Plasticity of Epididymal Adipose Tissue in Response to Diet-Induced Obesity at Single-Nucleus Resolution

Trajectory-based differential expression analysis for single-cell sequencing data

(2020) Koen Van den Berge et al.   Nature Communications

Two distinct interstitial macrophage populations coexist across tissues in specific subtissular niches

(2019) Svetoslav Chakarov et al.   SCIENCE

Heterogeneity within classical cell types is the rule: lessons from hippocampal pyramidal neurons

(2019) Mark S. Cembrowski et al.   NATURE REVIEWS NEUROSCIENCE

Osteogenesis depends on commissioning of a network of stem cell transcription factors that act as repressors of adipogenesis

(2019) Alexander Rauch et al.   NATURE GENETICS

Transcriptional and Epigenomic Regulation of Adipogenesis

(2019) Ji-Eun Lee et al.   MOLECULAR AND CELLULAR BIOLOGY

Identification of a mesenchymal progenitor cell hierarchy in adipose tissue

(2019) David Merrick et al.   SCIENCE

Identification of Metabolically Distinct Adipocyte Progenitor Cells in Human Adipose Tissues

(2019) Arthe Raajendiran et al.   Cell Reports

Adipocyte ACLY Facilitates Dietary Carbohydrate Handling to Maintain Metabolic Homeostasis in Females

(2019) Sully Fernandez et al.   Cell Reports

Single-Cell RNA-Sequencing and Metabolomics Analyses Reveal the Contribution of Perivascular Adipose Tissue Stem Cells to Vascular Remodeling

(2019) Wenduo Gu et al.   ARTERIOSCLEROSIS THROMBOSIS AND VASCULAR BIOLOGY

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

Lipid-Associated Macrophages Control Metabolic Homeostasis in a Trem2-Dependent Manner

(2019) Diego Adhemar Jaitin et al.   CELL

Adipose Tissue-Resident Immune Cells in Obesity and Type 2 Diabetes

(2019) Jingli Lu et al.   Frontiers in Immunology

Distinct immunocyte-promoting and adipocyte-generating stromal components coordinate adipose tissue immune and metabolic tenors

(2019) Raul German Spallanzani et al.   Science Immunology

Altered adipose tissue and adipocyte function in the pathogenesis of metabolic syndrome

(2019) C. Ronald Kahn et al.   JOURNAL OF CLINICAL INVESTIGATION

Contribution of adipogenesis to healthy adipose tissue expansion in obesity

(2019) Lavanya Vishvanath et al.   JOURNAL OF CLINICAL INVESTIGATION

Low- and high-thermogenic brown adipocyte subpopulations coexist in murine adipose tissue

(2019) Anying Song et al.   JOURNAL OF CLINICAL INVESTIGATION

Dermal adipose tissue has high plasticity and undergoes reversible dedifferentiation in mice

(2019) Zhuzhen Zhang et al.   JOURNAL OF CLINICAL INVESTIGATION

Fast, sensitive and accurate integration of single-cell data with Harmony

(2019) Ilya Korsunsky et al.   NATURE METHODS

Visualizing structure and transitions in high-dimensional biological data

(2019) Kevin R. Moon et al.   NATURE BIOTECHNOLOGY

Slingshot: cell lineage and pseudotime inference for single-cell transcriptomics

(2018) Kelly Street et al.   BMC GENOMICS

Deconstructing Adipogenesis Induced by β3-Adrenergic Receptor Activation with Single-Cell Expression Profiling

(2018) Rayanne B. Burl et al.   Cell Metabolism

Batch effects in single-cell RNA-sequencing data are corrected by matching mutual nearest neighbors

(2018) Laleh Haghverdi et al.   NATURE BIOTECHNOLOGY

Distinct macrophage populations direct inflammatory versus physiological changes in adipose tissue

(2018) David A. Hill et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

De novo adipocyte differentiation from Pdgfrβ+ preadipocytes protects against pathologic visceral adipose expansion in obesity

(2018) Mengle Shao et al.   Nature Communications

zUMIs - A fast and flexible pipeline to process RNA sequencing data with UMIs

(2018) Swati Parekh et al.   GigaScience

RNA velocity of single cells

(2018) Gioele La Manno et al.   NATURE

A stromal cell population that inhibits adipogenesis in mammalian fat depots

(2018) Petra C. Schwalie et al.   NATURE

Flow Cytometry of Mouse and Human Adipocytes for the Analysis of Browning and Cellular Heterogeneity

(2018) Carolina E. Hagberg et al.   Cell Reports

Identification of functionally distinct fibro-inflammatory and adipogenic stromal subpopulations in visceral adipose tissue of adult mice

