-
1
-
-
77958558890
-
Functional metagenomics: A high throughput screening method to decipher microbiota-driven NF-kappaB modulation in the human gut
-
Lakhdari, O. et al. Functional metagenomics: a high throughput screening method to decipher microbiota-driven NF-kappaB modulation in the human gut. PLoS One 5, doi: 10.1371/journal.pone.0013092 (2010).
-
(2010)
PLoS One
, vol.5
-
-
Lakhdari, O.1
-
2
-
-
33644693458
-
Germ-free mice produce high levels of interferon-gamma in response to infection with Leishmania major but fail to heal lesions
-
Oliveira, M. R. et al. Germ-free mice produce high levels of interferon-gamma in response to infection with Leishmania major but fail to heal lesions. Parasitology 131, 477-488, doi: 10.1017/S0031182005008073 (2005).
-
(2005)
Parasitology
, vol.131
, pp. 477-488
-
-
Oliveira, M.R.1
-
3
-
-
84879232630
-
Altered gut microbiota promotes colitis-associated cancer in IL-1 receptor-associated kinase M-deficient mice
-
Klimesova, K. et al. Altered gut microbiota promotes colitis-associated cancer in IL-1 receptor-associated kinase M-deficient mice. Inflamm Bowel Dis 19, 1266-1277, doi: 10.1097/MIB.0b013e318281330a (2013).
-
(2013)
Inflamm Bowel Dis
, vol.19
, pp. 1266-1277
-
-
Klimesova, K.1
-
4
-
-
84908608590
-
The gut microbiota, bacterial metabolites and colorectal cancer
-
Louis, P., Hold, G. L. & Flint, H. J. The gut microbiota, bacterial metabolites and colorectal cancer. Nat Rev Microbiol 12, 661-672, doi: 10.1038/nrmicro3344 (2014).
-
(2014)
Nat Rev Microbiol
, vol.12
, pp. 661-672
-
-
Louis, P.1
Hold, G.L.2
Flint, H.J.3
-
5
-
-
84891745053
-
Microbiota: Manipulating the microbiota could affect colorectal cancer development
-
Smith, K. Microbiota: Manipulating the microbiota could affect colorectal cancer development. Nat Rev Gastroenterol Hepatol 11, 4, doi: 10.1038/nrgastro.2013.225 (2014).
-
(2014)
Nat Rev Gastroenterol Hepatol
, vol.11
, pp. 4
-
-
Smith, K.1
-
6
-
-
84877669180
-
Colorectal cancer: Looking for answers in the microbiota
-
Jobin, C. Colorectal cancer: looking for answers in the microbiota. Cancer Discov 3, 384-387, doi: 10.1158/2159-8290.CD-13-0042 (2013).
-
(2013)
Cancer Discov
, vol.3
, pp. 384-387
-
-
Jobin, C.1
-
7
-
-
84924787273
-
IBD and the gut microbiota-from bench to personalized medicine
-
Bellaguarda, E. & Chang, E. B. IBD and the Gut Microbiota-from Bench to Personalized Medicine. Curr Gastroenterol Rep 17, 439, doi: 10.1007/s11894-015-0439-z (2015).
-
(2015)
Curr Gastroenterol Rep
, vol.17
, pp. 439
-
-
Bellaguarda, E.1
Chang, E.B.2
-
8
-
-
84900399621
-
IBD. Understanding gut microbiota in new-onset Crohn's disease
-
Ray, K. IBD. Understanding gut microbiota in new-onset Crohn's disease. Nat Rev Gastroenterol Hepatol 11, 268, doi: 10.1038/ nrgastro.2014.45 (2014).
-
(2014)
Nat Rev Gastroenterol Hepatol
, vol.11
, pp. 268
-
-
Ray, K.1
-
9
-
-
79952113346
-
Debugging the intestinal microbiota in IBD
-
Dessein, R., Rosenstiel, P. & Chamaillard, M. Debugging the intestinal microbiota in IBD. Gastroenterol Clin Biol 33 Suppl 3, S131-136, doi: 10.1016/S0399-8320(09)73148-3 (2009).
-
(2009)
Gastroenterol Clin Biol
, vol.33
, pp. S131-136
-
-
Dessein, R.1
Rosenstiel, P.2
Chamaillard, M.3
-
10
-
-
78449296237
-
Individuality in gut microbiota composition is a complex polygenic trait shaped by multiple environmental and host genetic factors
-
Benson, A. K. et al. Individuality in gut microbiota composition is a complex polygenic trait shaped by multiple environmental and host genetic factors. Proc Natl Acad Sci U S A 107, 18933-18938, doi: 10.1073/pnas.1007028107 (2010).
