for Paneth cell differentiation in the intestinal epithelium, The Journal of Cell Biology, vol.14, issue.4, pp.635-648, 2007. ,
DOI : 10.1126/science.286.5437.113
URL : https://hal.archives-ouvertes.fr/hal-00267010
Immune and Stromal Classification of Colorectal Cancer Is Associated with Molecular Subtypes and Relevant for Precision Immunotherapy, Clinical Cancer Research, vol.22, issue.16, pp.4057-4066, 2016. ,
DOI : 10.1158/1078-0432.CCR-15-2879
Reprogramming of intestinal differentiation and intercalary regeneration in Cdx2 mutant mice, Proc. Natl. Acad. Sci. USA, pp.7318-7323, 1999. ,
DOI : 10.1002/bies.950171211
The Cdx2 homeobox gene has a tumour suppressor function in the distal colon in addition to a homeotic role during gut development, Gut, vol.52, issue.10, pp.1465-1471, 2003. ,
DOI : 10.1136/gut.52.10.1465
Different effects of the Cdx1 and Cdx2 homeobox genes in a murine model of intestinal inflammation, Gut, vol.56, issue.12, pp.1688-1695125542, 2007. ,
DOI : 10.1136/gut.2007.125542
CCL2 Promotes Colorectal Carcinogenesis by Enhancing Polymorphonuclear Myeloid-Derived Suppressor Cell Population and Function, Cell Reports, vol.12, issue.2, pp.244-257, 2015. ,
DOI : 10.1016/j.celrep.2015.06.024
Colorectal cancers in a new mouse model of familial adenomatous polyposis: influence of genetic and environmental modifiers, Laboratory Investigation, vol.61, issue.12, pp.1619-1630, 2004. ,
DOI : 10.1002/hep.20286
CDX2 as a Prognostic Biomarker in Stage II and Stage III Colon Cancer, New England Journal of Medicine, vol.374, issue.3, pp.211-222, 2016. ,
DOI : 10.1056/NEJMoa1506597
Direct Interaction of SRY-Related Protein SOX9 and Steroidogenic Factor 1 Regulates Transcription of the Human Anti-M??llerian Hormone Gene, Molecular and Cellular Biology, vol.18, issue.11, pp.6653-6665, 1998. ,
DOI : 10.1128/MCB.18.11.6653
Poor-prognosis colon cancer is defined by a molecularly distinct subtype and develops from serrated precursor lesions, Nat. Med, vol.19, pp.614-6183174, 2013. ,
Tumors as Organs: Complex Tissues that Interface with the Entire Organism, Developmental Cell, vol.18, issue.6, pp.884-901, 2010. ,
DOI : 10.1016/j.devcel.2010.05.012
The intestine-specific homeobox gene Cdx2 decreases mobility and antagonizes dissemination of colon cancer cells, Oncogene, vol.13, issue.1, pp.107-115, 2008. ,
DOI : 10.1038/sj.bjc.6690068
The consensus molecular subtypes of colorectal cancer, Nature Medicine, vol.228, issue.11, pp.1350-1356, 2015. ,
DOI : 10.1186/gb-2004-5-10-r80
Cdx1 and Cdx2 Function as Tumor Suppressors, Journal of Biological Chemistry, vol.1775, issue.48, pp.33343-33354, 2014. ,
DOI : 10.1053/gast.2000.16507
URL : http://www.jbc.org/content/289/48/33343.full.pdf
Inducible cre-mediated control of gene expression in the murine gastrointestinal tract: effect of loss of ??-catenin, Gastroenterology, vol.126, issue.5, pp.1236-1246, 2004. ,
DOI : 10.1053/j.gastro.2004.03.020
Trefoil factor 1 is required for the commitment programme of mouse oxyntic epithelial progenitors, Gut, vol.53, issue.10, pp.1408-1415031963, 2003. ,
DOI : 10.1136/gut.2003.031963
Gastric-type expression signature in serrated pathway???associated colorectal tumors, Human Pathology, vol.46, issue.5, pp.643-656, 2015. ,
DOI : 10.1016/j.humpath.2015.01.003
Olfactomedin 4 deletion induces colon adenocarcinoma in Apc
Min/+
mice, Oncogene, vol.32, issue.40, pp.5237-5247, 2016. ,
DOI : 10.1016/j.immuni.2010.03.003
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2, Genome Biology, vol.14, issue.12, p.550, 2014. ,
DOI : 10.1186/gb-2013-14-4-r36
The extracellular matrix: A dynamic niche in cancer progression, The Journal of Cell Biology, vol.62, issue.4, pp.395-406, 2012. ,
DOI : 10.1002/1097-0142(19950215)75:4<1010::AID-CNCR2820750417>3.0.CO;2-O
Non-Cell-Autonomous Tumor Suppression by p53, Cell, vol.153, issue.2, pp.449-460, 2013. ,
DOI : 10.1016/j.cell.2013.03.020
URL : https://doi.org/10.1016/j.cell.2013.03.020
