Transcriptome profiling of human thymic CD4+ and CD8+ T cells compared to primary peripheral T cells

A cell atlas of human thymic development defines T cell repertoire formation

(2020) Jong-Eun Park et al.   SCIENCE

CD4+ T Follicular Helper Cells in Human Tonsils and Blood Are Clonally Convergent but Divergent from Non-Tfh CD4+ Cells

(2020) Elena Brenna et al.   Cell Reports

A Single-Cell Transcriptomic Atlas of Thymus Organogenesis Resolves Cell Types and Developmental Maturation

(2018) Eric M. Kernfeld et al.   IMMUNITY

CD45 in human physiology and clinical medicine

(2018) Andreas Rheinländer et al.   IMMUNOLOGY LETTERS

Thymic tolerance as a key brake on autoimmunity

(2018) Mickie Cheng et al.   NATURE IMMUNOLOGY

Single-Cell Analysis Identifies Thymic Maturation Delay in Growth-Restricted Neonatal Mice

(2018) Wendi A. Bacon et al.   Frontiers in Immunology

CD31, a Valuable Marker to Identify Early and Late Stages of T Cell Differentiation in the Human Thymus

(2017) Marc Douaisi et al.   JOURNAL OF IMMUNOLOGY

Loss of CD44dim Expression from Early Progenitor Cells Marks T-Cell Lineage Commitment in the Human Thymus

(2017) Kirsten Canté-Barrett et al.   Frontiers in Immunology

A High-Dimensional Atlas of Human T Cell Diversity Reveals Tissue-Specific Trafficking and Cytokine Signatures

(2016) Michael Thomas Wong et al.   IMMUNITY

Neonatal thymectomy reveals differentiation and plasticity within human naive T cells

(2016) Theo van den Broek et al.   JOURNAL OF CLINICAL INVESTIGATION

CXCR5+ follicular cytotoxic T cells control viral infection in B cell follicles

(2016) Yew Ann Leong et al.   NATURE IMMUNOLOGY

StringTie enables improved reconstruction of a transcriptome from RNA-seq reads

(2015) Mihaela Pertea et al.   NATURE BIOTECHNOLOGY

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Homeostasis of the Naive CD4+ T Cell Compartment during Aging

(2014) R. D. Kilpatrick et al.   JOURNAL OF IMMUNOLOGY

Interleukin-8 (CXCL8) production is a signatory T cell effector function of human newborn infants

(2014) Deena Gibbons et al.   NATURE MEDICINE

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

(2013) Y. Liao et al.   BIOINFORMATICS

RNA-seq differential expression studies: more sequence or more replication?

(2013) Yuwen Liu et al.   BIOINFORMATICS

CPAT: Coding-Potential Assessment Tool using an alignment-free logistic regression model

(2013) Liguo Wang et al.   NUCLEIC ACIDS RESEARCH

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Transcriptome analysis of murine thymocytes reveals age-associated changes in thymic gene expression

(2012) Ana Lustig et al.   International Journal of Medical Sciences

REVIGO Summarizes and Visualizes Long Lists of Gene Ontology Terms

(2011) Fran Supek et al.   PLoS One

Co-expression of the CD45RA and CD45RO antigens on T lymphocytes in chronic arthritis

(2010) K. L. SUMMERS et al.   CLINICAL AND EXPERIMENTAL IMMUNOLOGY

CD69 Suppresses Sphingosine 1-Phosophate Receptor-1 (S1P1) Function through Interaction with Membrane Helix 4

(2010) Alexander J. Bankovich et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Kruppel-Like Factor 2 Is Required for Trafficking but Not Quiescence in Postactivated T Cells

(2010) K. Takada et al.   JOURNAL OF IMMUNOLOGY

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

How to be Naive

(2009) Jens V. Stein   IMMUNITY