-
(2010)
Proc Natl Acad Sci U S A
, vol.107
, pp. 18933-18938
-
-
Benson, A.K.1
-
11
-
-
84905482236
-
Pediatric Crohn disease patients exhibit specific ileal transcriptome and microbiome signature
-
Haberman, Y. et al. Pediatric Crohn disease patients exhibit specific ileal transcriptome and microbiome signature. J Clin Invest 124, 3617-3633, doi: 10.1172/JCI75436 (2014).
-
(2014)
J Clin Invest
, vol.124
, pp. 3617-3633
-
-
Haberman, Y.1
-
12
-
-
84867208167
-
The gut microbiota in IBD
-
Manichanh, C., Borruel, N., Casellas, F. & Guarner, F. The gut microbiota in IBD. Nat Rev Gastroenterol Hepatol 9, 599-608, doi: 10.1038/nrgastro.2012.152 (2012).
-
(2012)
Nat Rev Gastroenterol Hepatol
, vol.9
, pp. 599-608
-
-
Manichanh, C.1
Borruel, N.2
Casellas, F.3
Guarner, F.4
-
13
-
-
33748415364
-
Factors influencing the composition of the intestinal microbiota in early infancy
-
Penders, J. et al. Factors influencing the composition of the intestinal microbiota in early infancy. Pediatrics 118, 511-521, doi: 10.1542/peds.2005-2824 (2006).
-
(2006)
Pediatrics
, vol.118
, pp. 511-521
-
-
Penders, J.1
-
14
-
-
84872156123
-
Genetic control of obesity and gut microbiota composition in response to high-fat, high-sucrose diet in mice
-
Parks, B. W. et al. Genetic control of obesity and gut microbiota composition in response to high-fat, high-sucrose diet in mice. Cell Metab 17, 141-152, doi: 10.1016/j.cmet.2012.12.007 (2013).
-
(2013)
Cell Metab
, vol.17
, pp. 141-152
-
-
Parks, B.W.1
-
15
-
-
84871735806
-
Noncoder: A web interface for exon array-based detection of long non-coding RNAs
-
Gellert, P., Ponomareva, Y., Braun, T. & Uchida, S. Noncoder: a web interface for exon array-based detection of long non-coding RNAs. Nucleic Acids Res 41, e20, doi: 10.1093/nar/gks877 (2013).
-
(2013)
Nucleic Acids Res
, vol.41
, pp. e20
-
-
Gellert, P.1
Ponomareva, Y.2
Braun, T.3
Uchida, S.4
-
16
-
-
84917705634
-
Long noncoding RNA GAPLINC regulates CD44-dependent cell invasiveness and associates with poor prognosis of gastric cancer
-
Hu, Y. et al. Long noncoding RNA GAPLINC regulates CD44-dependent cell invasiveness and associates with poor prognosis of gastric cancer. Cancer Res 74, 6890-6902, doi: 10.1158/0008-5472.CAN-14-0686 (2014).
-
(2014)
Cancer Res
, vol.74
, pp. 6890-6902
-
-
Hu, Y.1
-
17
-
-
81255142204
-
Immunomodulation in Mytilus galloprovincialis by non-toxic doses of hexavalent chromium
-
Ciacci, C. et al. Immunomodulation in Mytilus galloprovincialis by non-toxic doses of hexavalent chromium. Fish Shellfish Immunol 31, 1026-1033, doi: 10.1016/j.fsi.2011.09.002 (2011).
-
(2011)
Fish Shellfish Immunol
, vol.31
, pp. 1026-1033
-
-
Ciacci, C.1
-
18
-
-
84899507852
-
A long non-coding RNA signature to improve prognosis prediction of colorectal cancer
-
Hu, Y. et al. A long non-coding RNA signature to improve prognosis prediction of colorectal cancer. Oncotarget 5, 2230-2242 (2014).
-
(2014)
Oncotarget
, vol.5
, pp. 2230-2242
-
-
Hu, Y.1
-
19
-
-
84881478367
-
A long noncoding RNA mediates both activation and repression of immune response genes
-
Carpenter, S. et al. A long noncoding RNA mediates both activation and repression of immune response genes. Science 341, 789-792, doi: 10.1126/science.1240925 (2013).
-
(2013)
Science
, vol.341
, pp. 789-792
-
-
Carpenter, S.1
-
20
-
-
84892923750
-
The long noncoding RNA THRIL regulates TNFalpha expression through its interaction with hnRNPL
-
Li, Z. et al. The long noncoding RNA THRIL regulates TNFalpha expression through its interaction with hnRNPL. Proc Natl Acad Sci U S A 111, 1002-1007, doi: 10.1073/pnas.1313768111 (2014).