Non-cell-autonomous driving of tumour growth supports sub-clonal heterogeneity, Nature, vol.25, issue.7520, pp.54-58, 2014. ,
DOI : 10.1093/bioinformatics/btp184
Immunohistochemical analysis of colorectal cancer with gastric phenotype: Claudin-18 is associated with poor prognosis, Pathology International, vol.158, issue.10, pp.673-680, 2010. ,
DOI : 10.1016/S0002-9440(10)64075-8
The epidermal polarity protein Par3 is a non???cell autonomous suppressor of malignant melanoma, The Journal of Experimental Medicine, vol.4, issue.2, pp.339-358, 2017. ,
DOI : 10.1158/1078-0432.CCR-10-1343
The Lgr5 intestinal stem cell signature: robust expression of proposed quiescent ???+4??? cell markers, The EMBO Journal, vol.457, issue.14, pp.3079-3091, 2012. ,
DOI : 10.1038/nature07589
The tumor suppressor CDX2 opposes pro-metastatic biomechanical modifications of colon cancer cells through organization of the actin cytoskeleton, Cancer Letters, vol.386, pp.57-64, 2017. ,
DOI : 10.1016/j.canlet.2016.10.040
SOX9 is an atypical intestinal tumor suppressor controlling the oncogenic Wnt/ß-catenin signaling, Oncotarget, vol.7, pp.82228-82243, 2016. ,
Interleukin-11 Is the Dominant IL-6 Family Cytokine during Gastrointestinal Tumorigenesis and Can Be Targeted Therapeutically, Cancer Cell, vol.24, issue.2, pp.257-271, 2013. ,
DOI : 10.1016/j.ccr.2013.06.017
Cdx2 homeoprotein inhibits non-homologous end joining in colon cancer but not in leukemia cells, Nucleic Acids Research, vol.29, issue.8, pp.3456-3469, 2012. ,
DOI : 10.1093/nar/29.16.e78
BRA FV600E cooperates with CDX2 inactivation to promote serrated colorectal tumorigenesis, 2017. ,
MyD88-mediated signaling prevents development of adenocarcinomas of the colon: role of interleukin 18, The Journal of Experimental Medicine, vol.62, issue.8, pp.1625-163620100199, 2010. ,
DOI : 10.1016/j.ajhg.2008.03.016
Intestinal Tumorigenesis Initiated by Dedifferentiation and Acquisition of Stem-Cell-like Properties, Cell, vol.152, issue.1-2, pp.25-38, 2013. ,
DOI : 10.1016/j.cell.2012.12.012
Expression of olfactomedin 4 and claudin-18 in serrated neoplasia of the colorectum: a characteristic pattern is associated with sessile serrated lesion, Histopathology, vol.130, issue.7, pp.1018-1027, 2013. ,
DOI : 10.1007/s00432-003-0519-6
Chronic epithelial NF-?B activation accelerates APC loss and intestinal tumor initiation through iNOS up-regulation, Proc. Natl. Acad. Sci. USA, pp.14007-14012, 2012. ,
DOI : 10.1073/pnas.1211509109
URL : http://www.pnas.org/content/109/35/14007.full.pdf
Top-down morphogenesis of colorectal tumors, Proc. Natl. Acad. Sci. USA, pp.2640-2645, 2001. ,
DOI : 10.1002/ijc.2910590110
Transformation of intestinal stem cells into gastric stem cells on loss of transcription factor Cdx2, Nature Communications, vol.26, p.5728, 2014. ,
DOI : 10.1093/bioinformatics/btp698
initiates histodifferentiation of the midgut endoderm, FEBS Letters, vol.299, issue.17, pp.2555-2560, 2008. ,
DOI : 10.1016/j.ydbio.2006.08.040
Cdx2 determines the fate of postnatal intestinal endoderm, Development, vol.139, issue.3, pp.465-474, 2012. ,
DOI : 10.1242/dev.070722
Degree of Tissue Differentiation Dictates Susceptibility to BRAF-Driven Colorectal Cancer, Cell Reports, vol.21, issue.13, pp.3833-3845, 2017. ,
DOI : 10.1016/j.celrep.2017.11.104
TopHat: discovering splice junctions with RNA-Seq, Bioinformatics, vol.18, issue.9, pp.1105-1111, 2009. ,
DOI : 10.1101/gr.074492.107
Differentiation-Specific Histone Modifications Reveal Dynamic Chromatin Interactions and Partners for the Intestinal Transcription Factor CDX2, Developmental Cell, vol.19, issue.5, pp.713-726, 2010. ,
DOI : 10.1016/j.devcel.2010.10.006
Essential and Redundant Functions of Caudal Family Proteins in Activating Adult Intestinal Genes, Molecular and Cellular Biology, vol.31, issue.10, pp.2026-2039, 2011. ,
DOI : 10.1128/MCB.01250-10
CXCL4 mediates tumor regrowth after chemotherapy by suppression of antitumor immunity, Cancer Biology & Therapy, vol.16, issue.12, pp.1775-1783, 2015. ,
DOI : 10.1016/j.ejphar.2011.09.174