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1.

Epithelial Nlrp10 inflammasome mediates protection against intestinal autoinflammation.

Zheng, Danping; Mohapatra, Gayatree; Kern, Lara; He, Yiming; Shmueli, Merav D; Valdés-Mas, Rafael; Kolodziejczyk, Aleksandra A; Próchnicki, Tomasz; Vasconcelos, Matilde B; Schorr, Lena; Hertel, Franziska; Lee, Ye Seul; Rufino, Miguel Camacho; Ceddaha, Emmanuelle; Shimshy, Sandy; Hodgetts, Ryan James; Dori-Bachash, Mally; Kleimeyer, Christian; Goldenberg, Kim; Heinemann, Melina; Stettner, Noa; Harmelin, Alon; Shapiro, Hagit; Puschhof, Jens; Chen, Minhu; Flavell, Richard A; Latz, Eicke; Merbl, Yifat; Abdeen, Suhaib K; Elinav, Eran.

Nat Immunol ; 24(4): 585-594, 2023 04.

Article in English | MEDLINE | ID: mdl-36941399

2.

High-Resolution mRNA and Secretome Atlas of Human Enteroendocrine Cells.

Beumer, Joep; Puschhof, Jens; Bauzá-Martinez, Julia; Martínez-Silgado, Adriana; Elmentaite, Rasa; James, Kylie R; Ross, Alexander; Hendriks, Delilah; Artegiani, Benedetta; Busslinger, Georg A; Ponsioen, Bas; Andersson-Rolf, Amanda; Saftien, Aurelia; Boot, Charelle; Kretzschmar, Kai; Geurts, Maarten H; Bar-Ephraim, Yotam E; Pleguezuelos-Manzano, Cayetano; Post, Yorick; Begthel, Harry; van der Linden, Franka; Lopez-Iglesias, Carmen; van de Wetering, Willine J; van der Linden, Reinier; Peters, Peter J; Heck, Albert J R; Goedhart, Joachim; Snippert, Hugo; Zilbauer, Matthias; Teichmann, Sarah A; Wu, Wei; Clevers, Hans.

Cell ; 181(6): 1291-1306.e19, 2020 06 11.

Article in English | MEDLINE | ID: mdl-32407674

3.

Snake Venom Gland Organoids.

Post, Yorick; Puschhof, Jens; Beumer, Joep; Kerkkamp, Harald M; de Bakker, Merijn A G; Slagboom, Julien; de Barbanson, Buys; Wevers, Nienke R; Spijkers, Xandor M; Olivier, Thomas; Kazandjian, Taline D; Ainsworth, Stuart; Iglesias, Carmen Lopez; van de Wetering, Willine J; Heinz, Maria C; van Ineveld, Ravian L; van Kleef, Regina G D M; Begthel, Harry; Korving, Jeroen; Bar-Ephraim, Yotam E; Getreuer, Walter; Rios, Anne C; Westerink, Remco H S; Snippert, Hugo J G; van Oudenaarden, Alexander; Peters, Peter J; Vonk, Freek J; Kool, Jeroen; Richardson, Michael K; Casewell, Nicholas R; Clevers, Hans.

Cell ; 180(2): 233-247.e21, 2020 01 23.

Article in English | MEDLINE | ID: mdl-31978343

4.

High-Resolution mRNA and Secretome Atlas of Human Enteroendocrine Cells.

Beumer, Joep; Puschhof, Jens; Bauzá-Martinez, Julia; Martínez-Silgado, Adriana; Elmentaite, Rasa; James, Kylie R; Ross, Alexander; Hendriks, Delilah; Artegiani, Benedetta; Busslinger, Georg A; Ponsioen, Bas; Andersson-Rolf, Amanda; Saftien, Aurelia; Boot, Charelle; Kretzschmar, Kai; Geurts, Maarten H; Bar-Ephraim, Yotam E; Pleguezuelos-Manzano, Cayetano; Post, Yorick; Begthel, Harry; van der Linden, Franka; Lopez-Iglesias, Carmen; van de Wetering, Willine J; van der Linden, Reinier; Peters, Peter J; Heck, Albert J R; Goedhart, Joachim; Snippert, Hugo; Zilbauer, Matthias; Teichmann, Sarah A; Wu, Wei; Clevers, Hans.

