Unsupervised Trajectory Analysis of Single-Cell RNA-Seq and Imaging Data Reveals Alternative Tuft Cell Origins in the Gut

Cell Systems

Volumn 6, Issue 1, 2018, Pages 37-51.e9

  Herring, Charles A ^a,b   Banerjee, Amrita ^a,b   McKinley, Eliot T ^a   Simmons, Alan J ^a,b   Ping, Jie ^b   Roland, Joseph T ^a   Franklin, Jeffrey L ^a,b   Liu, Qi ^b   Gerdes, Michael J ^c   Coffey, Robert J ^a,b,d   Lau, Ken S ^a,b  

^a VANDERBILT UNIVERSITY MEDICAL CENTER   (United States)

^b VANDERBILT UNIVERSITY SCHOOL OF MEDICINE   (United States)

^c GE GLOBAL RESEARCH   (United States)

^d VETERANS AFFAIRS MEDICAL CENTER   (United States)

Author keywords

cell state transitions; differentiation hierachies; graph theory; intestine and colon; mass cytometry; pseudo time analysis; single cell biology; single cell RNA seq; trajectories; tuft cells

Indexed keywords

ADENOSINE TRIPHOSPHATASE (POTASSIUM SODIUM); ATONAL HOMOLOG 1 PROTEIN; BETA CATENIN; CD24 ANTIGEN; CD27 ANTIGEN; CD3 ANTIGEN; CD4 ANTIGEN; CD44V6 ANTIGEN; CD5 ANTIGEN; CD69 ANTIGEN; CD8 ANTIGEN; CHROMOGRANIN A; CYTOKERATIN 20; HERMES ANTIGEN; INTERFERON CONSENSUS SEQUENCE BINDING PROTEIN; INTERLEUKIN 2 RECEPTOR ALPHA; INTERLEUKIN 7 RECEPTOR; KI 67 ANTIGEN; L SELECTIN; LYSOZYME; MUCIN 2; S6 KINASE; STEM CELL FACTOR RECEPTOR; SURVIVIN; T LYMPHOCYTE RECEPTOR BETA CHAIN; THY 1 MEMBRANE GLYCOPROTEIN; TRANSCRIPTION FACTOR; TRANSCRIPTION FACTOR GATA 1; TRANSCRIPTION FACTOR SOX9; UNCLASSIFIED DRUG; VILLIN; ATOH1 PROTEIN, HUMAN; BASIC HELIX LOOP HELIX TRANSCRIPTION FACTOR; RNA;

ADULT; ALGORITHM; ANIMAL CELL; ANIMAL EXPERIMENT; ANIMAL TISSUE; ARTICLE; BASOPHIL; CD4+ T LYMPHOCYTE; CD8+ T LYMPHOCYTE; CELL DIFFERENTIATION; CELL MATURATION; COLON; CONTROLLED STUDY; CYTOTOXIC T LYMPHOCYTE; EOSINOPHIL; ERYTHROCYTE; GAMMA DELTA T LYMPHOCYTE; GRANULOCYTE; HELPER CELL; HUMAN; HUMAN CELL; IMAGE QUALITY; IMMUNOFLUORESCENCE; INTERMETHOD COMPARISON; INTESTINE CELL; LYMPHOCYTE DIFFERENTIATION; MALE; MASS CYTOMETRY; MEGAKARYOCYTE; MONOCYTE; MOUSE; NONHUMAN; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN EXPRESSION; QUANTITATIVE ANALYSIS; RELIABILITY; REPRODUCIBILITY; RNA SEQUENCE; SECRETORY CELL; SECRETORY PATHWAY; SINGLE CELL ANALYSIS; SMALL INTESTINE; THYMOCYTE; TUFT CELL; VALIDATION PROCESS; ANIMAL; C57BL MOUSE; CELL LINEAGE; GENETICS; IMAGE CYTOMETRY; INTESTINE MUCOSA; K-562 CELL LINE; METABOLISM; PROCEDURES; SEQUENCE ANALYSIS;

ALGORITHMS; ANIMALS; BASIC HELIX-LOOP-HELIX TRANSCRIPTION FACTORS; CELL DIFFERENTIATION; CELL LINEAGE; HUMANS; IMAGE CYTOMETRY; INTESTINAL MUCOSA; INTESTINE, SMALL; K562 CELLS; MICE; MICE, INBRED C57BL; RNA; SEQUENCE ANALYSIS, RNA; SINGLE-CELL ANALYSIS;

EID: 85033787094     PISSN: 24054712     EISSN: 24054720     Source Type: Journal    
DOI: 10.1016/j.cels.2017.10.012     Document Type: Article

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