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1

Linking the Human Gut Microbiome to Inflammatory Cytokine Production Capacity

Schirmer, Melanie, Smeekens, Sanne P., Vlamakis, Hera, Jaeger, Martin, Oosting, Marije, Franzosa, Eric A., Jansen, Trees, Jacobs, Liesbeth, Bonder, Marc Jan, Kurilshikov, Alexander, Fu, Jingyuan, Joos

Journal:

Year:

2016

Language:

english

File:

PDF, 1.88 MB

english, 2016

2

Thinking about Bacillus subtilis as a multicellular organism

Claudio Aguilar, Hera Vlamakis, Richard Losick, Roberto Kolter

Journal:

Current Opinion in Microbiology

Year:

2007

Language:

english

File:

PDF, 2.65 MB

english, 2007

3

Sticking together: building a biofilm the Bacillus subtilis way

Vlamakis, Hera, Chai, Yunrong, Beauregard, Pascale, Losick, Richard, Kolter, Roberto

Journal:

Nature Reviews Microbiology

Year:

2013

Language:

english

File:

PDF, 1.46 MB

english, 2013

4

Variation in Microbiome LPS Immunogenicity Contributes to Autoimmunity in Humans

Vatanen, Tommi, Kostic, Aleksandar D., d’Hennezel, Eva, Siljander, Heli, Franzosa, Eric A., Yassour, Moran, Kolde, Raivo, Vlamakis, Hera, Arthur, Timothy D., Hämäläinen, Anu-Maaria, Peet, Aleksandr, T

Journal:

Year:

2016

Language:

english

File:

PDF, 56 KB

english, 2016

5

Linking the Human Gut Microbiome to Inflammatory Cytokine Production Capacity

Schirmer, Melanie, Smeekens, Sanne P., Vlamakis, Hera, Jaeger, Martin, Oosting, Marije, Franzosa, Eric A., Horst, Rob ter, Jansen, Trees, Jacobs, Liesbeth, Bonder, Marc Jan, Kurilshikov, Alexander, Fu

Journal:

Year:

2016

Language:

english

File:

PDF, 43 KB

english, 2016

6

A screen of Crohn’s disease-associated microbial metabolites identifies ascorbate as a novel metabolic inhibitor of activated human T cells

Chang, Yu-Ling, Rossetti, Maura, Vlamakis, Hera, Casero, David, Sunga, Gemalene, Harre, Nicholas, Miller, Shelley, Humphries, Romney, Stappenbeck, Thaddeus, Simpson, Kenneth W., Sartor, R. Balfour, Wu

Journal:

Mucosal Immunology

Year:

2018

Language:

english

File:

PDF, 2.59 MB

english, 2018

7

Cholesterol Metabolism by Uncultured Human Gut Bacteria Influences Host Cholesterol Level

Kenny, Douglas J., Plichta, Damian R., Shungin, Dmitry, Koppel, Nitzan, Hall, A. Brantley, Fu, Beverly, Vasan, Ramachandran S., Shaw, Stanley Y., Vlamakis, Hera, Balskus, Emily P., Xavier, Ramnik J.

Journal:

Cell Host & Microbe

Year:

2020

File:

PDF, 3.65 MB

2020

8

Metal-Enhanced Fluorescence to Quantify Bacterial Adhesion

Kangwon Lee, Lewis D. Hahn, William W. Yuen, Hera Vlamakis, Roberto Kolter, David J. Mooney

Journal:

Advanced Materials

Year:

2011

Language:

english

File:

PDF, 395 KB

english, 2011

9

Bioimaging: Metal-Enhanced Fluorescence to Quantify Bacterial Adhesion (Adv. Mater. 12/2011)

Kangwon Lee, Lewis D. Hahn, William W. Yuen, Hera Vlamakis, Roberto Kolter, David J. Mooney

Journal:

Advanced Materials

Year:

2011

File:

PDF, 1.38 MB

2011

10

The Che4 pathway of Myxococcus xanthus regulates type IV pilus-mediated motility

Hera C. Vlamakis, John R. Kirby, David R. Zusman

Journal:

Molecular Microbiology

Year:

2004

Language:

english

File:

PDF, 283 KB

english, 2004

11

FrzZ, a dual CheY-like response regulator, functions as an output for the Frz chemosensory pathway of Myxococcus xanthus

Yuki F. Inclán, Hera C. Vlamakis, David R. Zusman

Journal:

Molecular Microbiology

Year:

2007

Language:

english

File:

PDF, 473 KB

english, 2007

12

An accessory protein required for anchoring and assembly of amyloid fibres in B. subtilis biofilms

Diego Romero, Hera Vlamakis, Richard Losick, Roberto Kolter

Journal:

Molecular Microbiology

Year:

2011

Language:

english

File:

PDF, 1.18 MB

english, 2011

13

Generation of multiple cell types in Bacillus subtilis

Daniel Lopez, Hera Vlamakis, Roberto Kolter

Journal:

FEMS Microbiology Reviews

Year:

2009

Language:

english

File:

PDF, 539 KB

english, 2009

14

Thieves, assassins and spies of the microbial world

Vlamakis, Hera C., Kolter, Roberto

Journal:

Nature Cell Biology

Year:

2005

Language:

english

File:

PDF, 150 KB

english, 2005

15

Analysis of the Frz signal transduction system of Myxococcus xanthus shows the importance of the conserved C-terminal region of the cytoplasmic chemoreceptor FrzCD in sensing signals

Víctor H. Bustamante, Irma Martínez-Flores, Hera C. Vlamakis, David R. Zusman

Journal:

Molecular Microbiology

Year:

2004

Language:

english

File:

PDF, 329 KB

english, 2004

16

The biofilm formation defect of a Bacillus subtilis flotillin-defective mutant involves the protease FtsH

Ana Yepes, Johannes Schneider, Benjamin Mielich, Gudrun Koch, Juan-Carlos García-Betancur, Kumaran S. Ramamurthi, Hera Vlamakis, Daniel López

Journal:

Molecular Microbiology

Year:

2012

Language:

english

File:

PDF, 1.48 MB

english, 2012

17

Cannibalism enhances biofilm development in Bacillus subtilis

Daniel López, Hera Vlamakis, Richard Losick, Roberto Kolter

Journal:

Molecular Microbiology

Year:

2009

Language:

english

File:

PDF, 488 KB

english, 2009

18

Shear Stress Increases the Residence Time of Adhesion of Pseudomonas aeruginosa

Lecuyer, Sigolene, Rusconi, Roberto, Shen, Yi, Forsyth, Alison, Vlamakis, Hera, Kolter, Roberto, Stone, Howard A.

Journal:

Biophysical Journal

Year:

2011

Language:

english

File:

PDF, 561 KB

english, 2011

19

Correction

Lecuyer, Sigolene, Rusconi, Roberto, Shen, Yi, Forsyth, Alison, Vlamakis, Hera, Kolter, Roberto, Stone, Howard A.

Journal:

Biophysical Journal

Year:

2011

Language:

english

File:

PDF, 128 KB

english, 2011

20

Biofilm Inhibitors that Target Amyloid Proteins

Romero, Diego, Sanabria-Valentín, Edgardo, Vlamakis, Hera, Kolter, Roberto

Journal:

Chemistry & Biology

Year:

2013

Language:

english

File:

PDF, 1.49 MB

english, 2013

21

Mixing and Matching Siderophore Clusters: Structure and Biosynthesis of Serratiochelins from Serratia sp. V4

Seyedsayamdost, Mohammad R., Cleto, Sara, Carr, Gavin, Vlamakis, Hera, João Vieira, Maria, Kolter, Roberto, Clardy, Jon

Journal:

Journal of the American Chemical Society

Year:

2012

Language:

english

File:

PDF, 678 KB

english, 2012

22

Mutualistic interaction between S almonella enterica and A spergillus niger and its effects on Z ea mays colonization

Balbontín, Roberto, Vlamakis, Hera, Kolter, Roberto

Journal:

Microbial Biotechnology

Year:

2014

Language:

english

File:

PDF, 816 KB

english, 2014

23

New Tools for Comparing Microscopy Images: Quantitative Analysis of Cell Types in Bacillus subtilis

van Gestel, Jordi, Vlamakis, Hera, Kolter, Roberto, Zhulin, I. B.

