Nutrition, Metabolism & Genomics Group


Selected Publications 

Gut-derived short-chain fatty acids are vividly assimilated into host carbohydrates and lipids.

den Besten G, Lange K, Havinga R, van Dijk TH, Gerding A, van Eunen K, Müller M, Groen AK, Hooiveld GJ, Bakker BM, Reijngoud DJ.

Am J Physiol Gastrointest Liver Physiol. 2013 Oct 17. [Epub ahead of print]

Resistant Starch Induces Catabolic but Suppresses Immune and Cell Division Pathways and Changes the Microbiome in Proximal Colon of Male Pigs.

Haenen D, Souza da Silva C, Zhang J, Koopmans SJ, Bosch G, Vervoort J, Gerrits WJ, Kemp B, Smidt H, Müller M, Hooiveld GJ.

J Nutr. 2013 Oct 16. [Epub ahead of print]

Postprandial fatty acid specific changes in circulating oxylipins in lean and obese men after high-fat challenge tests.

Strassburg K, Esser D, Vreeken RJ, Hankemeier T, Müller M, van Duynhoven J, van Golde J, van Dijk SJ, Afman LA, Jacobs DM.

Mol Nutr Food Res. 2013 Oct 14. doi: 10.1002/mnfr.201300321. [Epub ahead of print]

Jnk1 in murine hepatic stellate cells is a crucial mediator of liver fibrogenesis.

Zhao G, Hatting M, Nevzorova YA, Peng J, Hu W, Boekschoten MV, Roskams T, Muller M, Gassler N, Liedtke C, Davis RJ, Cubero FJ, Trautwein C.

Gut. 2013 Sep 13. doi: 10.1136/gutjnl-2013-305507. [Epub ahead of print]

The effects of 30 days resveratrol supplementation on adipose tissue morphology and gene expression patterns in obese men.

Konings E, Timmers S, Boekschoten MV, Goossens GH, Jocken JW, Afman LA, Müller M, Schrauwen P, Mariman EC, Blaak EE.

Int J Obes (Lond). 2013 Aug 20. doi: 10.1038/ijo.2013.155. [Epub ahead of print]

TNFR1 determines progression of chronic liver injury in the IKKγ/Nemo genetic model.

Cubero FJ, Singh A, Borkham-Kamphorst E, Nevzorova YA, Al Masaoudi M, Haas U, Boekschoten MV, Gassler N, Weiskirchen R, Muller M, Liedtke C, Trautwein C.

Cell Death Differ. 2013 Nov;20(11):1580-92. doi: 10.1038/cdd.2013.112. Epub 2013 Aug 9.

Impaired amino acid metabolism contributes to fasting-induced hypoglycemia in fatty acid oxidation defects.

Houten SM, Herrema H, Te Brinke H, Denis S, Ruiter JP, van Dijk TH, Argmann CA, Ottenhoff R, Müller M, Groen AK, Kuipers F, Reijngoud DJ, Wanders RJ.

Hum Mol Genet. 2013 Aug 20. [Epub ahead of print]

Increased plasma citrulline in mice marks diet-induced obesity and may predict the development of the metabolic syndrome.

Sailer M, Dahlhoff C, Giesbertz P, Eidens MK, de Wit N, Rubio-Aliaga I, Boekschoten MV, Müller M, Daniel H.

PLoS One. 2013 May 14;8(5):e63950. doi: 10.1371/journal.pone.0063950. Print 2013.

Overexpression of angiopoietin-like protein 4 protects against atherosclerosis development.

Georgiadi A, Wang Y, Stienstra R, Tjeerdema N, Janssen A, Stalenhoef A, van der Vliet JA, de Roos A, Tamsma JT, Smit JW, Tan NS, Müller M, Rensen PC, Kersten S.

Arterioscler Thromb Vasc Biol. 2013 Jul;33(7):1529-37. doi: 10.1161/ATVBAHA.113.301698. Epub 2013 May 2.

User-friendly solutions for microarray quality control and pre-processing on

Eijssen LM, Jaillard M, Adriaens ME, Gaj S, de Groot PJ, Müller M, Evelo CT.

Nucleic Acids Res. 2013 Jul;41(Web Server issue):W71-6. doi: 10.1093/nar/gkt293. Epub 2013 Apr 24.

A high-fat SFA, MUFA, or n3 PUFA challenge affects the vascular response and initiates an activated state of cellular adherence in lean and obese middle-aged men.

Esser D, van Dijk SJ, Oosterink E, Müller M, Afman LA.

J Nutr. 2013 Jun;143(6):843-51. doi: 10.3945/jn.113.174540. Epub 2013 Apr 24.

Dietary heme induces acute oxidative stress, but delayed cytotoxicity and compensatory hyperproliferation in mouse colon.

Ijssennagger N, Rijnierse A, de Wit NJ, Boekschoten MV, Dekker J, Schonewille A, Müller M, van der Meer R.

Carcinogenesis. 2013 Jul;34(7):1628-35. doi: 10.1093/carcin/bgt084. Epub 2013 Mar 1.

Vascular and inflammatory high fat meal responses in young healthy men; a discriminative role of IL-8 observed in a randomized trial.

Esser D, Oosterink E, op 't Roodt J, Henry RM, Stehouwer CD, Müller M, Afman LA.

PLoS One. 2013;8(2):e53474. doi: 10.1371/journal.pone.0053474. Epub 2013 Feb 6.

[PubMed - in process] 
Free PMC Article

A consideration of biomarkers to be used for evaluation of inflammation in human nutritional studies.

Calder PC, Ahluwalia N, Albers R, Bosco N, Bourdet-Sicard R, Haller D, Holgate ST, Jönsson LS, Latulippe ME, Marcos A, Moreines J, M'Rini C, Müller M, Pawelec G, van Neerven RJ, Watzl B, Zhao J.

Br J Nutr. 2013 Jan;109 Suppl 1:S1-34. doi: 10.1017/S0007114512005119. Review.

Hatting M, Zhao G, Schumacher F, Sellge G, Al Masaoudi M, Gaβler N, Boekschoten M, Müller M, Liedtke C, Cubero FJ, Trautwein C.

Hepatology. 2013 Jun;57(6):2189-201. doi: 10.1002/hep.26271. Epub 2013 May 6.

Short-chain fatty acids stimulate angiopoietin-like 4 synthesis in human colon adenocarcinoma cells by activating peroxisome proliferator-activated receptor γ.

Alex S, Lange K, Amolo T, Grinstead JS, Haakonsson AK, Szalowska E, Koppen A, Mudde K, Haenen D, Al-Lahham S, Roelofsen H, Houtman R, van der Burg B, Mandrup S, Bonvin AM, Kalkhoven E, Müller M, Hooiveld GJ, Kersten S.

Mol Cell Biol. 2013 Apr;33(7):1303-16. doi: 10.1128/MCB.00858-12. Epub 2013 Jan 22.

A diet high in resistant starch modulates microbiota composition, SCFA concentrations, and gene expression in pig intestine.

Haenen D, Zhang J, Souza da Silva C, Bosch G, van der Meer IM, van Arkel J, van den Borne JJ, Pérez Gutiérrez O, Smidt H, Kemp B, Müller M, Hooiveld GJ.

J Nutr. 2013 Mar;143(3):274-83. doi: 10.3945/jn.112.169672. Epub 2013 Jan 16.



