Single Cell Analyses
November 8 - 11,, 2017

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.

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

Albergante, Luca

Single cell transcriptional dynamics reconstruction via manifold learning with principal graphs

poster

Ariss, Majd M

Molecular characterization of dedifferentiated rbf wts double-mutant cells

poster

Bageritz, Josephine

Single-cell transcriptome analysis to unravel intestinal stem/progenitor cell diversity in Drosophila

poster

Bolduc, Nathalie

High-throughput single-cell transcriptomics with SMART-Seq® technology

poster

Bonaguidi, Michael A

Quiescence and cellular aging regulate neural stem cell homeostasis

flash talk / poster

Boyden, Edward

Optical tools for analyzing and repairing complex biological systems

talk

Brody, Yehuda

Quantification of somatic mutations at single cell cycle resolution by ‘lineage sequencing’

talk

Chakraborty, Sayantan

A platform design for long-term high-resolution imaging of T lymphocyte-APC interactions in health and aging

poster

Chen, Ann

Using area under the Profile of Shannon Difference to detect clonal heterogeneity differences for single cell data

flash talk / poster

Chen, Chun-Liang

Castration resistance transcriptomic systems in prostate cancer revealed by single-cell RNA-seq

poster

Cohen, Efrat

Gene expression correlates with the number of herpes viral genomes initiating infection in single cells

poster

Daley, Timothy P

The scABC package for the unsupervised clustering of scATAC-seq data

poster

Das, Ankita

High throughput single cell T-cell receptor profiling by SMART technology

poster

DeBerg, Hannah A

Single-cell RNA-seq reveals expanded clones of islet antigen-reactive CD4+ T cells in peripheral blood of subjects with type 1 diabetes

flash talk / poster

Delaunay, Sylvain S

Differential expression of EMT drivers during embryogenensis

poster

DeSoysa, Tarja Y

Single cell RNA-sequencing reveals differentiation defects in distinct second heart field progenitors upon global loss of Hand2 

poster

Dey, Siddharth S

Separating de novo from maintenance DNA methylation using strand-specific single-cell methylomics in preimplantation mouse embryos

flash talk / poster

Dolbniak, Marzena K

Consequences of heterogeneity and regulatory feedbacks for cell population dynamics

talk

Dong, Xiao

Characterizing the landscape of somatic mutations in normal aging human tissues using a novel single-cell whole-genome sequencing approach

poster

Furtado, Manohar

A single molecule detection syxtem for multi-omic detection and analysis of small number of  cells

talk

Gallant, Caroline J

Measuring the cellular proteome at single cell resolution

talk

Gao, Shouguo

Single-cell RNA-Seq reveals the differentiation hierarchy of normal human bone marrow and heterogeneous transcriptome of patients with MDS

poster

Garg, Salil

A microfluidic platform for high-throughput micro-RNA profiling of single cells

talk

Gebhart, Steve

The CellRaft AIR System—Automated imaging, sorting and isolation of single cells

poster

George, Joshy

A computational method to aid in the design and analysis of single cell RNA-seq experiments

poster

Glass, David R

Comprehensive and multiplexed cell surface molecular profiling of human B cells reveals broad heterogeneity within previously defined compartments

talk

Guan, Shengxi

A highly efficient and reliable transcriptome profiling method for single-cell or low input RNA

flash talk / poster

Guillemin, Anissa

Drugs modulating stochastic gene expression affect the erythroid differentiation process

flash talk / poster

Hahn, Klaus

Building proteins to peek and poke at GTPase circuits in living cells

talk

Hayward, Lawrence

Transcriptome heterogeneity in low-passage myogenic cells from individuals with facioscapulohumeral muscular dystrophy

poster

Ji, Lu

Noninvasive cellular monitoring by intergrative single-cell and cell-free plasma RNA transcriptomics analysis

poster

Kaemmer, Stefan B

Multiparametric high spatial and temporal resolution AFM imaging for dynamics from individual molecules to single living cells