-
(2014)
Proc Natl Acad Sci U S A
, vol.111
, pp. 1002-1007
-
-
Li, Z.1
-
21
-
-
84880154515
-
Integrative genomic analyses reveal clinically relevant long noncoding RNAs in human cancer
-
Du, Z. et al. Integrative genomic analyses reveal clinically relevant long noncoding RNAs in human cancer. Nat Struct Mol Biol 20, 908-913, doi: 10.1038/nsmb.2591 (2013).
-
(2013)
Nat Struct Mol Biol
, vol.20
, pp. 908-913
-
-
Du, Z.1
-
22
-
-
84872687670
-
Inflammation-associated enterotypes, host genotype, cage and inter-individual effects drive gut microbiota variation in common laboratory mice
-
Hildebrand, F. et al. Inflammation-associated enterotypes, host genotype, cage and inter-individual effects drive gut microbiota variation in common laboratory mice. Genome Biol 14, R4, doi: 10.1186/gb-2013-14-1-r4 (2013).
-
(2013)
Genome Biol
, vol.14
, pp. R4
-
-
Hildebrand, F.1
-
23
-
-
78649428063
-
Variation in the gut microbiota of laboratory mice is related to both genetic and environmental factors
-
Hufeldt, M. R., Nielsen, D. S., Vogensen, F. K., Midtvedt, T. & Hansen, A. K. Variation in the gut microbiota of laboratory mice is related to both genetic and environmental factors. Comp Med 60, 336-347 (2010).
-
(2010)
Comp Med
, vol.60
, pp. 336-347
-
-
Hufeldt, M.R.1
Nielsen, D.S.2
Vogensen, F.K.3
Midtvedt, T.4
Hansen, A.K.5
-
24
-
-
84901020405
-
Regulation of host weight gain and lipid metabolism by bacterial bile acid modification in the gut
-
Joyce, S. A. et al. Regulation of host weight gain and lipid metabolism by bacterial bile acid modification in the gut. Proc Natl Acad Sci U S A 111, 7421-7426, doi: 10.1073/pnas.1323599111 (2014).
-
(2014)
Proc Natl Acad Sci U S A
, vol.111
, pp. 7421-7426
-
-
Joyce, S.A.1
-
25
-
-
33748491517
-
The MicroArray Quality Control (MAQC) project shows inter-and intraplatform reproducibility of gene expression measurements
-
Consortium, M. et al. The MicroArray Quality Control (MAQC) project shows inter-and intraplatform reproducibility of gene expression measurements. Nat Biotechnol 24, 1151-1161, doi: 10.1038/nbt1239 (2006).
-
(2006)
Nat Biotechnol
, vol.24
, pp. 1151-1161
-
-
Consortium, M.1
-
26
-
-
33748491718
-
Performance comparison of one-color and two-color platforms within the MicroArray Quality Control (MAQC) project
-
Patterson, T. A. et al. Performance comparison of one-color and two-color platforms within the MicroArray Quality Control (MAQC) project. Nat Biotechnol 24, 1140-1150, doi: 10.1038/nbt1242 (2006).
-
(2006)
Nat Biotechnol
, vol.24
, pp. 1140-1150
-
-
Patterson, T.A.1
-
27
-
-
84923169414
-
A relative shift in cloacal location repositions external genitalia in amniote evolution
-
Tschopp, P. et al. A relative shift in cloacal location repositions external genitalia in amniote evolution. Nature 516, 391-394, doi: 10.1038/nature13819 (2014).
-
(2014)
Nature
, vol.516
, pp. 391-394
-
-
Tschopp, P.1
-
28
-
-
84904727902
-
Id2 and Id3 maintain the regulatory T cell pool to suppress inflammatory disease
-
Miyazaki, M. et al. Id2 and Id3 maintain the regulatory T cell pool to suppress inflammatory disease. Nat Immunol 15, 767-776, doi: 10.1038/ni.2928 (2014).
-
(2014)
Nat Immunol
, vol.15
, pp. 767-776
-
-
Miyazaki, M.1
-
29
-
-
84865339630
-
A microarray analysis of gnotobiotic mice indicating that microbial exposure during the neonatal period plays an essential role in immune system development
-
Yamamoto, M. et al. A microarray analysis of gnotobiotic mice indicating that microbial exposure during the neonatal period plays an essential role in immune system development. BMC Genomics 13, 335, doi: 10.1186/1471-2164-13-335 (2012).
-
(2012)
BMC Genomics
, vol.13
, pp. 335
-
-
Yamamoto, M.1
-
30
-
-
84899632648
-
Drosophila microbiota modulates host metabolic gene expression via IMD/NF-kappaB signaling
-
Erkosar Combe, B. et al. Drosophila microbiota modulates host metabolic gene expression via IMD/NF-kappaB signaling. PLoS One 9, e94729, doi: 10.1371/journal.pone.0094729 (2014).