Dietary Heme Alters Microbiota and Mucosa of Mouse Colon without Functional Changes in Host-Microbe Cross-Talk

Ijssennagger N, Derrien M, van Doorn GM, Rijnierse A, van den Bogert B, Müller M, Dekker J, Kleerebezem M, van der Meer R.

PLoS One. 2012;7(12):e49868. doi: 10.1371/journal.pone.0049868. Epub 2012 Dec 11.

Pronounced effects of acute endurance exercise on gene expression in resting and exercising human skeletal muscle

Catoire M, Mensink M, Boekschoten MV, Hangelbroek R, Müller M, Schrauwen P, Kersten S.

PLoS One. 2012;7(11):e51066. doi: 10.1371/journal.pone.0051066. Epub 2012 Nov 30.

Dietary protein affects gene expression and prevents lipid accumulation in the liver in mice

Schwarz J, Tomé D, Baars A, Hooiveld GJ, Müller M.

PLoS One. 2012;7(10):e47303. doi: 10.1371/journal.pone.0047303. Epub 2012 Oct 23.

Structural, functional and molecular analysis of the effects of aging in the small intestine and colon of C57BL/6J mice

Steegenga WT, de Wit NJ, Boekschoten MV, Ijssennagger N, Lute C, Keshtkar S, Bromhaar MM, Kampman E, de Groot LC, Müller M.

BMC Med Genomics. 2012 Aug 28;5:38. doi: 10.1186/1755-8794-5-38.

Markers of endogenous desaturase activity and risk of coronary heart disease in the CAREMA cohort study

Lu Y, Vaarhorst A, Merry AH, Dollé ME, Hovenier R, Imholz S, Schouten LJ, Heijmans BT, Müller M, Slagboom PE, van den Brandt PA, Gorgels AP, Boer JM, Feskens EJ.

PLoS One. 2012;7(7):e41681. doi: 10.1371/journal.pone.0041681. Epub 2012 Jul 23.

Dietary heme-mediated PPARα activation does not affect the heme-induced epithelial hyperproliferation and hyperplasia in mouse colon

Ijssennagger N, de Wit N, Müller M, van der Meer R.

PLoS One. 2012;7(8):e43260. doi: 10.1371/journal.pone.0043260. Epub 2012 Aug 14.

Responses to high-fat challenges varying in fat type in subjects with different metabolic risk phenotypes: a randomized trial

van Dijk SJ, Mensink M, Esser D, Feskens EJ, Müller M, Afman LA.

PLoS One. 2012;7(7):e41388. doi: 10.1371/journal.pone.0041388. Epub 2012 Jul 23.

Phenotyping the effect of diet on non-alcoholic fatty liver disease

de Wit NJ, Afman LA, Mensink M, Müller M.

J Hepatol. 2012 Dec;57(6):1370-3. doi: 10.1016/j.jhep.2012.07.003. Epub 2012 Jul 11.

Combined deficiency of iron and (n-3) fatty acids in male rats disrupts brain monoamine metabolism and produces greater memory deficits than iron deficiency or (n-3) fatty acid deficiency alone

Baumgartner J, Smuts CM, Malan L, Arnold M, Yee BK, Bianco LE, Boekschoten MV, Müller M, Langhans W, Hurrell RF, Zimmermann MB.

J Nutr. 2012 Aug;142(8):1463-71. doi: 10.3945/jn.111.156281. Epub 2012 Jun 27.

In male rats with concurrent iron and (n-3) fatty acid deficiency, provision of either iron or (n-3) fatty acids alone alters monoamine metabolism and exacerbates the cognitive deficits associated with combined deficiency

Baumgartner J, Smuts CM, Malan L, Arnold M, Yee BK, Bianco LE, Boekschoten MV, Müller M, Langhans W, Hurrell RF, Zimmermann MB.

J Nutr. 2012 Aug;142(8):1472-8. doi: 10.3945/jn.111.156299. Epub 2012 Jun 27.

Saturated fat stimulates obesity and hepatic steatosis and affects gut microbiota composition by an enhanced overflow of dietary fat to the distal intestine.

de Wit N, Derrien M, Bosch-Vermeulen H, Oosterink E, Keshtkar S, Duval C, de Vogel-van den Bosch J, Kleerebezem M, Müller M, van der Meer R.

Am J Physiol Gastrointest Liver Physiol. 2012 Sep 1;303(5):G589-99. doi: 10.1152/ajpgi.00488.2011. Epub 2012 Jun 14.

Consumption of a high monounsaturated fat diet reduces oxidative phosphorylation gene expression in peripheral blood mononuclear cells of abdominally overweight men and women.

van Dijk SJ, Feskens EJ, Bos MB, de Groot LC, de Vries JH, Müller M, Afman LA.

J Nutr. 2012 Jul;142(7):1219-25. doi: 10.3945/jn.111.155283. Epub 2012 May 23.

TGFB1 genetic polymorphisms and coronary heart disease risk: a meta-analysis.

Lu Y, Boer JM, Barsova RM, Favorova O, Goel A, Müller M, Feskens EJ; PROCARDIS CARDIoGRAM Consortium.

BMC Med Genet. 2012 May 18;13:39. doi: 10.1186/1471-2350-13-39.

Literature-based genetic risk scores for coronary heart disease: the Cardiovascular Registry Maastricht (CAREMA) prospective cohort study.

Vaarhorst AA, Lu Y, Heijmans BT, Dollé ME, Böhringer S, Putter H, Imholz S, Merry AH, van Greevenbroek MM, Jukema JW, Gorgels AP, van den Brandt PA, Müller M, Schouten LJ, Feskens EJ, Boer JM, Slagboom PE.

Circ Cardiovasc Genet. 2012 Apr 1;5(2):202-9. doi: 10.1161/CIRCGENETICS.111.960708. Epub 2012 Feb 28.

PUFAs acutely affect triacylglycerol-derived skeletal muscle fatty acid uptake and increase postprandial insulin sensitivity.

Jans A, Konings E, Goossens GH, Bouwman FG, Moors CC, Boekschoten MV, Afman LA, Müller M, Mariman EC, Blaak EE.

Am J Clin Nutr. 2012 Apr;95(4):825-36. doi: 10.3945/ajcn.111.028787. Epub 2012 Feb 15.


Detailed transcriptomics analysis of the effect of dietary fatty acids on gene expression in the heart.

Georgiadi A, Boekschoten MV, Müller M, Kersten S.

Physiol Genomics. 2012 Mar 19;44(6):352-61. doi: 10.1152/physiolgenomics.00115.2011. Epub 2012 Jan 24.

Oit1/Fam3D, a gut-secreted protein displaying nutritional status-dependent regulation.

de Wit NJ, IJssennagger N, Oosterink E, Keshtkar S, Hooiveld GJ, Mensink RP, Hammer S, Smit JW, Müller M, van der Meer R.

J Nutr Biochem. 2012 Nov;23(11):1425-33. doi: 10.1016/j.jnutbio.2011.09.003. Epub 2012 Jan 4.

Plasma mannose-binding lectin is stimulated by PPARα in humans.

Rakhshandehroo M, Stienstra R, de Wit NJ, Bragt MC, Haluzik M, Mensink RP, Müller M, Kersten S.

Am J Physiol Endocrinol Metab. 2012 Mar 1;302(5):E595-602. doi: 10.1152/ajpendo.00299.2011. Epub 2012 Jan 3.