talk

Kannan, Sreeram

UNCURL—Prior-knowledge and sampling-aware preprocessing improves inference in single-cell RNA-Seq

poster

Katoh, Hiroto

Single cell analysis for the human gastric cancer environments

poster

Keown, Christopher L

Analysis of single cell DNA methylomes identifies human and mouse cortical neuron subtypes and regulatory elements

poster

Kim, Junil

Bimodality-based top-down clustering of single-cell RNA sequencing data reveals hierarchical structure of the cell type

poster

Kim, Nayoung

Analysis of alternative polyadenylation at single cell resolution reveals cell-type specific regulations in breast cancer

poster

Kim, Soo Hyeon

Highly efficient compartmentalization of multiple single cells using addressable electroactive microwell array

flash talk / poster

Kim, Tae K

Patch-seq—A combinatorial approach to obtain multimodal data from a single neuron in mouse brain

poster

Kleinberg, Bill

Using single-cell Westerns to validate single-cell RNA-seq data

poster

Ko, Kyung dae

Computational meta analysis to understand the cell identities and the gene regulations in quiescent and activated mouse muscle satellite cells

poster

Ko, Melissa E

FLOWMAPR—A graph-based visualization tool for single-cell omics data across time

talk

Krause, Diane

Single cell analysis to dissect the megakaryocyte-erythroid fate decision—Role of cell cycle regulation

talk

Kumar, Namit

Multiplexed quantification of the proteome and transcriptome at a single-cell resolution for identifying novel immuno-oncology targets

flash talk / poster

Kumar, Parveen

Understanding the process of cell differentiation in iPSCs using single-cell RNA sequencing

flash talk / poster

Kuritz, Karsten

Reconstructing dynamic processes from high dimensional snapshot data

poster

La Manno, Gioele

Differentiation and specialization of cell types in the brain—Characterization of a complex dynamical system

talk

Lansdorp, Peter

Selective gene amplification in cultured organoid cells

poster

Lee, Young Seek

Identification ERBB pathway activated cells in triple negative breast cancer

poster

Lin, Zhixiang

Integrative clustering of single-cell epigenomics and transcriptomics data

flash talk / poster

Lu, Shao-Ju (Ryan)

Quantitative single cell analysis of c-Jun/AP-1 for clinical studies

flash talk / poster

Mahmud, Ousman

A systematic comparison of single-cell exome variant callers

poster

Maitra, Malosree

Single-nucleus RNA-seq for measuring altered transcription in the depressed brain

poster

Morrison, Jason A

Collective cell migration—A single cell interrogation

talk

Nomura, Seitaro

Single-cell analysis reveals the coordinated molecular and morphological dynamics of cardiomyocytes in heart failure

poster

Norman, Thomas

Finding and interpreting genetic interactions using CRISPR screens

talk

Ojha, Krishna

Single cell analysis of membrane fluidity and cellular respiration

poster

Orozco, Luz D

Single-cell RNAseq of intestinal T-cells

poster

Pan, Xinghua

Bisulfite-independent analysis of CpG island methylation enables genome-scale stratification of single cells

flash talk / poster

Paul, Anirban

Transcriptional architecture of synaptic communication delineates cortical GABAergic neuron identity

flash talk / poster

Pavlicev, Mihaela

Potential of the cell type to react: its role in cell heterogeneity and cell type evolution

talk

Peng, Tao

SOMSC—Self-organization-map for high-dimensional single-cell data of cellular states and their transitions

poster

Periwal, Vipul

Generative model for single-cell RNA-seq data

poster

Pinello, Luca

Ariadne—Unsupervised reconstruction of branching trajectories and automatic detection of cell fate genes from single cell transcriptomic or accessibility data

flash talk / poster

Pott, Sebastian

Chromatin accessibility and DNA methylation in single cells

talk

Qiu, Xiaojie

Learning causal gene regulatory networks from single-cell RNA-seq data

flash talk / poster

Ranade, Sanjeev

Understanding the transcriptional mechanism underlying endothelial to mesenchymal transition (EndMT) in heart valve development