-
(2014)
PLoS One
, vol.9
-
-
Erkosar Combe, B.1
-
31
-
-
84883518342
-
The Oct1 homolog Nubbin is a repressor of NF-kappaB-dependent immune gene expression that increases the tolerance to gut microbiota
-
Dantoft, W. et al. The Oct1 homolog Nubbin is a repressor of NF-kappaB-dependent immune gene expression that increases the tolerance to gut microbiota. BMC Biol 11, 99, doi: 10.1186/1741-7007-11-99 (2013).
-
(2013)
BMC Biol
, vol.11
, pp. 99
-
-
Dantoft, W.1
-
32
-
-
0037076272
-
Diagnosis of multiple cancer types by shrunken centroids of gene expression
-
Tibshirani, R., Hastie, T., Narasimhan, B. & Chu, G. Diagnosis of multiple cancer types by shrunken centroids of gene expression. Proc Natl Acad Sci U S A 99, 6567-6572, doi: 10.1073/pnas.082099299 (2002).
-
(2002)
Proc Natl Acad Sci U S A
, vol.99
, pp. 6567-6572
-
-
Tibshirani, R.1
Hastie, T.2
Narasimhan, B.3
Chu, G.4
-
33
-
-
84860742355
-
NONCODE v3.0: Integrative annotation of long noncoding RNAs
-
Bu, D. et al. NONCODE v3.0: integrative annotation of long noncoding RNAs. Nucleic Acids Res 40, D210-215, doi:10.1093/nar/ gkr1175 (2012).
-
(2012)
Nucleic Acids Res
, vol.40
, pp. D210-215
-
-
Bu, D.1
-
34
-
-
84926507971
-
Limma powers differential expression analyses for RNA-sequencing and microarray studies
-
Ritchie, M. E. et al. limma powers differential expression analyses for RNA-sequencing and microarray studies. Nucleic Acids Res 43, e47, doi: 10.1093/nar/gkv007 (2015).
-
(2015)
Nucleic Acids Res
, vol.43
, pp. e47
-
-
Ritchie, M.E.1
-
35
-
-
69649109364
-
Circos: An information aesthetic for comparative genomics
-
Krzywinski, M. et al. Circos: an information aesthetic for comparative genomics. Genome Res 19, 1639-1645, doi: 10.1101/ gr.092759.109 (2009).
-
(2009)
Genome Res
, vol.19
, pp. 1639-1645
-
-
Krzywinski, M.1
-
36
-
-
77951947707
-
ChIPpeakAnno: A Bioconductor package to annotate ChIP-seq and ChIP-chip data
-
Zhu, L. J. et al. ChIPpeakAnno: a Bioconductor package to annotate ChIP-seq and ChIP-chip data. BMC Bioinformatics 11, 237, doi: 10.1186/1471-2105-11-237 (2010).
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 237
-
-
Zhu, L.J.1
-
37
-
-
34547108859
-
Regulation of GREB1 transcription by estrogen receptor alpha through a multipartite enhancer spread over 20 kb of upstream flanking sequences
-
Deschenes, J., Bourdeau, V., White, J. H. & Mader, S. Regulation of GREB1 transcription by estrogen receptor alpha through a multipartite enhancer spread over 20 kb of upstream flanking sequences. J Biol Chem 282, 17335-17339, doi: 10.1074/jbc. C700030200 (2007).
-
(2007)
J Biol Chem
, vol.282
, pp. 17335-17339
-
-
Deschenes, J.1
Bourdeau, V.2
White, J.H.3
Mader, S.4
-
38
-
-
79952529158
-
A circadian rhythm orchestrated by histone deacetylase 3 controls hepatic lipid metabolism
-
Feng, D. et al. A circadian rhythm orchestrated by histone deacetylase 3 controls hepatic lipid metabolism. Science 331, 1315-1319, doi: 10.1126/science.1198125 (2011).
-
(2011)
Science
, vol.331
, pp. 1315-1319
-
-
Feng, D.1
-
39
-
-
84866647263
-
Discovery and characterization of human exonic transcriptional regulatory elements
-
Khan, A. H., Lin, A. & Smith, D. J. Discovery and characterization of human exonic transcriptional regulatory elements. PLoS One 7, e46098, doi: 10.1371/journal.pone.0046098 (2012).
-
(2012)
PLoS One
, vol.7
-
-
Khan, A.H.1
Lin, A.2
Smith, D.J.3
-
40
-
-
0037311919
-
TM4: A free, open-source system for microarray data management and analysis
-
Saeed, A. I. et al. TM4: a free, open-source system for microarray data management and analysis. Biotechniques 34, 374-378 (2003).
-
(2003)
Biotechniques
, vol.34
, pp. 374-378
-
-
Saeed, A.I.1
|