Human nutrigenomics of gene regulation by dietary fatty acids.

Afman LA, Müller M.

Prog Lipid Res. 2012 Jan;51(1):63-70. doi: 10.1016/j.plipres.2011.11.005. Epub 2011 Dec 2. Review.

Dietary haem stimulates epithelial cell turnover by downregulating feedback inhibitors of proliferation in murine colon.

IJssennagger N, Rijnierse A, de Wit N, Jonker-Termont D, Dekker J, Müller M, van der Meer R.

Gut. 2012 Jul;61(7):1041-9. doi: 10.1136/gutjnl-2011-300239. Epub 2011 Sep 24.


Meissner M, Herrema H, van Dijk TH, Gerding A, Havinga R, Boer T, Müller M, Reijngoud DJ, Groen AK, Kuipers F.
Bile Acid Sequestration Reduces Plasma Glucose Levels in db/db Mice by Increasing Its Metabolic Clearance Rate.
PLoS One. 2011;6(11):e24564.

Lu Y, Boekschoten MV, Wopereis S, Müller M, Kersten S.
Comparative transcriptomic and metabolomic analysis of fenofibrate and fish oil treatments in mice.
Physiol Genomics. 2011;43(23):1307-18.

Derrien M, Van Baarlen P, Hooiveld G, Norin E, Müller M, de Vos WM.
Modulation of Mucosal Immune Response, Tolerance, and Proliferation in Mice Colonized by the Mucin-Degrader Akkermansia muciniphila.
Front Microbiol. 2011;2:166.

Lin K, Kools H, de Groot PJ, Gavai AK, Basnet RK, Cheng F, Wu J, Wang X, Lommen A, Hooiveld GJ, Bonnema G, Visser RG, Muller M, Leunissen JA.
MADMAX - Management and analysis database for multiple ~omics experiments.
J Integr Bioinform. 2011;8(2):160.

Sander LE, Davis MJ, Boekschoten MV, Amsen D, Dascher CC, Ryffel B, Swanson JA, Müller M, Blander JM.
Detection of prokaryotic mRNA signifies microbial viability and promotes immunity.
Nature. 2011;474(7351):385-9.

de Wit NJ, Boekschoten MV, Bachmair EM, Hooiveld GJ, de Groot PJ, Rubio-Aliaga I, Daniel H, Müller M.
Dose-dependent effects of dietary fat on development of obesity in relation to intestinal differential gene expression in C57BL/6J mice.
PLoS One. 2011;6(4):e19145.

Rubio-Aliaga I, Roos B, Sailer M, McLoughlin GA, Boekschoten MV, van Erk M, Bachmair EM, van Schothorst EM, Keijer J, Coort SL, Evelo C, Gibney MJ, Daniel H, Müller M, Kleemann R, Brennan L.
Alterations in hepatic one-carbon metabolism and related pathways following a high-fat dietary intervention.
Physiol Genomics 2011;43(8):408-16.

de Wit NJ, Bosch-Vermeulen H, Oosterink E, Müller M, van der Meer R.
Supplementary dietary calcium stimulates faecal fat and bile acid excretion, but does not protect against obesity and insulin resistance in C57BL/6J mice.
Br J Nutr. 2011;105(7):1005-11.

Beraza N, Ofner-Ziegenfuss L, Ehedego H, Boekschoten M, Bischoff SC, Müller M, Trauner M, Trautwein C.
Nor-ursodeoxycholic acid reverses hepatocyte-specific nemo-dependent steatohepatitis.
Gut. 2011 60:387-96.


van Dijk SJ, Feskens EJM, Heidema AG, Bos MB, van de Rest O, Geleijnse JM, de Groot LCPGM, Müller M, Afman LA.
Plasma Protein Profiling Reveals Protein Clusters Related to BMI and Insulin Levels in Middle-Aged Overweight Subjects.
PLoS ONE 2010 5(12): e14422

Stienstra R, Joosten LA, Koenen T, van Tits B, van Diepen JA, van den Berg SA, Rensen PC, Voshol PJ, Fantuzzi G, Hijmans A, Kersten S, Müller M, van den Berg WB,
van Rooijen N, Wabitsch M, Kullberg BJ, van der Meer JW, Kanneganti T, Tack CJ, Netea MG.
The inflammasome-mediated caspase-1 activation controls adipocyte differentiation and insulin sensitivity.
Cell Metab. 2010;12:593-605.

Lichtenstein L, Mattijssen F, de Wit NJ, Georgiadi A, Hooiveld GJ, van der Meer R, He Y, Qi L, Köster A, Tamsma JT, Tan NS, Müller M, Kersten S.
Angptl4 Protects against Severe Proinflammatory Effects of Saturated Fat by Inhibiting
Fatty Acid Uptake into Mesenteric Lymph Node Macrophages.
Cell Metab. 2010;12:580-92.

Duval C, Thissen U, Keshtkar S, Accart B, Stienstra R, Boekschoten MV, Roskams T, Kersten S, Müller M.
Adipose tissue dysfunction signals progression of hepatic steatosis towards nonalcoholic steatohepatitis in C57BL/6 mice.
Diabetes. 2010;59:3181-91.

Vaes BL, Lute C, van der Woning SP, Piek E, Vermeer J, Blom HJ, Mathers JC, Müller M, de Groot LC, Steegenga WT
Inhibition of methylation decreases osteoblast differentiation via a non-DNA methylation dependent mechanism.
Bone. 2010;46:514-23

Stienstra R, Saudale F, Duval C, Keshtkar S, Groener JEM, van Rooijen N, Staels B, Kersten S, Müller M
Kupffer cells promote hepatic steatosis via IL-1β dependent suppression of PPARalpha activity.
Hepatology. 2010;51:511-22

Herrema H, Meissner M, van Dijk TH, Brufau G, Boverhof R, Oosterveer MH, Reijngoud DJ, Müller M, Stellaard F, Groen AK, Kuipers F.
Bile salt sequestration induces hepatic de novo lipogenesis via FXR and LXR-controlled metbaolic pathways in mice.
Hepatology 2010;51:806-16.

Lu Y, Feskens EJ, Boer JM, Müller M.
The potential influence of genetic variants in genes along bile acid and bile metabolic
pathway on blood cholesterol levels in the population.
Atherosclerosis. 2010;210:14-27

Bouwens M, Grootte Bromhaar M, Jansen J, Müller M, Afman LA.
Postprandial dietary lipid-specific effects on human peripheral blood mononuclear cell gene expression profiles.
Am J Clin Nutr. 2010;91:208-17

van der Meer DL, Degenhardt T, Väisänen S, de Groot PJ, Heinäniemi M, de Vries SC, Müller M, Carlberg C, Kersten S.
Profiling of promoter occupancy by PPARa in human hepatoma cells via ChIP-chip analysis.
Nucleic Acids Res. 2010;38:2839-50

Georgiadi A, Lichtenstein L, Degenhardt T, Boekschoten M, van Bilsen M, Desvergne B, Müller M, Kersten S.
Induction of Cardiac Angptl4 by Dietary Fatty Acids Is Mediated by PPAR b/d and Protects Against
Fatty Acid-Induced Oxidative Stress.
Circ Res. 2010;106:1712-21

Sanderson LM, Boekschoten MV, Desvergne B, Müller M, Kersten S.
Transcriptional profiling reveals divergent roles of PPARaalpha and PPARbeta/delta in regulation of gene expression in mouse liver.
Physiol Genomics. 2010;41:42-52

Lu Y, Feskens EJ, Dollé ME, Imholz S, Verschuren WM, Müller M, Boer JM
Dietary n-3 and n-6 polyunsaturated fatty acid intake interacts with FADS1 genetic variation to affect total and HDL cholesterol levels in the Doetinchem Cohort Study.
Am J Clin Nutr 2010;92:1–8

Sander LE, Sackett SD, Dierssen U, Beraza N, Linke RP, Müller M, Blander JM, Tacke F, Trautwein C.
Hepatic acute-phase proteins control innate immune responses during infection by
promoting myeloid-derived suppressor cell function.
J Exp Med. 2010;207:1453-64.

