Systems Immunology
March 13 - 16, 2019

You must register for the meeting in order to submit abstracts.
After registering you will be sent a web link for abstract submission by email.
You may copy and paste your abstract from Word, Google Docs, or Notepad; abstracts are limited to ~2900 characters.

Program information: An electronic version of the program abstract book will be sent three working days prior to the first day of the meeting, and hard copies will be available for collection upon your arrival at Cold Spring Harbor Laboratory. First night and keynote speakers are informed of their session date and time, otherwise program information is only available upon release of the electronic version of the abstract book. The reason we do this is to try and maximize interactions by encouraging participants to stay for the duration of the meeting.

Please check your email for talk length, poster instructions, and how to have your poster printed at CSHL for collection upon arrival. 

Abstract Status

Presenting Author

Abstract Title

Talk/Poster

Abadie, Kathleen V

Heterogeneity and reversibility in CD8 T cell differentiation dynamics revealed by quantitative long-term imaging

poster

Adelaja, Adewunmi O

Deciphering the language of immune sentinel cells to specify immune responses

poster

Aggarwal, Kunal

Investigating potential mechanisms for negative regulation of T cell activation

poster

Alanio, Cecile

Bystander effect of CMV latent infection on T cells

poster

Alanio, Cecile

Skewed T cell distribution in pancreatic cancer patients

poster

Alexander, Amanda F

Exploring IL-10 negative regulation of cell-to-cell heterogeneity in the TLR4 inflammatory response

poster

Altan-Bonnet, Grégoire

Mapping how small differences of tumor antigenicity translate into divergent functional outcomes for T cell activation

talk

Alter, Galit

Dissecting the antibody-OME to define novel correlates of immunity

talk

Andrabi, Syed Bilal Ahmad

Regulation of human regulatory T  cells by HIC1

poster

Andre, Violaine

Control of T cell responses by the accessory receptor CD6

poster

Arber, Caroline

Harnessing CD8 co-receptor function for immunotherapy with low-avidity TCR transgenic T cells

talk

Barski, Artem

Co-stimulation-induced AP-1 activity is required for chromatin opening during T cell activation

poster

Bendall, Sean

Composition and structure of human immune system to predict and control pathobiology

talk

Boutet, Marie

Cognate antigen-stimulation promotes a specific chemokine gene-expression signature in memory CD8+T cells that is essential for protective immunity

poster

Brodin, Petter

Systems-level analysis of immune variation and development early in life

talk

Burel, Julie G

No cell is an island—Circulating T cell:monocyte complexes are markers of immune perturbations

poster

Carmona, Santiago J

Towards high-resolution mapping of CD8 T cells states in melanoma tumors

poster

Cazares, Tareian A

Modeling Epstein Barr virus transcriptional regulatory networks in lymphoblastoid cell lines

poster

Chait Berman, Karen

Global architecture of the neural-immune network in the periphery

poster

Chan, Waipan

Quantitative single cell temporal analysis reveals TCR regulatory mechanisms of immune checkpoint receptors

poster

Chatterjee, Budhaditya

Immune differentiation regulator p100 tunes NF-κB responses to TNF

poster

Chavez, Michael G

GPCR-coupled CRISPR-Cas system for engineered cell therapies

poster

Chevrier, Nicolas

How do cells integrate multiple signals?

talk

Ciucci, Thomas

Single-cell analysis of the epigenetic and transcriptomic landscape of memory CD4+ T cells development

talk

Cvejic, Ana

Single-cell transcriptional analysis reveals ILC-like cells in zebrafish

talk

Das, Jishnu

Global transcriptomic profiling uncovers unique functional roles of IgG3 B cells in HIV antiviral control

poster

Davis, Mark

T cell repertoire, specificity and function in autoimmunity, infectious diseases and cancer

talk

Dolatshahi, Sepideh

Systems analysis of the Fc-glycan mediated regulation of placental antibody transfer

poster

Dubovik, Tania

Architecture of a multi-cellular polygenic network governing immune homeostasis

poster

Engler, Jan Broder

Pregnancy enables expansion of autoreactive regulatory T cells in an animal model of multiple sclerosis

poster

Engreitz, Jesse

Activity-by-Contact model of enhancer specificity links immune disease risk variants to target genes

talk

Farber, Donna

Analysis of human T cells from tissues to single cells

talk

Feldman, Erik

Microbe cocktails re-shape immunity

poster

Ferrero, Enrico

Using regulatory genomics data to interpret the function of autoimmune disease variants and prioritise genes from expression studies

poster

Fraser, Iain

Genome-wide screening combined with an iterative bioinformatic analysis model identifies critical roles for protein degradation and alternative splicing in TLR-induced macrophage activation

talk

Furtado, Raquel

Expansion of circulating CXCR3lo memory CD4+ T helper cells correlates with clinical protection against human malaria

poster

Fuxman Bass, Juan I

Comprehensive mapping of the human cytokine gene regulatory network

poster

Gaglione, Stephanie

Silencing T cells—Inducing adaptation in CD8+ effector T cells with minimal cytokine production

poster

Galletti, Giovanni

Garton, Josh W

Effector differentiation is predetermined among subsets of human CD8+ naïve T cells