Journal:

Journal of Bacteriology

Year:

2015

Language:

english

File:

PDF, 2.06 MB

english, 2015

24

Extracellular signal regulation of cell differentiation in biofilms

Chai, Liraz, Vlamakis, Hera, Kolter, Roberto

Journal:

Year:

2011

Language:

english

File:

PDF, 642 KB

english, 2011

25

Directed natural product biosynthesis gene cluster capture and expression in the model bacterium Bacillus subtilis

Li, Yongxin, Li, Zhongrui, Yamanaka, Kazuya, Xu, Ying, Zhang, Weipeng, Vlamakis, Hera, Kolter, Roberto, Moore, Bradley S., Qian, Pei-Yuan

Journal:

Scientific Reports

Year:

2015

Language:

english

File:

PDF, 944 KB

english, 2015

26

From Cell Differentiation to Cell Collectives: Bacillus subtilis Uses Division of Labor to Migrate

van Gestel, Jordi, Vlamakis, Hera, Kolter, Roberto, Laub, Michael T.

Journal:

Year:

2015

Language:

english

File:

PDF, 15.67 MB

english, 2015

27

The world of biofilms

Journal:

Year:

2011

Language:

english

File:

PDF, 512 KB

english, 2011

28

Variation in Microbiome LPS Immunogenicity Contributes to Autoimmunity in Humans

Vatanen, Tommi, Kostic, Aleksandar D., d’Hennezel, Eva, Siljander, Heli, Franzosa, Eric A., Yassour, Moran, Kolde, Raivo, Vlamakis, Hera, Arthur, Timothy D., Hämäläinen, Anu-Maaria, Peet, Aleksandr, T

Journal:

Year:

2016

Language:

english

File:

PDF, 1.21 MB

english, 2016

29

Bacterial influence on alkenones in live microalgae

Segev, Einat, Castañeda, Isla S., Sikes, Elisabeth L., Vlamakis, Hera, Kolter, Roberto, Wood, M.

Journal:

Journal of Phycology

Year:

2016

Language:

english

File:

PDF, 361 KB

english, 2016

30

Understanding human immune function using the resources from the Human Functional Genomics Project

Netea, Mihai G, Joosten, Leo A B, Li, Yang, Kumar, Vinod, Oosting, Marije, Smeekens, Sanne, Jaeger, Martin, ter Horst, Rob, Schirmer, Melanie, Vlamakis, Hera, Notebaart, Richard, Pavelka, Norman, Agui

Journal:

Nature Medicine

Year:

2016

Language:

english

File:

PDF, 297 KB

english, 2016

31

Division of Labor in Biofilms: the Ecology of Cell Differentiation

Kolter, Roberto, Vlamakis, Hera, van Gestel, Jordi

Journal:

Microbiology Spectrum

Year:

2015

Language:

english

File:

PDF, 833 KB

english, 2015

32

Bacillus subtilis Early Colonization of Arabidopsis thaliana Roots Involves Multiple Chemotaxis Receptors

Allard-Massicotte, Rosalie, Tessier, Laurence, Lécuyer, Frédéric, Lakshmanan, Venkatachalam, Lucier, Jean-François, Garneau, Daniel, Caudwell, Larissa, Vlamakis, Hera, Bais, Harsh P., Beauregard, Pasc

Journal:

Year:

2016

Language:

english

File:

PDF, 1.25 MB

english, 2016

33

Intestinal virome changes precede autoimmunity in type I diabetes-susceptible children

Zhao, Guoyan, Vatanen, Tommi, Droit, Lindsay, Park, Arnold, Kostic, Aleksandar D., Poon, Tiffany W., Vlamakis, Hera, Siljander, Heli, Härkönen, Taina, Hämäläinen, Anu-Maaria, Peet, Aleksandr, Tillmann

Journal:

Proceedings of the National Academy of Sciences

Year:

2017

Language:

english

File:

PDF, 1.68 MB

english, 2017

34

Microbial Dysbiosis Associated with Disease Severity in Treatment Naive Pediatric Patients with New-Onset Ulcerative Colitis

Schirmer, Melanie, Vlamakis, Hera, Denson, Lee A., Davis, Sonia, Rufo, Paul A., Baker, Susan S., Strople, Jennifer A., Sauer, Cary G., Markowitz, James, Pfefferkorn, Marian D., Ziring, David, Oliva-He

Journal:

Gastroenterology

Year:

2017

Language:

english

File:

PDF, 1.54 MB

english, 2017

35

A common mechanism links activities of butyrate in the colon

Verma, Mohit S., Fink, Michael J., Salmon, Gabriel L., Fornelos, Nadine, Ohara, Takahiro E., Ryu, Stacy H., Vlamakis, Hera, Xavier, Ramnik J., Stappenbeck, Thaddeus S., Whitesides, George M.

Journal:

ACS Chemical Biology

Year:

2018

Language:

english

File:

PDF, 1.20 MB

english, 2018

36

Host genetic variation and its microbiome interactions within the Human Microbiome Project

Kolde, Raivo, Franzosa, Eric A., Rahnavard, Gholamali, Hall, Andrew Brantley, Vlamakis, Hera, Stevens, Christine, Daly, Mark J., Xavier, Ramnik J., Huttenhower, Curtis

Journal:

Genome Medicine

Year:

2018

Language:

english

File:

PDF, 1.16 MB

english, 2018

37

1100 - Dynamics of the Microbial Metaproteome in Inflammatory Bowel Disease

Braun, Jonathan, Brislawn, Colin, Casero, David, Purvine, Samuel, Scott, Johanna J., White, Richard A., Arze, Cesar, Lloyd-Price, Jason, Vlamakis, Hera, Xavier, Ramnik, Huttenhower, Curtis, Graeber, T

Journal:

Gastroenterology

Year:

2018

Language:

english

File:

PDF, 151 KB

english, 2018

38

634 - Gut Microbial Factors Implicated in Disease Progression and Treatment Response in Pediatric Ulcerative Colitis

Schirmer, Melanie, Vlamakis, Hera, Denson, Lee A., Franzosa, Eric A., Davis, Sonia, Rufo, Paul A., Baker, Susan S., Sauer, Cary G., Markowitz, James, Pfefferkorn, Marian D., Oliva-Hemker, Maria, Rosh,

Journal:

Gastroenterology

Year:

2018

Language:

english

File:

PDF, 598 KB

english, 2018

39

Morphological Heterogeneity and Attachment of Phaeobacter inhibens

Segev, Einat, Tellez, Adèle, Vlamakis, Hera, Kolter, Roberto, Balish, Mitchell F.

Journal:

Year:

2015

Language:

english

File:

PDF, 1.22 MB

english, 2015

40

Dynamic metabolic exchange governs a marine algal-bacterial interaction

Segev, Einat, Wyche, Thomas P, Kim, Ki Hyun, Petersen, Jörn, Ellebrandt, Claire, Vlamakis, Hera, Barteneva, Natasha, Paulson, Joseph N, Chai, Liraz, Clardy, Jon, Kolter, Roberto

Journal:

Year:

2016

Language:

english

File:

PDF, 3.66 MB

english, 2016

41

Compositional and Temporal Changes in the Gut Microbiome of Pediatric Ulcerative Colitis Patients Are Linked to Disease Course

Schirmer, Melanie, Denson, Lee, Vlamakis, Hera, Franzosa, Eric A., Thomas, Sonia, Gotman, Nathan M., Rufo, Paul, Baker, Susan S., Sauer, Cary, Markowitz, James, Pfefferkorn, Marian, Oliva-Hemker, Mari

Journal:

Cell Host & Microbe

Year:

2018

Language:

english

File:

PDF, 6.78 MB

english, 2018

42

PolyGlcNAc-containing exopolymers enable surface penetration by non-motile Enterococcus faecalis