Caesar R, Manieri M, Kelder T, Boekschoten M, Evelo C, Müller M, Kooistra T, Cinti S, Kleemann R, Drevon CA.
A combined transcriptomics and lipidomics analysis of subcutaneous, epididymal and
mesenteric adipose tissue reveals marked functional differences.
PLoS One. 2010;5:e11525.

Martins dos Santos V, Müller M, de Vos WM.
Systems biology of the gut: the interplay of food, microbiota and host at the mucosal interface.
Curr Opin Biotechnol. 2010;21:539-50.

van Ommen B, Bouwman J, Dragsted LO, Drevon CA, Elliott R, de Groot P, Kaput J, Mathers JC, Müller M,
Pepping F, Saito J, Scalbert A, Radonjic M, Rocca-Serra P, Travis A, Wopereis S, Evelo CT.
Challenges of molecular nutrition research 6: the nutritional phenotype database to store,
share and evaluate nutritional systems biology studies.
Genes Nutr. 2010;5:189-203.

Rakhshandehroo M, Knoch B, Müller M, Kersten S.
Peroxisome proliferator-activated receptor alpha target genes.
PPAR Res. 2010;pii:612089.

Lu Y, Feskens EJ, Boer JM, Imholz S, Verschuren WM, Wijmenga C, Vaarhorst A, Slagboom E, Müller M, Dollé ME.
Exploring genetic determinants of plasma total cholesterol levels and their predictive value in a longitudinal study.
Atherosclerosis. 2010;213:200-5.

Bettermann K, Vucur M, Haybaeck J, Koppe C, Janssen J, Heymann F, Weber A, Weiskirchen R, Liedtke C, Gassler N, Müller M,
de Vos R, Wolf MJ, Boege Y, Seleznik GM, Zeller N, Erny D, Fuchs T, Zoller S, Cairo S, Buendia MA, Prinz M, Akira S, Tacke F, Heikenwalder M, Trautwein C, Luedde T.
TAK1 suppresses a NEMO-dependent but NF-kB-independent pathway to liver cancer
Cancer Cell
. 2010;17:481-496


Murphy EF, Hooiveld GJ, Müller M, Calogero RA, Cashman KD.
The effect of trans-10, cis-12 conjugated linoleic acid on gene expression profiles related to
lipid metabolism in human intestinal-like Caco-2 cells
Genes Nutr. 2009 Mar 13.

Giebeler A, Boekschoten MV, Klein C, Borowiak M, Birchmeier C, Gassler N, Wasmuth HE, Müller M, Trautwein C, Streetz KL.
c-Met confers protection against chronic liver tissue damage and fibrosis progression after bile-duct-ligation in mice
Gastroenterology. 2009; 137: 297-308

Vaes BL, Lute C, Blom HJ, Bravenboer N, de Vries TJ, Everts V, Dhonukshe-Rutten RA, Müller M, de Groot LC, Steegenga WT.
Vitamin B(12) Deficiency Stimulates Osteoclastogenesis via Increased Homocysteine and Methylmalonic Acid.
Calcif Tissue Int. 2009 Apr 12.

Kersten S, Lichtenstein L, Steenbergen E, Mudde K, Hendriks HF, Hesselink MK, Schrauwen P, Müller M.
Caloric Restriction and Exercise Increase Plasma ANGPTL4 Levels in Humans via Elevated Free Fatty Acids.
Arterioscler Thromb Vasc Biol. 2009;29:969-74

Bouwens M, van de Rest O, Dellschaft N, Bromhaar MG, de Groot LC, Geleijnse JM, Müller M, Afman LA.
Fish-oil supplementation induces antiinflammatory gene expression profiles in human blood mononuclear cells.
Am J Clin Nutr. 2009;90:415-24

Kersten S, Müller M.
Dropping liver fat droplets.
Hepatology 2009;50:645-7

Rakhshandehroo M, Hooiveld G, Müller M, Kersten S.
Comparative analysis of gene regulation by the transcription factor PPARa between mouse and human.
Plos ONE 2009;4:e6796.

Radonjic M, de Haan JR, van Erk MJ, van Dijk KW, van den Berg SAA, de Groot PJ, Müller M, van Ommen B
Genome-wide mRNA expression analysis of hepatic adaptation to high-fat diets reveals switch
from an inflammatory to steatotic transcriptional program.
PLoS One 2009;4:e6646

Biesalski HK, Dragsted LO, Elmadfa I, Grossklaus R, Müller M, Schrenk D, Walter P, Weber P.
Bioactive compounds: definition and assessment of activity.
Nutrition 2009;25:1202-5.

Biesalski HK, Dragsted LO, Elmadfa I, Grossklaus R, Müller M, Schrenk D, Walter P, Weber P.
Bioactive compounds: safety and efficacy.
Nutrition. 2009;25:1206-11.

Sanderson LM, Degenhardt T, Koppen A, Kalkhoven E, Desvergne B, Müller M, Kersten S.
Peroxisome proliferator-activated receptor beta/delta (PPARbeta/delta) but not PPARalpha serves as a plasma free fatty acid sensor in liver
Mol Cell Biol. 2009;29:6257-67.

van Dijk SJ, Feskens EFM, Bos MB, Hoelen DWM, Heijligenberg R, Grootte-Bromhaar M, de Vries JHM, Müller M, Afman LA.
A saturated fatty acid rich diet induces an ‘obese-linked pro-inflammatory gene expression profile’ in adipose tissue of subjects at risk for metabolic syndrome
Am J Clin Nutr. 2009;90:1656-64.

Cavalieri D, Calura E, Romualdi C, Marchi E, Radonjic M, Van Ommen B, Müller M.
Filling gaps in PPARa signaling through comparative nutrigenomics analysis.
BMC Genomics. 2009 Dec 11;10:596


de Wilde J, Mohren R, van den Berg S, Boekschoten M, Willems-Van Dijk K, De Groot P, Müller M, Mariman EC, Smit E        
Short-term high fat-feeding results in morphological and metabolic adaptations in the skeletal muscle of C57BL/6J mice.