ARID3a expression in SLE naïve B cells is associated with a distinct transcriptome

poster

poster

Germain, Ronald

From cell microstates to 3D tissue organization—Factors controlling the operation of the immune “system”

talk

Gfeller, David

Deep deconvolution of HLA motifs across HLA peptidomes for robust epitope predictions

poster

Gideon, Hannah P

Deciphering multicellular microenvironment of tuberculosis lung granulomas associated with bacterial control using high-throughput single-cell mRNA sequencing

poster

Gillard, Joshua

High-dimensional profiling of early immune events following acellular pertussis booster vaccination

poster

Gottschalk, Rachel A

Using computational modeling to decode inflammatory stimuli at the level of MAPK activation dynamics

poster

Grigaityte, Kristina

Public clones in the T cell repertoire of healthy humans

poster

Hacohen, Nir

Learning the rules of the human immune system

talk

Hartmann, Felix J

Single-cell metabolic modules organize the human T-cell activation landscape

poster

Henrickson, Sarah E

Obesity dysregulates immunometabolic status in asthma

poster

Hilligan, Kerry L

Dissecting the innate immune networks regulating CD4+ T cell differentiation

talk

Hirsch, Dylan C

Fingerprinting the human immune system—Multi-disease mapping and dissection

poster

Hodgkin, Phil

Concepts for a probabilistic cell as the basis for quantitative immune models and novel immune health diagnostics

talk

Hoffmann, Alexander

Molecular network dynamics control hematopoetic output

talk

Hou, Lei

Epigenomic alterations in Inflammatory Bowel Disease and Rheumatoid Arthritis across 204 individuals and 8 cell types

poster

Hu, Dan

Dysregulation of heat shock proteins in CD4 T cells in multiple sclerosis

poster

Hu, Zicheng

ImmPort—Building resources for repurposing of immunological data

poster

Itoh, Christopher Y

Thioredoxin-1 is an inflammatory marker for macrophages

poster

Jain, Nikhil

Physically driving macrophage specification and activation by microenvironmental-niche engineering

poster

Jenkins, Marc

Plumbing the depths of the helper T cell repertoire

talk

Jiang, Jenny

DNA-labeled pMHC tetramer based multi-parameter T cell profiling

poster

Jiang, Jenny

High-throughput determination of the antigen specificities of T cell receptors in single cells

talk

Jiang, Peng

Signatures of T cell dysfunction and exclusion predict cancer immunotherapy response

poster

Joglekar, Alok

T cell antigen discovery via signaling and antigen presenting bifunctional receptors

talk

Joo, Victor

Mode of action of anti-PD-1 antibodies on T cell signaling in human primary T cells

poster

Katoh, Hiroto

Immunogenomic repertoire profiling reveals sulfated-glycosaminoglycans to be major and functional B-cell antigens in human malignancies

poster

Kelsey, Ilana

Mapping individual macrophage polarization decisions by altering the timing and combination of polarization cues

poster

Kenter, Amy L.

B cells undergoing class switch recombination become transiently BCR surface negative—Implications for the mechanism of IgE formation and for B cell pathologies

poster

Khan, Aly

Connecting single-cell gene expression with B cell receptor specificity

talk

Kishimoto, Kensei

Structure-function analysis of NFκB/RelA in activating endogenous target genes

poster

Kleinstein, Steven

Analysis of B cell antibody repertoires from next-generation sequencing (in autoimmunity and other diseases)

talk

Kleinstein, Steven

Seasonal variability and shared molecular signatures of inactivated influenza vaccination in young and older adults

poster

Koguchi, Yoshinobu

Implementation and validation of an automated flow cytometry analysis pipeline for human immune profiling

poster

Komura, Daisuke

Visualizing ligand-receptor-mediated interactome in single cell transcriptome data

poster

Koturan, Surya

Role of genetic variants in innate and adaptive cell function in chronic inflammatory diseases

poster

Kueh, Hao Yuan

How lymphocytes tell time—Insights from single-cell analysis of T-cell fate specification

talk

Kurt, Robert

Intricacies of generating a model for dual Toll-like receptor signaling cascades

poster

Laing, Adam

A functionally-relevant, genetically regulated immune system shape at steady-state and following challenge

poster

LaRue, Rebecca S

Thymic regulatory T cells arise via two distinct developmental programs

poster

Lavaert, Marieke

Single cell RNAseq reveals the in vivo differentiation potential and transcriptional dynamics of immature human thymocytes

talk

Lee, Amy H

Transcriptional profiling of stem cell-derived macrophages provide functional insights to genome-wide association studies

poster

Lin, Jie

Silver nanoparticles reduce pro-inflammatory effect and promote locomotor recovery after spinal cord injury

poster

Lin, Yu Sheng

RelA dynamics during early B lymphopoiesis control B cell output and repertoire

poster

Lohmueller, Jason

Covalent adaptor synNotch and chimeric antigen receptors (CARs) for programmable antigen targeting

talk

Lu, Jian

Single cell RNAseq and multi-color flow cytometry analyses reveal fine compositions of human CD8+ T cells

poster

Lythe, Grant

How many TCR clonotypes does a body maintain?