poster

Ray, Louis A

Single cell monitoring of unique fluorescent signal changes during antibiotic action

poster

Reed, Jason

Ultrahigh-resolution mapping of DNA sequence variations in small samples and single cells

flash talk / poster

Rosenfeld, Jeffrey A

Single-cell RNA sequencing in sperm from fathers of autistic children

talk

Ryvkin, Paul

Single cell transcriptomics for characterization of complex systems and biomarker detection

poster

Sabri, Shan

Reconstructing reprogramming dynamics using high-throughput single-cell transcriptomes

talk

Salomonis, Nathan

Detection and quantification of multipotent mixed-lineage progenitors from single-cell RNA-Seq

poster

Sato, Masahiko

Characterization of mammalian cultured cell lines using a novel single-cell lineage tracking analysis

poster

Schauder, David M

Single-cell RNA sequencing unveils a unique IL-10-producing T follicular helper subset that sustains humoral immunity during chronic viral infection

poster

Shao, Diane D

Identifying genetic drivers of malignant peripheral nerve sheath tumors by single cell sequencing

poster

Slavov, Nikolai

Mass-spectrometry of single mammalian cells quantifies proteome heterogeneity during cell differentiation

talk

Smith, Rosanna C

Nanog fluctuations in embryonic stem cells highlight the problem of measurement in cell biology

talk

Song, Yan

Complexity and dynamics of alternative splicing in single cells

talk

Souaiaia, Tade

Single cell electrophysiology and transcript profiling yields insight into the etiology of temporal lobe epilepsy

talk

Specht, Harrison M

Exploring cell division dynamics across single cell proteomes

poster

Streets, Aaron

Imaging and sequencing single cells

flash talk / poster

Su-Feher, Linda

Inhibitory interneuron lineage specification in the basal ganglia

poster

Sullivan, Alessandra M.

Massively parallel quantification of DNA elements in intact single cells

talk

Thaker, Vidhu V

Single cell sequencing to obtain molecular signatures of neurons of the paraventricular nucleus of the hypothalamus (PVH)

poster

Tomoiaga, Delia

Single-cell RNA sequencing in sperm from fathers of autistic children

poster

Valihrach, Lukas

The added value of traditional bulk sample measurements in single cell RT-qPCR experiments

poster

Van der Borght, Koen

From patients to single cell analysis—Clinical application of mass cytometry

flash talk / poster

Vargo, Alexander H

Marker selection—Adapting methods from 1-bit compressed sensing and mutual information

poster

Vladoiu, Maria C

Identifying cell specific cerebellar gene expression signatures during neuronal development

poster

Wagner, Gunter

Cell types, what they are and what not?

talk

Walker, Logan

Custom approach to de-noise transcriptome data from ultralow input RNA-Seq studies

poster

Watanabe, Takashi

A single-cell cloning-based functional screening pipeline enables to isolate broadly reactive antibodies against Influenza viruses

poster

Wu, Ting (C.-ting)

Imaging the genome in situ

talk

Yen, Hsueh-Chi

GPS—A high-throughput technology for measuring protein stability at single-cell resolution

talk

Zamanighomi, Mahdi

Unsupervised clustering and epigenetic classification of single cells

poster

Zappia, Luke

Simulation and analysis tools for single-cell RNA sequencing data

poster

Zhang, Chi

Construction of cell type specific gene co-regulation signatures based on single cell transcriptomics data

poster

Zhong, John

Single-cell molecular analysis reveals a relapse pathway of glioblastoma multiforme

poster

Zhou, Weiqiang

Analysis and prediction of single-cell functional genomic data

poster

Zhu, Qin

Transcriptome dynamics during embryonic hematopoiesis at single-cell resolution

flash talk / poster

Zinzen, Robert P

The Drosophila embryo at single-cell transcriptome resolution

talk