Ramos, Yusibeska, Rocha, Jorge, Hael, Ana L., van Gestel, Jordi, Vlamakis, Hera, Cywes-Bentley, Colette, Cubillos-Ruiz, Juan R., Pier, Gerald B., Gilmore, Michael S., Kolter, Roberto, Morales, Diana K

Journal:

Year:

2019

Language:

english

File:

PDF, 19.57 MB

english, 2019

43

Ruminococcus gnavus , a member of the human gut microbiome associated with Crohn’s disease, produces an inflammatory polysaccharide

Henke, Matthew T., Kenny, Douglas J., Cassilly, Chelsi D., Vlamakis, Hera, Xavier, Ramnik J., Clardy, Jon

Journal:

Proceedings of the National Academy of Sciences

Year:

2019

Language:

english

File:

PDF, 1.13 MB

english, 2019

44

Microbial genes and pathways in inflammatory bowel disease

Schirmer, Melanie, Garner, Ashley, Vlamakis, Hera, Xavier, Ramnik J.

Journal:

Nature Reviews Microbiology

Year:

2019

Language:

english

File:

PDF, 2.22 MB

english, 2019

45

146 – Gut Microbial Dysbiosis Contributes to Fatigue in Patients with Quiescent Inflammatory Bowel Diseases

Borren, Nienke Z., Plichta, Damian, Peng, Vincent, Luther, Jay, Khalili, Hamed, Garber, John J., Colizzo, Francis, Van Der Woude, Christien Janneke, Vlamakis, Hera, Xavier, Ramnik, Ananthakrishnan, As

Journal:

Gastroenterology

Year:

2019

Language:

english

File:

PDF, 306 KB

english, 2019

46

Stress ulcer prophylaxis versus placeboâa blinded randomized control trial to evaluate the safety of two strategies in critically ill infants with congenital heart disease (SUPPRESS-CHD)

Mills, Kimberly I., Albert, Ben D., Bechard, Lori J., Duggan, Christopher P., Kaza, Aditya, Rakoff-Nahoum, Seth, Vlamakis, Hera, Sleeper, Lynn A., Newburger, Jane W., Priebe, Gregory P., Mehta, Nilesh

Journal:

Year:

2020

File:

PDF, 685 KB

2020

47

348 MULTI-âOMICS PROFILING IN PATIENTS WITH QUIESCENT INFLAMMATORY BOWEL DISEASE IDENTIFIES BIOMARKERS PREDICTING RELAPSE

Borren, Nynke Z., Plichta, Damian, Joshi, Amit D., Bonilla, Gracia, Sadreyev, Ruslan I., Vlamakis, Hera, Xavier, Ramnik, Ananthakrishnan, Ashwin

Journal:

Gastroenterology

Year:

2020

File:

PDF, 702 KB

2020

48

Multi-â-Omicsâ Profiling in Patients With Quiescent Inflammatory Bowel Disease Identifies Biomarkers Predicting Relapse

Borren, Nienke Z, Plichta, Damian, Joshi, Amit D, Bonilla, Gracia, Sadreyev, Ruslan, Vlamakis, Hera, Xavier, Ramnik J, Ananthakrishnan, Ashwin N

Journal:

Inflammatory Bowel Diseases

Year:

2020

File:

PDF, 492 KB

2020

49

Linking strain engraftment in fecal microbiota transplantation with maintenance of remission in Crohnâs disease

Kong, Lingjia, Lloyd-Price, Jason, Vatanen, Tommi, Seksik, Philippe, Beaugerie, Laurent, Simon, Tabassome, Vlamakis, Hera, Sokol, Harry, Xavier, Ramnik J.

Journal:

Gastroenterology

Year:

2020

File:

PDF, 1.48 MB

2020

50

Plasmalogen Biosynthesis by Anaerobic Bacteria: Identification of a Two-Gene Operon Responsible for Plasmalogen Production in Clostridium perfringens

Jackson, David R., Cassilly, Chelsi D., Plichta, Damian R., Vlamakis, Hera, Liu, Hualan, Melville, Stephen B., Xavier, Ramnik J., Clardy, Jon

Journal:

ACS Chemical Biology

Year:

2020

File:

PDF, 1.78 MB

2020

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