Sanderson LM de Groot PJ, Hooiveld GJEJ, Koppen A, Kalkhoven E, Müller M, Kersten S
Effect of Synthetic Dietary Triglycerides: a Novel Research Paradigm for Nutrigenomics
Plos ONE 2008 Feb 27;3(2):e1681.

van den Bosch HM, De Wit NJ, Hooiveld GJ, Vermeulen H, van der Veen JN, Houten SM, Kuipers F, Müller M, van der Meer R.
A cholesterol free, high-fat diet suppresses gene expression of cholesterol transporters in murine small intestine.

de Wit NJ, Bosch-Vermeulen H, de Groot PJ, Hooiveld GJE, Grootte Bromhaar MM, Jansen J, Müller M, van der Meer R
The role of the small intestine in the development of dietary fat-induced obesity and insulin resistance in C57BL/6J mice
BMC Medical Genomics 2008, 1:14

de Vogel-van den Bosch HM, Bünger M, de Groot PJ, Bosch-Vermeulen H, Hooiveld GJ, Müller M
PPARalpha-mediated effects of dietary lipids on intestinal barrier gene expression.
BMC Genomics 2008, 9:231

Bouwens M, Afman LA, Müller M
Activation of peroxisome proliferator-activated receptor alpha in human PBMCs reveals an individual response
BMC Genomics. 2008 Jun 2;9(1):262.

Herrema H, Derks TGJ, van Dijk TH, Bloks VW, Gerding A, Havinga R, Tietge UJF, Müller M, Smit PA, Kuipers F, Reijngoud DJ
Disturbed Hepatic Carbohydrate Management During High Metabolic Demand in Medium-Chain Acyl-CoA Dehydrogenase (MCAD)-Deficient Mice
Hepatology 2008 Jun;47(6):1894-904

The NuGO proof of principle study package: a collaborative research effort of the European Nutrigenomics Organisation.
Baccini M, Bachmaier EM, Biggeri A, Boekschoten MV, Bouwman FG, Brennan L, Caesar R, Cinti S, Coort SL, Crosley K,
Daniel H, Drevon CA, Duthie S, Eijssen L, Elliott RM, van Erk M, Evelo C, Gibney M, Heim C, Horgan GW, Johnson IT,
Kelder T, Kleemann R, Kooistra T, van Iersel MP, Mariman EC, Mayer C, McLoughlin G, Müller M, Mulholland F,
van Ommen B, Polley AC, Pujos-Guillot E, Rubio-Aliaga I, Roche HM, de Roos B, Sailer M, Tonini G, Williams LM, de Wit N;
For the NuGO PPS Team.
Genes Nutr. 2008 Dec;3(3-4):147-151

NuGO contributions to GenePattern.
De Groot PJ, Reiff C, Mayer C, Müller M.
Genes Nutr. 2008 Dec;3(3-4):143-6

The challenges for molecular nutrition research 2: quantification of the nutritional phenotype.
van Ommen B, Keijer J, Kleemann R, Elliott R, Drevon CA, McArdle H, Gibney M, Müller M.
Genes Nutr. 2008 Jul;3(2):51-9


PPARgamma activation promotes infiltration of alternatively activated macrophages into adipose tissue
Stienstra R, Duval C, Keshtkar S, van der Laak J, Kersten S, Müller M.


Mandard S, Stienstra R, Escher P, Tan NS, Kim I, Gonzalez FJ, Wahli W, Desvergne B, Müller M, Kersten S
Glycogen synthase 2 is a novel target gene of peroxisome proliferator-activated receptors.
Cell Mol Life Sci. 2007 May;64(9):1145-57

Bunger M, van den Bosch HM, van der Meijde J, Kersten S, Hooiveld GJ, Müller M
Genome-wide analysis of PPAR{alpha} activation in murine small intestine
Physiol Genomics. 2007 Jul 18;30(2):192-204

Stienstra R, Mandard S, Patsouris D, Maass C, Kersten S, Müller M
PPAR{alpha} protects against obesity-induced hepatic inflammation
Endocrinology. 2007 Jun;148(6):2753-63

Busstra MC, Hartog R, Kersten S, Müller M
Design guidelines for the development of digital nutrigenomics learning material for heterogeneous target groups
Adv Physiol Educ. 2007 Mar;31(1):67-75.

Joost HG, Gibney MJ, Cashman KD, Gorman U, Hesketh JE, Müller M, van Ommen B, Williams CM, Mathers JC
Personalised nutrition: status and perspectives
Br J Nutr. 2007 Jul;98(1):26-31

Stienstra R, Duval C, Müller M, Kersten S
PPARs, Obesity, and Inflammation
PPAR Res. 2006 Nov 23;2007:95974

Stienstra R, Mandard S, Tan NS, Wahli W, Trautwein C, Richardson TA, Lichtenauer-Kaligis E, Kersten S, Müller M
The Interleukin-1 receptor antagonist is a direct target gene of PPARalpha in liver
J Hepatol. 2007 May;46(5):869-77

Ricketts ML, Boekschoten MV, Kreeft AJ, Hooiveld GJ, Moen CJ, Müller M,
Frants RR, Kasanmoentalib S, Post SM, Princen HM, Porter JG, Katan MB, Hofker MH, Moore DD
The Cholesterol-Raising Factor from Coffee Beans, Cafestol, as an Agonist Ligand for the Farnesoid and Pregnane X Receptors.
Mol Endocrinol. 2007 Jul;21(7):1603-16.

Duval C, Müller M, Kersten S
PPARalpha and dyslipidemia.
Biochim Biophys Acta. 2007 Aug;1771(8):961-71

Rakhshandehroo M, Sanderson LM, Matilainen M, Stienstra R, Carlberg C, de Groot PJ, Müller M, Kersten S.
Comprehensive analysis of PPARalpha-dependent regulation of hepatic lipid metabolism by expression profiling,
PPAR Research, vol. 2007, Article ID 26839, 13 pages

van den Bosch HM, Bunger M, de Groot PJ, van der Meijde J, Hooiveld GJEJ, Müller M.
Gene expression of transporters and phase I/II metabolic enzymes in murine small intestine during fasting
BMC Genomics 2007, 8:267

Bünger M, Hooiveld GJ, Kersten S, Müller M
Exploration of PPAR functions by microarray technology-A paradigm for nutrigenomics.
Biochim Biophys Acta. 2007 Aug;1771(8):1046-64.
Murphy EF, Hooiveld GJ, Müller M, Calogero RA, Cashman KD
Conjugated linoleic acid alters global gene expression in human intestinal-like Caco-2 cells in an isomer-specific manner.

Bouwens M, Afman LA, Müller M
Fasting induces changes in peripheral blood mononuclear cell gene expression profiles related to increases in fatty acid
{beta}-oxidation: functional role of peroxisome proliferator activated receptor {alpha} in human PBMCs.