(2018) Chelsea Hepler et al.   eLife

Temporal immmunometabolic profiling of adipose tissue in HFD-induced obesity: manifestations of mast cells in fibrosis and senescence

(2018) Durgesh Kumar et al.   INTERNATIONAL JOURNAL OF OBESITY

Single-cell transcriptomics of 20 mouse organs creates a Tabula Muris

(2018) et al.   NATURE

A test metric for assessing single-cell RNA-seq batch correction

(2018) Maren Büttner et al.   NATURE METHODS

Sox9-Meis1 Inactivation Is Required for Adipogenesis, Advancing Pref-1+ to PDGFRα+ Cells

(2018) Olga Gulyaeva et al.   Cell Reports

Proteoglycan 4 deficiency protects against glucose intolerance and fatty liver disease in diet-induced obese mice

(2018) Joya E. Nahon et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR BASIS OF DISEASE

A history of obesity leaves an inflammatory fingerprint in liver and adipose tissue

(2017) I P Fischer et al.   INTERNATIONAL JOURNAL OF OBESITY

Neuropeptide FF increases M2 activation and self-renewal of adipose tissue macrophages

(2017) Syed F. Hassnain Waqas et al.   JOURNAL OF CLINICAL INVESTIGATION

Comparative Analysis of Single-Cell RNA Sequencing Methods

(2017) Christoph Ziegenhain et al.   MOLECULAR CELL

Reversed graph embedding resolves complex single-cell trajectories

(2017) Xiaojie Qiu et al.   NATURE METHODS

WikiPathways: a multifaceted pathway database bridging metabolomics to other omics research

(2017) Denise N Slenter et al.   NUCLEIC ACIDS RESEARCH

Massively parallel digital transcriptional profiling of single cells

(2017) Grace X. Y. Zheng et al.   Nature Communications

Single cell transcriptomics suggest that human adipocyte progenitor cells constitute a homogeneous cell population

(2017) Juan R. Acosta et al.   Stem Cell Research & Therapy

Simultaneous Transcriptional and Epigenomic Profiling from Specific Cell Types within Heterogeneous Tissues In Vivo

(2017) Hyun Cheol Roh et al.   Cell Reports

Adipocyte lipid synthesis coupled to neuronal control of thermogenic programming

(2017) Adilson Guilherme et al.   Molecular Metabolism

Metabolic heterogeneity of activated beige/brite adipocytes in inguinal adipose tissue

(2017) Yun-Hee Lee et al.   Scientific Reports

Trim28 Haploinsufficiency Triggers Bi-stable Epigenetic Obesity

(2016) Kevin Dalgaard et al.   CELL

Pdgfrβ+ Mural Preadipocytes Contribute to Adipocyte Hyperplasia Induced by High-Fat-Diet Feeding and Prolonged Cold Exposure in Adult Mice

(2016) Lavanya Vishvanath et al.   Cell Metabolism

TSCAN: Pseudo-time reconstruction and evaluation in single-cell RNA-seq analysis

(2016) Zhicheng Ji et al.   NUCLEIC ACIDS RESEARCH

Local proliferation initiates macrophage accumulation in adipose tissue during obesity

(2016) C Zheng et al.   Cell Death & Disease

Osteopontin is a key player for local adipose tissue macrophage proliferation in obesity

(2016) Matteo Tardelli et al.   Molecular Metabolism

Conversion of non-adipogenic fibroblasts into adipocytes by a defined hormone mixture

(2015) Tao Nie et al.   BIOCHEMICAL JOURNAL

destiny: diffusion maps for large-scale single-cell data in R

(2015) Philipp Angerer et al.   BIOINFORMATICS

The limited storage capacity of gonadal adipose tissue directs the development of metabolic disorders in male C57Bl/6J mice

(2015) Lianne van Beek et al.   DIABETOLOGIA

Defining cell types and states with single-cell genomics

(2015) Cole Trapnell   GENOME RESEARCH

Role of MCP-1 on inflammatory processes and metabolic dysfunction following high-fat feedings in the FVB/N strain

(2015) T L Cranford et al.   INTERNATIONAL JOURNAL OF OBESITY

Rapid depot-specific activation of adipocyte precursor cells at the onset of obesity

(2015) Elise Jeffery et al.   NATURE CELL BIOLOGY

limma powers differential expression analyses for RNA-sequencing and microarray studies

(2015) Matthew E. Ritchie et al.   NUCLEIC ACIDS RESEARCH

IGF1 Promotes Adipogenesis by a Lineage Bias of Endogenous Adipose Stem/Progenitor Cells