Cell ; 182(4): 1062-1064, 2020 Aug 20.

Article in English | MEDLINE | ID: mdl-32822568

5.

Lung dendritic-cell metabolism underlies susceptibility to viral infection in diabetes.

Nobs, Samuel Philip; Kolodziejczyk, Aleksandra A; Adler, Lital; Horesh, Nir; Botscharnikow, Christine; Herzog, Ella; Mohapatra, Gayatree; Hejndorf, Sophia; Hodgetts, Ryan-James; Spivak, Igor; Schorr, Lena; Fluhr, Leviel; Kviatcovsky, Denise; Zacharia, Anish; Njuki, Suzanne; Barasch, Dinorah; Stettner, Noa; Dori-Bachash, Mally; Harmelin, Alon; Brandis, Alexander; Mehlman, Tevie; Erez, Ayelet; He, Yiming; Ferrini, Sara; Puschhof, Jens; Shapiro, Hagit; Kopf, Manfred; Moussaieff, Arieh; Abdeen, Suhaib K; Elinav, Eran.

Nature ; 624(7992): 645-652, 2023 Dec.

Article in English | MEDLINE | ID: mdl-38093014

6.

Human microbiome research: Growing pains and future promises.

Puschhof, Jens; Elinav, Eran.

PLoS Biol ; 21(3): e3002053, 2023 03.

Article in English | MEDLINE | ID: mdl-36930679

7.

Mutational signature in colorectal cancer caused by genotoxic pks⁺ E. coli.

Pleguezuelos-Manzano, Cayetano; Puschhof, Jens; Rosendahl Huber, Axel; van Hoeck, Arne; Wood, Henry M; Nomburg, Jason; Gurjao, Carino; Manders, Freek; Dalmasso, Guillaume; Stege, Paul B; Paganelli, Fernanda L; Geurts, Maarten H; Beumer, Joep; Mizutani, Tomohiro; Miao, Yi; van der Linden, Reinier; van der Elst, Stefan; Garcia, K Christopher; Top, Janetta; Willems, Rob J L; Giannakis, Marios; Bonnet, Richard; Quirke, Phil; Meyerson, Matthew; Cuppen, Edwin; van Boxtel, Ruben; Clevers, Hans.

Nature ; 580(7802): 269-273, 2020 04.

Article in English | MEDLINE | ID: mdl-32106218

8.

Fungi and cancer.

Saftien, Aurelia; Puschhof, Jens; Elinav, Eran.

Gut ; 72(7): 1410-1425, 2023 07.

Article in English | MEDLINE | ID: mdl-37147013

9.

Long-term expansion and differentiation of adult murine epidermal stem cells in 3D organoid cultures.

Boonekamp, Kim E; Kretzschmar, Kai; Wiener, Dominique J; Asra, Priyanca; Derakhshan, Sepideh; Puschhof, Jens; López-Iglesias, Carmen; Peters, Peter J; Basak, Onur; Clevers, Hans.

Proc Natl Acad Sci U S A ; 116(29): 14630-14638, 2019 07 16.

Article in English | MEDLINE | ID: mdl-31253707

10.

A bacterial mutational footprint in colorectal cancer genomes.

Rosendahl Huber, Axel; Pleguezuelos-Manzano, Cayetano; Puschhof, Jens.

Br J Cancer ; 124(11): 1751-1753, 2021 05.

Article in English | MEDLINE | ID: mdl-33742142

11.

Improved detection of colibactin-induced mutations by genotoxic E. coli in organoids and colorectal cancer.

