lrathje

About Lori Rathje

This author has not yet filled in any details.
So far Lori Rathje has created 27 entries.

Differential gene and transcript expression analysis of RNA-seq

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks
Cole Trapnell, Adam Roberts, Loyal Goff, Geo Pertea, Daehwan Kim, David R Kelley, Harold Pimentel, Steven L Salzberg, John L Rinn and Lior Pachter: Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks. Nature Protocols 2012,  7, 562-578.

Recent advances in high-throughput cDNA sequencing (RNA-seq) can reveal new genes and […]

Control of Paneth Cell Fate by PKCλ/ι

Control of Paneth Cell Fate, Intestinal Inflammation, and Tumorigenesis by PKCλ/ι
Yuki Nakanishi, Miguel Reina-Campos, Naoko Nakanishi, Victoria Llado, Lisa Elmen, Scott Peterson, Alex Campos, Surya K. De, Michael Leitges, Hiroki Ikeuchi, Maurizio Pellecchia, Richard S. Blumberg, Maria T. Diaz-Meco, and Jorge Moscat

The intestine is protected by specialized cells, called Paneth cells, that secrete antimicrobial […]

Comparison of cell counting methods

Comparison of cell counting methods in rodent pulmonary toxicity studies: automated and manual protocols and considerations for experimental design

Patti C. Zeidler-Erdely, James M. Antonini, Terence G. Meighan, Shih-Houng Young, Tracy J. Eye, Mary Ann Hammer & Aaron Erdely (2016) Comparison of cell counting methods in rodent pulmonary toxicity studies: automated and manual protocols and […]

SMI Mourns the Loss of Per Brandtzaeg

By |September 13th, 2016|Categories: 2016, News, Uncategorized||0 Comments

Maternal IgG and IgA Antibodies Dampen Mucosal T Helper Cell

Maternal IgG and IgA Antibodies Dampen Mucosal T Helper Cell Responses in Early Life
Koch MA, Reiner GL, Lugo KA, Kreuk LS, Stanbery AG, Ansaldo E, Seher TD, Ludington WB, Barton GM.

Immediately following birth, the gastrointestinal tract is colonized by diverse microbial species. Establishing proper immune responses to these microbes is essential to ensure optimal […]

IgA Production Requires B Cell Interaction with Subepithelial

IgA Production Requires B Cell Interaction with Subepithelial Dendritic Cells in Peyer’s Patches
Reboldi A, Arnon TI, Rodda LB, Atakilit A, Sheppard D, Cyster JG.

Immunoglobulin A (IgA) induction primarily occurs in intestinal Peyer’s patches (PPs). However, the cellular interactions necessary for IgA class switching are poorly defined. Here we show that in mice, activated B […]

In vivo Imaging and Tracking of Host-Microbiota Interactions via Metabolic

In vivo Imaging and Tracking of Host-Microbiota Interactions via Metabolic Labeling of Gut Anaerobic Bacteria
Naama Geva-Zatorsky, David Alvarez, Jason E. Hudak, Nicola C. Reading, Deniz Erturk-Hasdemir, Suryasarathi Dasgupta, Ulrich H. von Andrian, and Dennis L. Kasper: Nat Med. 2015 Sep; 21(9): 1091–1100. Published online 2015 Aug 17. doi:  10.1038/nm.3929

“The intestine is densely populated by anaerobic […]

T Lymphocyte Density and Distribution in Human Colorectal Mucosa, and Inefficiency of Current Cell Isolation Protocols

T Lymphocyte Density and Distribution in Human Colorectal Mucosa, and Inefficiency of Current Cell Isolation Protocols
Preza GC, Yang OO, Elliott J, Anton PA, Ochoa MT: T Lymphocyte Density and Distribution in Human Colorectal Mucosa, and Inefficiency of Current Cell Isolation Protocols. PLoS One 2015 Apr 9;10(4):e0122723.

“Mucosal tissues are critical immune effector sites containing complex populations of […]

Isolation and Cytokine Analysis of Lamina Propria Lymphocytes

Isolation and Cytokine Analysis of Lamina Propria Lymphocytes from Mucosal Biopsies of the Human Colon
Bowcutt R, Malter LB, Chen LA, Wolff MJ, Robertson I, Rifkin DB, Poles M, Cho I, Loke P: Isolation and Cytokine Analysis of Lamina Propria Lymphocytes from Mucosal Biopsies of the Human Colon. J Immunol Methods 2015 Jun;421:27-35. 

“Much of our understanding of […]

Group 2 Innate Lymphoid Cells Utilize the IRF4-IL-9

Group 2 Innate Lymphoid Cells Utilize the IRF4-IL-9 Module to Coordinate Epithelial Cell Maintenance of Lung Homeostasis
Mohapatra A, Van Dyken SJ, Schneider C, Nussbaum JC, Liang HE, Locksley RM

Group 2 innate lymphoid cells (ILC2s) in lung are among the initial cells that respond to allergen-provoking challenges, but how signals are integrated to mediate their […]