poster

Machado, Heather

Defining the somatic mutational profiles of normal human lymphocytes

poster

Magen, Assaf

Single-cell resolution profiling of tumor-reactive CD4+ T-cells reveals cancer-specific alterations

poster

Manczinger, Mate

Pathogen diversity drives the evolution of generalist MHC-II alleles in human populations

poster

Mariman, Rob

Associations between genotypes of Bordetella pertussis isolates and activation of innate and adaptive immune cells

poster

Marson, Alexander

Reprogramming human immune cell circuitry

talk

Martin Moreno, Alba

Design of a dendritic cell-based therapeutic vaccine against HIV-1

poster

Martin Moreno, Alba

Study of the effects on the vaginal immune system to ensure the biosafety of the microbicide G2-S16

poster

Martins, Andrew J

Integrated surface protein and gene expression analysis of cord blood mononuclear cells from pre-term and full-term births

talk




Milanez-Almeida, Pedro

Blood-based prediction of lethality upon influenza infection in mice

poster

Miraldi, Emily

Transcriptional regulatory networks that promote and restrict identities and functions of intestinal innate lymphoid cells

talk

Moss, Paul A

' T cell versus T cell '—Single cell transcriptomic analysis of malignant and reactive T cells in patients with CD4+ lymphoma of the skin

poster




Mule, Matthew P

Human vaccine response signatures revealed through simultaneous transcriptome and protein expression profiling in single cells

poster

Munoz-Rojas, Andres R

Individual macrophages stimulated with mixed polarization cues display orthogonal secretion response programs

talk

Myers, Samuel A

Low input proteomics enables the quantitative analysis of global gene expression in freshly isolated primary murine immune cells

poster

Napolitani, Giorgio

Clonal analysis of typhoidal Salmonella specific effector CD4+ T cells in challenged human volunteers reveals immunodominant serovar specific and cross-reactive T cell responses

poster

Newell, Evan

Profiling antigen-specific T cells to understand T cell diversity in human health and disease

talk

Nguyen, John

A quantitative study of co-stimulatory signals through TNF receptor superfamily members in human CD8+ T cells

poster

Ning, Fei

Transcription factor Hes1 attenuates type I interferon-mediated immune responses via control of VEGF-C-WDFY1 axis

poster

Normand, Rachelly

Found in translation—A machine learning model for mouse-to-human inference

poster

ODonoghue, Geoffrey P

Optogenetic dissection of T cell signaling dynamics and cell fate

talk

Oja, Anna E

Functional heterogeneity of human lung CD4+ T cells

poster

Olin, Axel B

The natural history of human immune system development during the first five years of life

poster

Ostuni, Renato

Integration of immune stimuli in macrophages expands the range of activation states and identifies targets for functional reprogramming in cancer

poster

Palli, Rohith

Executable models for pathway analysis of metabolomic responses to HIV vaccination

poster

Pappalardo, Jenna L

Defining the state of immune surveillance in the homeostatic human brain

poster

Park, Kyemyung

Exploring information transmission in gene networks using stochastic simulation and machine learning

poster

Park, Kyemyung

Quantitative modeling of cellular interactions to dissect auto-reactive T cell responses

poster

Pettmann, Johannes

Control of antigen discrimination by accessory receptors

poster

Prizant, Hen

Focal perivascular regions of CXCL10 production define hubs for antigen presentation to CD4+ Th1 cells

poster

Qian, Chenxi

scMINER—A nonlinear computational framework for clustering and network analysis of single-cell RNA-seq data

poster

Rachmaninoff, Nicholas A

Integrative, unsupervised reconstruction of the phenotypic landscape of monogenic immune disorders

poster

Raeven, Rene

Systems vaccinology to investigate the effect of vaccine composition and immunization route on induction of immunity against Bordetella pertussis

poster

Regev, Aviv

Cell atlases as oadmaps to understand and treat disease

talk

Reich-Zeliger, Shlomit

Immunity, the beginning—Characterizing immune development in preterm infants using advanced mass cytometry

poster

Reyes, Miguel

Blood immune cell landscapes define host response signatures to bacterial infection and sepsis