Lichtenstein L, Berbée JF, van Dijk SJ, van Dijk KW, Bensadoun A, Kema IP, Voshol PJ, Müller M, Rensen PC, Kersten S
Angptl4 upregulates cholesterol synthesis in liver via inhibition of LPL- and HL-dependent hepatic cholesterol uptake.
Older publications (chronological)
Ishikawa T, Müller M, Klünemann C, Schaub T, Keppler D. 
ATP-dependent primary active transport of cysteinyl leukotrienes across liver canalicular membranes. 
J Biol. Chem. 265: 19279-19286, 1990
Müller M, Ishikawa T, Berger U, Klünemann C, Lucka L , Schreyer A, Kannicht C, Reutter W, Kurz G, Keppler D.
ATP-dependent transport of taurocholate across the hepatocyte canalicular membrane 
mediated by a 110-kDa glycoprotein binding ATP and bile salt. 
J Biol. Chem. 266: 18920-18926, 1991
Böhme M, Müller M, Leier I , Jedlitschky G , Keppler D. 
Cholestasis caused by inhibition of the adenosine triphosphate-dependent bile salt transport in rat liver.
Gastroenterology 107: 255-265, 1994
Müller M, Mayer R , Hero U, Keppler D.
ATP-dependent transport of amphiphilic cations across the hepatocyte canalicular membrane mediated by mdr1 p-glycoprotein. 
FEBS. Lett. 343: 168-172, 1994
Müller M, Meijer C, Zaman GJR, Borst P, Scheper R J, Mulder NH, de Vries EGE, Jansen PLM. 
Overexpression of the gene encoding the multidrug resistance-associated protein results in 
increased ATP-dependent glutathione S-conjugate transport.
Proc. Natl. Acad. Sci. USA. 91: 13033-13037, 1994
de Vries EGE, Müller M, Meijer C, Jansen PLM, Mulder NH. 
Role of the glutathione S-conjugate pump in cisplatin resistance. 
J Nat. Cancer Inst. 87: 537-538, 1995
Dijkstra M, In 't Veld G, Vandenberg GJ, Müller M, Kuipers F, Vonk RJ. 
Adenosine triphosphate-dependent copper transport in isolated rat liver plasma membranes. 
J Clin. Invest. 95: 412-416, 1995. 
Bossuyt X, Müller M, Hagenbuch B, Meier PJ. 
Polyspecific steroid and drug clearance by an organic anion transporter of mammalian liver.
J Pharmacol Exp Ther 276: 891-896, 1996.
Bossuyt X, Müller M, Meier PJ. 
Multispecific amphipathic substrate transport by an organic anion transporter of human liver. 
J Hepatol. 25:733-738, 1996. 
Müller M, de Vries EGE, Jansen PLM. 
Role of the multidrug resistance protein (MRP) in glutathione S-conjugate transport in mammalian cells.
 J Hepatol. 24: 100-108, 1996. 
Müller M, Roelofsen H, Jansen PLM. 
Secretion of organic anions by hepatocytes: Involvement of homologues of the Multidrug Resistance Protein. 
Sem. Liver Dis. 16: 211-220, 1996. 
Roelofsen H, TA Vos, IJ Schippers, F Kuipers, H Koning, H Moshage, PLM Jansen, M Müller. 
Increased levels of the multidrug resistance protein in lateral membranes of proliferating hepatocyte-derived cells. 
Gastroenterology 112:511-521, 1997. 
Asschert J, de Vries E, van der Kolk D, Müller M, Vellenga E. 
The combined effects of IL-3 and PSC 833 on daunorubicin- and mitoxantrone cytotoxicity in 
two growth factor-dependent leukemic cell lines.
Leukemia 11:680-686, 1997
Müller M, Jansen PLM
Molecular aspects of hepatobiliary transport. 
Am J Physiol 272:G1285-G1303, 1997
Meijer DKF, Smit JW, Müller M. 
Hepatobiliary elimination of cationic drugs: the role of P-glycoproteins and other ATP-dependent transporters. 
Adv Drug Delivery Rev 25:159-200, 1997
Koopen NR, Wolters H, Müller M, Schippers IJ, Havinga R, Roelofsen H, Vonk R, Stieger B, Meier PJ, Kuipers F.
Hepatic bile salt flux does not modulate level and activity of the sinusoidal Na+-taurocholate cotransporter (ntcp) in rats.
J Hepatol 1997; 27:699-706
Bakker M, Renes J, Groenhuijzen A, Visser P, Timmer-Bosscha H, Müller M, Groen HJ, Smit EF, de Vries EG. 
Mechanisms for high methoxymorpholino doxorubicin cytotoxicity in doxorubicin-resistant tumor cell lines. 
Int J Cancer 1997;73:362-366 
Schippers IJ, Moshage H, Roelofsen H, Müller M, Heymans HS, Ruiters M, Kuipers F. 
Immortalized human hepatocytes as a tool for the study of hepatocytic (de-)differentiation. 
Cell Biol Toxicol 1997; 13:375-386 
Koopen NR, Wolters H, Havinga R, Vonk RJ, Jansen PLM, Müller M, Kuipers F. 
Impaired activity of the bile canalicular organic anion transporter (mrp2/cmoat) is not the main 
cause of ethinylestradiol-induced cholestasis in the rat. 
Hepatology 1998; 27: 537-545
Müller M, Jansen PLM. 
The secretory function of the liver: New insights in hepatobiliary transport.
J Hepatol 1998; 28:344-354
Smit JW, Schinkel AH, Müller M, Weert B, Meijer DKF. 
Contribution of the murine mdr1a P-glycoprotein to hepatobiliary and intestinal elimination of cationic 
drugs as measured in mice with an mdr1a gene disruption. 
Hepatology 1998;27:1056-1063 
van Lyun M, Müller M, Renes J, Meijer C, Scheper RJ, Nienhuis EF, Mulder NH, Jansen PLM, de Vries EGE. 
Transport of glutathione conjugates into secretory vesicles is mediated by the multidrug-resistance protein 1. 
Int J Cancer. 1998; 76: 55-62
Jansen PLM, Müller M. 
Progressive familial intrahepatic cholestasis types 1, 2, and 3. 
Gut 1998; 42: 766-767
van der Kolk DM., de Vries EGE, Koning HJ, van den Berg E, Müller M, Vellenga E. 
Activity and expression of the multidrug resistance proteins MRP1 and MRP2 in acute myleoid leukemia cells, tumor cell lines, 
and nomal hematopoietic CD34+ peripheral blood cells.
Clin.Canc.Res. 1998; 4:1727-1736
Koopen, NR, Müller M, Vonk, RJ, Zimniak P, Kuipers F. 
Molecular mechanisms of cholestasis: causes and consequences of impaired bile formation.
Biochim. Biophys. Acta. 1998; 1408, 1-17
Vos TA, Hooiveld GJEJ, Koning H, Childs S, Meijer DKF, Moshage H, Jansen PLM, Müller M. 
Up-regulation of the multidrug resistance genes, mrp1 and mdr1b, and down-regulation of the organic anion transporter, 
mrp2, and the bile salt transporter, spgp, in endotoxemic rat liver. 
Hepatology 1998 Dec;28(6):1637-1644
Jansen PLM, Müller M. 
Early events in sepsis-associated cholestasis.
Gastroenterology 1999;116:486-488
Renes J, de Vries EGE, Nienhuis, EF, Jansen, PLM, Müller M. 
ATP- and glutathione dependent transport of chemotherapeutic drugs by the multidrug resistance protein MRP1. 