Rosendahl Huber, Axel; Pleguezuelos-Manzano, Cayetano; Puschhof, Jens; Ubels, Joske; Boot, Charelle; Saftien, Aurelia; Verheul, Mark; Trabut, Laurianne T; Groenen, Niels; van Roosmalen, Markus; Ouyang, Kyanna S; Wood, Henry; Quirke, Phil; Meijer, Gerrit; Cuppen, Edwin; Clevers, Hans; van Boxtel, Ruben.

Cancer Cell ; 42(3): 487-496.e6, 2024 Mar 11.

Article in English | MEDLINE | ID: mdl-38471458

12.

Intracellular bacteria in cancer-prospects and debates.

Schorr, Lena; Mathies, Marius; Elinav, Eran; Puschhof, Jens.

NPJ Biofilms Microbiomes ; 9(1): 76, 2023 10 09.

Article in English | MEDLINE | ID: mdl-37813921

13.

The microbial genotoxin colibactin exacerbates mismatch repair mutations in colorectal tumors.

Dougherty, Michael W; Valdés-Mas, Rafael; Wernke, Kevin M; Gharaibeh, Raad Z; Yang, Ye; Brant, Jason O; Riva, Alberto; Muehlbauer, Marcus; Elinav, Eran; Puschhof, Jens; Herzon, Seth B; Jobin, Christian.

Neoplasia ; 43: 100918, 2023 09.

Article in English | MEDLINE | ID: mdl-37499275

14.

Development of Plasmodium falciparum liver-stages in hepatocytes derived from human fetal liver organoid cultures.

Yang, Annie S P; Dutta, Devanjali; Kretzschmar, Kai; Hendriks, Delilah; Puschhof, Jens; Hu, Huili; Boonekamp, Kim E; van Waardenburg, Youri; Chuva de Sousa Lopes, Susana M; van Gemert, Geert-Jan; de Wilt, Johannes H W; Bousema, Teun; Clevers, Hans; Sauerwein, Robert W.

Nat Commun ; 14(1): 4631, 2023 08 02.

Article in English | MEDLINE | ID: mdl-37532704

15.

Uncovering the mode of action of engineered T cells in patient cancer organoids.

Dekkers, Johanna F; Alieva, Maria; Cleven, Astrid; Keramati, Farid; Wezenaar, Amber K L; van Vliet, Esmée J; Puschhof, Jens; Brazda, Peter; Johanna, Inez; Meringa, Angelo D; Rebel, Heggert G; Buchholz, Maj-Britt; Barrera Román, Mario; Zeeman, Amber L; de Blank, Sam; Fasci, Domenico; Geurts, Maarten H; Cornel, Annelisa M; Driehuis, Else; Millen, Rosemary; Straetemans, Trudy; Nicolasen, Mara J T; Aarts-Riemens, Tineke; Ariese, Hendrikus C R; Johnson, Hannah R; van Ineveld, Ravian L; Karaiskaki, Froso; Kopper, Oded; Bar-Ephraim, Yotam E; Kretzschmar, Kai; Eggermont, Alexander M M; Nierkens, Stefan; Wehrens, Ellen J; Stunnenberg, Henk G; Clevers, Hans; Kuball, Jürgen; Sebestyen, Zsolt; Rios, Anne C.

Nat Biotechnol ; 41(1): 60-69, 2023 01.

Article in English | MEDLINE | ID: mdl-35879361

16.

Microbial metabolites damage DNA.

Puschhof, Jens; Sears, Cynthia L.

Science ; 378(6618): 358-359, 2022 10 28.

Article in English | MEDLINE | ID: mdl-36302018

17.

Colon Tumors in Enterotoxigenic Bacteroides fragilis (ETBF)-Colonized Mice Do Not Display a Unique Mutational Signature but Instead Possess Host-Dependent Alterations in the APC Gene.

Allen, Jawara; Rosendahl Huber, Axel; Pleguezuelos-Manzano, Cayetano; Puschhof, Jens; Wu, Shaoguang; Wu, Xinqun; Boot, Charelle; Saftien, Aurelia; O'Hagan, Heather M; Wang, Hao; van Boxtel, Ruben; Clevers, Hans; Sears, Cynthia L.