poster

Richard, Arianne C

A rate-limiting process—T cell activation from a single-cell perspective

poster

Roels, Juliette

Transcriptional regulation of human T cell development

poster

Rogers, Dakota

Naïve CD4 T cell heterogeneity arising from interactions with self-ligands impacts TCR signaling and Tfh differentiation following activation

poster

Rogge, Lars

Immune response profiling reveals signaling networks mediating TNF-blocker function and correlates of therapeutic responses in spondyloarthritis

poster

Rohr, Jan C

T cell quorum-regulation by nested antagonistic feedback circuits

talk

Rolls, Asya

Central control of immunity or - adding neurons to complicate immunology

talk

Roy Chowdhury, Roshni

Integrative multi-cohort systems analysis reveals immune determinants of M. tuberculosis infection outcomes and treatment response

poster

Roybal, Kole T

Engineering the next-generation of immune cell therapies for cancer

talk

Sandu, Ioana

Heterogeneity of virus-specific CD8 T cells in chronic viral infection

poster

Satija, Rahul

Comprehensive integration of single cell data

talk

Scangarello, Frank A

ADAP is an upstream regulator that precedes SLP-76 at sites of TCR engagement and stabilizes signaling microclusters

poster

Scheible, Kristin M

Coordinated postnatal developmental trajectories of T cell and microbial structures in newborns

talk

Shen-Orr, Shai S

Cellular variability in the immune system—Origins, dynamics and clinical implications.

talk

Siller-Farfan, Jesus A

Immunotherapy—Designing synthetic receptors to improve T cell discrimination of antigen doses

poster

Smita, Shuchi

Predicting transcription factor regulatory networks for naïve B cells and Memory B cell subsets

poster

Solleder, Marthe

Deciphering the landscape of phosphorylated HLA-I ligands

poster

Steier, Zoe

Deconstructing T cell development in the mammalian thymus with single-cell genomics

poster

Subramanian, Naeha

A sustained small increase in NOD1 expression promotes ligand-independent oncogenic activity

poster

Suurmond, Jolien

Derivation of ANA+ plasmablasts in lupus

poster

Taylor, Matthew D

Combined T cell memory increases innate immunity in the cecal ligation and puncture (CLP) model of sepsis

poster

Thakore, Pratiksha

Chromatin landscape of Th17 pathogenicity

poster

Thiemicke, Alexander

Temporal kinetic changes of hypertonic stress differentially regulate MAPK signaling dynamics and cell fate in human immune cells

poster

Tian, Yuan

Molecular signatures of IL-10/IFN-γ co-producing CD4 T cells during acute dengue virus infection

poster

Tovar, Adelaide E

Dynamics of alveolar macrophage transcriptional regulation following sterile inflammation

poster

Trynka, Gosia

Immune disease GWAS variants converge on regulation of CD4 T cell activation

talk

Ucar, Duygu

Systems immunology uncovers sex differences in human immune system aging

poster

Villani, Alexandra-Chloe

Single cell genomics—Using finer lenses to unravel features of human immunity

talk

Wagner, Allon

A landscape of single-cell metabolic heterogeneity reveals novel targets for suppression of autoimmunity

poster

Wang, Linghua

iTALK—An R Package to Characterize and Illustrate Cell-to-Cell Communications

poster

Wayman, Joseph

Benchmarked methods for transcriptional regulatory network inference from single-cell RNA-seq data

poster

Wells, Daniel

Genetic mechanisms associated with immune remodeling drive response to checkpoint inhibitor therapy

poster

Whalley, Thomas

STACEI—A webtool for the structural analysis of TCR-peptide-MHC interactions

poster

Wong, Harikesh S

Local regulatory T cell density dictates auto-reactive T cell signal integration and fate

poster

Wu, Chong

Heterogeneity of intratumoral myeloid contexture is associated with prognosis of hepatocellular carcinoma

poster

Wu, Yusheng

Cell innate immune response induced by disturbance of RNA splicing

poster

Youn, Ahrim

Aging signatures of immune system in mice and their correlation with human

poster

Yu, Jiyang

NetBID, a novel systems biology approach, identifies Hippo signaling as a “hidden” driver selectively programming CD8α+ dendritic cell activity

poster

Zhang, Tongli

Integrating mathematical modeling and computational genomics reveals design features of a gene regulatory network controlling activated B cell dynamics

talk

Zhang, Xu Hannah

p38β coordinates stimulatory receptor CD28 and homeostatic cytokine CD127 responses in CTCL

poster

Zhou, Wen

Single cell analysis of mouse early thymic progenitor development and heterogeneity

poster

Zhou, Xu

Macrophage-fibroblast cell circuitry in tissue homeostasis and inflammation

talk

Zhu, Yangyang

The E3 ligase VHL promotes the differentiation of follicular helper T cells through glycolytic-epigenetic pathways

poster