Brit. J. Pharmacol. 1999; 126:681-688
Vellenga E, Tuyt L, Wierenga B-J, Koopmans S, Müller M, Dokter W. 
Interleukin-6 production by activated human monocytic cells is enhanced by the leukotriene D4 receptor antagonist MK-571. 
Brit. J. Pharmacol. 1999; 127:441- 448
Roelofsen H, Hooiveld GJEJ, Koning H, Havinga R, Jansen PLM, Müller M. 
Glutathione S-conjugate transport in hepatocytes entering the cell cycle is preserved by a switch in expression from the apical 
MRP2 to the basolateral MRP1 transporting protein.
J. Cell Science 1999;112: 1395-1404
Vos TA, Ros J, Havinga R, Moshage H, Kuipers F, Jansen PLM, Müller M. 
Regulation of hepatic transport systems involved in bile secretion during liver regeneration in rats. 
Hepatology 1999;29:1833-1839 
Meerman L, Koopen NR, Bloks V, van Goor H, Havinga R, Wolthers BG, Kramer W, Stengelin S, Müller M, Kuipers F, Jansen PLM. 
Biliary fibrosis associated with altered bile composition in a mouse model of erythropoetic protoporphyria.
Gastroenterology 1999;117:696-705
Hooiveld GJEJ, Vos TA, Scheffer GL, van Goor H, Koning HJ, Bloks V, Loot AE, Meijer DKF, Jansen PLM, Kuipers F, Müller M. 
3-Hydroxy-3-methylglutaryl-coenzyme A reductase inhibitors (statins) induce hepatic expression 
of the phospholipid translocase mdr2 P-glycoprotein in rats.
Gastroenterology 1999;117:678-687
von Montfoort JE, Hagenbuch B, Fattinger K, Müller M, Groothuis GMM, Meijer DKF, Meier PJ. 
Polyspecific organic anion transporting polypeptides mediate hepatic uptake of amphipathic type II organic cations. 
J Pharmacol Exp Ther 1999; 291:147-152
van der Kolk DM, Vellenga E, Müller M, de Vries EG. 
Multidrug resistance protein MRP1, glutathione, and related enzymes. Their importance in acute myeloid leukemia. 
Adv Exp Med Biol 1999;457:187-98
Meijer DK, Smit JW, Hooiveld GJ, van Montfoort JE, Jansen PL, Müller M. 
The molecular basis for hepatobiliary transport of organic cations and organic anions. 
Pharm Biotechnol 1999;12:89-157
Mills CO, Milkiewicz P, Müller M, Roma MG, Havinga R, Coleman R, Kuipers F, Jansen PLM, Elias E. 
Different pathways of canalicular secretion of sulfated and non-sulfated fluorescent bile acids: 
a study in isolated hepatocyte couplets and TR- rats. 
J Hepatol. 1999; 31:678-684
Schaefer M, Roelofsen H, Wolters H, Hofmann WJ, Müller M, Kuipers F, Stremmel W, Vonk RJ. 
Localization of the Wilson's Disease protein in human liver
Gastroenterology 1999 117:1380-1385
Jansen PLM, Strautnieks SS, Jacquemin E, Hadchouel M, Sokal EM, Hooiveld GJEJ, Koning JH, de Jager-Krikken A, 
Kuipers F, Stellaard F, Bijleveld CMA, Gouw ASH, van Goor H, Thompson RJ, Müller M. 
Hepatocanalicular bile salt export pump deficiency in patients with progressive familial intrahepatic cholestasis. 
Gastroenterology 1999; 117:1370-1379
Jansen PLM, Müller M. 
Genetic cholestasis: Lessons from the molecular physiology of bile formation. 
Can J Gastroenterol 2000; 14(3):233-238
van der Kolk DM, Vellenga E, Van der Veen AY, Noordhoek L, Timmer-Bosscha H, Ossenkoppele GJ, Raymakers RA, Müller M, 
van den Berg E, de Vries EGE.
Deletion of the multidrug resistance protein MRP1 gene in acute myeloid leukemia: the impact on MRP activity.
Blood 2000; 95 (11): 3514-3519
van Veen HW, Margolles A, Müller M, Higgins CF, Konings WN. 
The homodimeric ATP-binding cassette transporter LmrA mediates multidrug transport by 
an alternating two-site (two-cylinder engine) mechanism. 
EMBO J. 2000; 19:2503-2514
Kok JW, Veldman RJ, Klappe K, Filipeanu CM, Müller M. 
Differential expression of sphingolipids in MRP1 overexpressing HT29 cells.
Int.J.Cancer. 2000; 87, 172-178
Jansen PLM, Müller M. 
The molecular genetics of familial intrahepatic cholestasis. 
Gut 2000; 47: 1-5
Gupta S, Stravitz RT, Pandak WM, Müller M, Vlahcevic ZR, Hylemon PB. 
Regulation of multidrug resistance 2 P-glycoprotein expression by bile salts in rats and in primary cultures of rat hepatocytes. 
Hepatology 2000; 32:341-347
Renes J, de Vries EGE, Hooiveld GJEJ, Krikken I, Jansen PLM, Müller M. 
The multidrug resistance protein MRP1 protects against the toxicity of the major lipid peroxidation product 4-hydroxynonenal. 
Biochem. J. 2000; 350: 555-561
Müller M. 
The transcriptional control of hepatocanalicular transporter gene expression. 
Sem.Liver Dis. 2000; 20: 323-335
Hooiveld GJEJ, van Montfoort JE, Meijer DKF, Müller M. 
Function and regulation of ATP-binding cassette transport proteins involved in hepatobiliary transport.
Eur.J.Pharm.Sci. 2000; 12:13-30    Erratum
Renes J, de Vries EGE, Jansen PLM, Müller M. 
The (patho)physiological functions of the MRP family. 
Drug Resistance Updates 2000; 3:289-302
Van Den Heuvel MC, Sloof MJH, Visser L, Müller M, De Jong KP, Poppema S, Gouw ASH. 
Expression of anti-OV6 antibody and anti-N-CAM antibody along the biliary line of normal and diseased human livers. 
Hepatology. 2001;33:1387-93
Ros JE, Schuetz JD, Geuken M, Streetz K, Moshage H, Kuipers F, Manns MP, Jansen PLM, Trautwein C, Müller M. 
Induction of Mdr1b Expression by Tumor Necrosis Factor-a in Rat Liver Cells is Independent of p53 but Requires NF-kB Signaling. 
Hepatology. 2001;33:1425-31
van Montfoort JE, Müller M, Groothuis GM, Meijer DK, Koepsell H, Meier PJ. 
Comparison of "Type I" and "Type II" organic cation transport by organic cation transporters (OCTs) 
and organic anion transporting polypeptides (OATPs). 
J Pharmacol Exp Ther. 2001;298:110-115
van der Kolk DM, de Vries EG, Noordhoek L, van den Berg E, van der Pol MA, Müller M, Vellenga E. 
Activity and expression of the multidrug resistance proteins P-glycoprotein, MRP1, MRP2, MRP3 
and MRP5 in de novo and relapsed acute myeloid leukemia. 
Leukemia 2001;15:1544-53
Jansen PLM, Müller M, Sturm E. 
Genes and cholestasis. 
Hepatology. 2001;34:1067-74
Plass JRM, Mol O, Heegsma J, Geuken M, Faber KN, Jansen PLM, Müller M. 
Farnesoid X receptor and bile salts are involved in transcriptional regulation of the gene encoding the human bile salt export pump. 
Hepatology 2002;35:589-96