Microbiol Spectr ; 10(3): e0105522, 2022 06 29.

Article in English | MEDLINE | ID: mdl-35587635

18.

BMP gradient along the intestinal villus axis controls zonated enterocyte and goblet cell states.

Beumer, Joep; Puschhof, Jens; Yengej, Fjodor Yousef; Zhao, Lianzheng; Martinez-Silgado, Adriana; Blotenburg, Marloes; Begthel, Harry; Boot, Charelle; van Oudenaarden, Alexander; Chen, Ye-Guang; Clevers, Hans.

Cell Rep ; 38(9): 110438, 2022 03 01.

Article in English | MEDLINE | ID: mdl-35235783

19.

Differentiation and CRISPR-Cas9-mediated genetic engineering of human intestinal organoids.

Martinez-Silgado, Adriana; Yousef Yengej, Fjodor A; Puschhof, Jens; Geurts, Veerle; Boot, Charelle; Geurts, Maarten H; Rookmaaker, Maarten B; Verhaar, Marianne C; Beumer, Joep; Clevers, Hans.

STAR Protoc ; 3(3): 101639, 2022 09 16.

Article in English | MEDLINE | ID: mdl-36042877

20.

Rapid tissue prototyping with micro-organospheres.

Wang, Zhaohui; Boretto, Matteo; Millen, Rosemary; Natesh, Naveen; Reckzeh, Elena S; Hsu, Carolyn; Negrete, Marcos; Yao, Haipei; Quayle, William; Heaton, Brook E; Harding, Alfred T; Bose, Shree; Driehuis, Else; Beumer, Joep; Rivera, Grecia O; van Ineveld, Ravian L; Gex, Donald; DeVilla, Jessica; Wang, Daisong; Puschhof, Jens; Geurts, Maarten H; Yeung, Athena; Hamele, Cait; Smith, Amber; Bankaitis, Eric; Xiang, Kun; Ding, Shengli; Nelson, Daniel; Delubac, Daniel; Rios, Anne; Abi-Hachem, Ralph; Jang, David; Goldstein, Bradley J; Glass, Carolyn; Heaton, Nicholas S; Hsu, David; Clevers, Hans; Shen, Xiling.

Stem Cell Reports ; 17(9): 1959-1975, 2022 09 13.

Article in English | MEDLINE | ID: mdl-35985334

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Epithelial Nlrp10 inflammasome mediates protection against intestinal autoinflammation.

High-Resolution mRNA and Secretome Atlas of Human Enteroendocrine Cells.

Snake Venom Gland Organoids.

High-Resolution mRNA and Secretome Atlas of Human Enteroendocrine Cells.

Lung dendritic-cell metabolism underlies susceptibility to viral infection in diabetes.

Human microbiome research: Growing pains and future promises.

Mutational signature in colorectal cancer caused by genotoxic pks⁺ E. coli.

Fungi and cancer.

Long-term expansion and differentiation of adult murine epidermal stem cells in 3D organoid cultures.

A bacterial mutational footprint in colorectal cancer genomes.

Improved detection of colibactin-induced mutations by genotoxic E. coli in organoids and colorectal cancer.

Intracellular bacteria in cancer-prospects and debates.

The microbial genotoxin colibactin exacerbates mismatch repair mutations in colorectal tumors.

Development of Plasmodium falciparum liver-stages in hepatocytes derived from human fetal liver organoid cultures.

Uncovering the mode of action of engineered T cells in patient cancer organoids.

Microbial metabolites damage DNA.

Colon Tumors in Enterotoxigenic Bacteroides fragilis (ETBF)-Colonized Mice Do Not Display a Unique Mutational Signature but Instead Possess Host-Dependent Alterations in the APC Gene.

BMP gradient along the intestinal villus axis controls zonated enterocyte and goblet cell states.

Differentiation and CRISPR-Cas9-mediated genetic engineering of human intestinal organoids.

Rapid tissue prototyping with micro-organospheres.