(2015) Li Hu et al.   STEM CELLS

What We Talk About When We Talk About Fat

(2014) Evan D. Rosen et al.   CELL

Local Proliferation of Macrophages Contributes to Obesity-Associated Adipose Tissue Inflammation

(2014) Shinya U. Amano et al.   Cell Metabolism

Adipocyte morphology and implications for metabolic derangements in acquired obesity

(2014) S Heinonen et al.   INTERNATIONAL JOURNAL OF OBESITY

Obesity Activates a Program of Lysosomal-Dependent Lipid Metabolism in Adipose Tissue Macrophages Independently of Classic Activation

(2013) Xiaoyuan Xu et al.   Cell Metabolism

Tracking adipogenesis during white adipose tissue development, expansion and regeneration

(2013) Qiong A Wang et al.   NATURE MEDICINE

Loss of androgen receptor promotes adipogenesis but suppresses osteogenesis in bone marrow stromal cells

(2013) Chiung-Kuei Huang et al.   Stem Cell Research

De novo lipogenesis in human fat and liver is linked to ChREBP-β and metabolic health

(2013) Leah Eissing et al.   Nature Communications

Time-course microarrays reveal early activation of the immune transcriptome and adipokine dysregulation leads to fibrosis in visceral adipose depots during diet-induced obesity

(2012) Eun-Young Kwon et al.   BMC GENOMICS

PGRN is a Key Adipokine Mediating High Fat Diet-Induced Insulin Resistance and Obesity through IL-6 in Adipose Tissue

(2012) Toshiya Matsubara et al.   Cell Metabolism

Decreased Transcription of ChREBP- /  Isoforms in Abdominal Subcutaneous Adipose Tissue of Obese Adolescents With Prediabetes or Early Type 2 Diabetes: Associations With Insulin Resistance and Hyperglycemia

(2012) R. Kursawe et al.   DIABETES

EGF Receptor (ERBB1) Abundance in Adipose Tissue Is Reduced in Insulin-Resistant and Type 2 Diabetic Women

(2012) Carlyle Rogers et al.   JOURNAL OF CLINICAL ENDOCRINOLOGY & METABOLISM

clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters

(2012) Guangchuang Yu et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

Adipose tissue remodeling and obesity

(2011) Kai Sun et al.   JOURNAL OF CLINICAL INVESTIGATION

Forming functional fat: a growing understanding of adipocyte differentiation

(2011) Ana G. Cristancho et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Transcriptional networks and chromatin remodeling controlling adipogenesis

(2011) Rasmus Siersbæk et al.   TRENDS IN ENDOCRINOLOGY AND METABOLISM

A Combined Transcriptomics and Lipidomics Analysis of Subcutaneous, Epididymal and Mesenteric Adipose Tissue Reveals Marked Functional Differences

(2010) Robert Caesar et al.   PLoS One

Pref-1 Regulates Mesenchymal Cell Commitment and Differentiation through Sox9

(2009) Yuhui Wang et al.   Cell Metabolism

The Orphan Nuclear Receptor RORα Restrains Adipocyte Differentiation through a Reduction of C/EBPβ Activity and Perilipin Gene Expression

(2009) Nobumichi Ohoka et al.   MOLECULAR ENDOCRINOLOGY

Depot-Specific Differences in Adipogenic Progenitor Abundance and Proliferative Response to High-Fat Diet

(2009) Aaron W.B. Joe et al.   STEM CELLS

T-lymphocyte Infiltration in Visceral Adipose Tissue

(2008) Ulrich Kintscher et al.   ARTERIOSCLEROSIS THROMBOSIS AND VASCULAR BIOLOGY

CC Chemokine and CC Chemokine Receptor Profiles in Visceral and Subcutaneous Adipose Tissue Are Altered in Human Obesity

(2008) Joakim Huber et al.   JOURNAL OF CLINICAL ENDOCRINOLOGY & METABOLISM

Dead adipocytes, detected as crown-like structures, are prevalent in visceral fat depots of genetically obese mice

(2008) I. Murano et al.   JOURNAL OF LIPID RESEARCH

Macrophage-Secreted Factors Promote a Profibrotic Phenotype in Human Preadipocytes

(2008) Mayoura Keophiphath et al.   MOLECULAR ENDOCRINOLOGY

Adipocyte dysfunctions linking obesity to insulin resistance and type 2 diabetes

(2008) Adilson Guilherme et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

White Fat Progenitor Cells Reside in the Adipose Vasculature

(2008) W. Tang et al.   SCIENCE

Osteopontin Expression in Human and Murine Obesity: Extensive Local Up-Regulation in Adipose Tissue but Minimal Systemic Alterations

(2007) Florian W. Kiefer et al.   ENDOCRINOLOGY