Van der Kolk DM, Vellenga E, Scheffer GL, Müller M, Bates SE, Scheper RJ, de Vries EGE. 
Expression and activity of breast cancer resistance proetin (BCRP) in de novo and relapsed acute myeloid leukemia. 
Blood. 2002;99:3763-3770
Scheffer GL, Pijnenborg AC, Smit EF, Müller M, Postma DS, Timens W, Van Der Valk P, De Vries EG, Scheper RJ. 
Multidrug resistance related molecules in human and murine lung.
J Clin Pathol. 2002;55:332-339
Van der Kolk DM, de Vries EGE, Müller M, Vellenga E. 
The role of drug efflux pumps in acute myeloid leukemia. 
Leukemia and Lymphoma 2002; 43:685-701
W. M. van Waarde, H. J. Verkade, H. Wolters, R. Havinga, J. Baller, V. Bloks, M. Müller, P. J. J. Sauer, F. Kuipers. 
Differential effects of streptozotocin-induced diabetes on expression of hepatic ABC-transporters in rats. 
Gastroenterology 2002;122:1842-52
Hooiveld GJEJ, Heegsma J, van Montfoort JE, Jansen PLM, Meijer DKF, Müller M. 
Stereoselective transport of hydrophilic quaternary drugs by human MDR1 and rat Mdr1b P-glycoproteins. 
Brit J Pharmacology 2002;135:1685-1694
Cool RH, Veenstra MK, Van Klompenburg W, Heyne RI, Müller M, De Vries EG, Van Veen HW, Konings WN. 
S-Decyl-glutathione nonspecifically stimulates the ATPase activity of the nucleotide-binding domains of the 
human multidrug resistance-associated protein, MRP1 (ABCC1).
Eur J Biochem. 2002;269:3470-3478
Faber KN, Müller M, Jansen PLM. 
Drug transport proteins in the liver. 
Adv Drug Deliv Rev 2003;55:107-24
Ros JE, Roskams TAD, Geuken M, Havinga R, Splinter PL, Petersen BE, LaRusso NF, Kuipers F, Faber KN, Müller M, Jansen PLM.
ATP binding cassette transporter gene expression in rat liver progenitor cells.
Gut 2003;52;7:1060-1067
Müller M,  Kersten S.
Nutrigenomics: Goals and Perspectives.
Nature Reviews Genetics 2003;4:315 -322
Plass JR, Mol O, Heegsma J, Geuken M, de Bruin J, Elling G, Müller M, Faber KN, Jansen PL.
A progressive familial intrahepatic cholestasis type 2 mutation causes an unstable, temperature-sensitive bile salt export pump.
J Hepatol. 2004;40:24-30
Mandard S, Müller M, Kersten S.
Peroxisome proliferator-activated receptor a target genes.
CMLS, Cell. Mol. Life Sci. 2004;61:393-416
Stienstra  R, Lichtenauer-Kaligis E, Müller M.
Stress- (and diet-) related regulation of hepatic nuclear receptors and its relevance for ABC-transporter functions
Drug Metabolism Reviews 2004:36:391-406
Patsouris D, Mandard S, Voshol PJ, Escher P, Tan NS, Havekes LM, Koenig W, Marz W, Tafuri S, Wahli W, Müller M, Kersten S.
PPARalpha governs glycerol metabolism
J Clin Invest. 2004 Jul;114(1):94-103
Mandard S, Zandbergen F, Tan NS, Escher P, Patsouris D, Koenig W, Kleemann R, Bakker A, 
Veenman F, Wahli W, Müller M, Kersten S. 
The direct PPAR target FIAF/PGAR/ANGPTL4 is present in blood plasma as a truncated protein 
that is increased by fenofibrate treatment.
J Biol Chem. 2004;279(33):34411-20
Patsouris D, Müller M, Kersten S.  
Peroxisome proliferator activated receptor ligands for the treatment of insulin resistance. 
Curr Opin Investig Drugs. 2004;5(10):1045-50
Klein C, Wüstefeld T, Assmus U, Roskams T, Rose-John S, Müller M, Manns MP, Ernst E, Trautwein C 
The IL-6-gp130-STAT3 pathway in hepatocytes triggers liver protection in T cell-mediated liver injury.
J. Clin. Invest. 115:860-869 (2005)
Zandbergen F, Mandard S, Escher P, Tan NS, Patsouris D, Jatkoe T, Rojas-Caro S, Madore S, 
Wahli W, Tafuri S, Müller M, Kersten S. 
The G0/G1 switch gene 2 is a novel PPAR target gene.
Biochem J. 2005;392:313-24.
Corthesy-Theulaz I, den Dunnen JT, Ferre P, Geurts JM, Müller M, van Belzen N, van Ommen B. 
Nutrigenomics: The Impact of Biomics Technology on Nutrition Research.
Ann Nutr Metab. 2005;49:355-365 
Kaput J, Ordovas JM, Ferguson L, van Ommen B, Rodriguez RL, Allen L, Ames BN, Dawson K, German B, Krauss R, Malyj W, 
Archer MC, Barnes S, Bartholomew A, Birk R, van Bladeren P, Bradford KJ, Brown KH, Caetano R, Castle D, Chadwick R, 
Clarke S, Clement K, Cooney CA, Corella D, Manica da Cruz IB, Daniel H, Duster T, E Ebbesson SO, Elliott R, 
Fairweather-Tait S, Felton J, Fenech M, Finley JW, Fogg-Johnson N, Gill-Garrison R, Gibney MJ, Gillies PJ, Gustafsson JA, 
Hartman Iv JL, He L, Hwang JK, Jais JP, Jang Y, Joost H, Junien C, Kanter M, Kibbe WA, Koletzko B, Korf BR, Kornman K, 
Krempin DW, Langin D, Lauren DR, Ho Lee J, Leveille GA, Lin SJ, Mathers J, Mayne M, McNabb W, Milner JA, Morgan P, 
Müller M, Nikolsky Y, van der Ouderaa F, Park T, Pensel N, Perez-Jimenez F, Poutanen K, Roberts M, Saris WH, 
Schuster G, Shelling AN, Simopoulos AP, Southon S, Tai ES, Towne B, Trayhurn P, Uauy R, Visek WJ, Warden C, 
Weiss R, Wiencke J, Winkler J, Wolff GL, Zhao-Wilson X, Zucker JD. 
The case for strategic international alliances to harness nutritional genomics for public and personal healthdagger. 
Br J Nutr. 2005;94:623-632.
Mandard S, Zandbergen F, van Straten E, Wahli W, Kuipers F, Müller M, Kersten S. 
The fasting-induced adipose factor/angiopoietin-like protein 4 is physically associated with lipoproteins 
and governs plasma lipid levels and adiposity.
J Biol Chem. 2006 Jan 13;281(2):934-44 
Patsouris D, Reddy JK, Müller M, Kersten S. 
PPAR{alpha} mediates the effects of high fat diet on hepatic gene expression.
Endocrinology. 2006 Mar;147:1508-16
Afman L, Müller M. 
Nutrigenomics: from molecular nutrition to prevention of disease.
J Am Diet Assoc. 2006;106:569-76
Murphy EF, Jewell C, Hooiveld GJ, Müller M, Cashman KD. 
Conjugated linoleic acid enhances transepithelial calcium transport in human intestinal-like Caco-2 cells: 
an insight into molecular changes.
Prostaglandins Leukot Essent Fatty Acids. 2006;74:295-301
Krapels IP, Vermeij-Keers C, Müller M, de Klein A, Steegers-Theunissen RP. 
Nutrition and genes in the development of orofacial clefting.
Nutr Rev. 2006;64:280-8

Book chapter
Afman L and Müller M
Transcriptomics applications in human nutrigenomics studies
pp 15-20; In “Design of human nutrigenomics studies” edited by: Siân Astley and Linda Penn 2009, 104 pages
Wageningen Academic Publishers ISBN: 978-90-8686-094-4