The human body at cellular resolution: the NIH Human Biomolecular Atlas Program

Transcriptome-scale super-resolved imaging in tissues by RNA seqFISH+

(2019) Chee-Huat Linus Eng et al.   NATURE

SABER amplifies FISH: enhanced multiplexed imaging of RNA and DNA in cells and tissues

(2019) Jocelyn Y. Kishi et al.   NATURE METHODS

Immuno-SABER enables highly multiplexed and amplified protein imaging in tissues

(2019) Sinem K. Saka et al.   NATURE BIOTECHNOLOGY

High Spatial Resolution Imaging of Mouse Pancreatic Islets Using Nanospray Desorption Electrospray Ionization Mass Spectrometry

(2018) Ruichuan Yin et al.   ANALYTICAL CHEMISTRY

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

(2018) Laleh Haghverdi et al.   NATURE BIOTECHNOLOGY

Integrating single-cell transcriptomic data across different conditions, technologies, and species

(2018) Andrew Butler et al.   NATURE BIOTECHNOLOGY

CellCycleTRACER accounts for cell cycle and volume in mass cytometry data

(2018) Maria Anna Rapsomaniki et al.   Nature Communications

Compensation of Signal Spillover in Suspension and Imaging Mass Cytometry

(2018) Stéphane Chevrier et al.   Cell Systems

Simultaneous Multiplexed Imaging of mRNA and Proteins with Subcellular Resolution in Breast Cancer Tissue Samples by Mass Cytometry

(2018) Daniel Schulz et al.   Cell Systems

A Single-Cell Atlas of In Vivo Mammalian Chromatin Accessibility

(2018) Darren A. Cusanovich et al.   CELL

Deep Profiling of Mouse Splenic Architecture with CODEX Multiplexed Imaging

(2018) Yury Goltsev et al.   CELL

Next Generation Histology-Directed Imaging Mass Spectrometry Driven by Autofluorescence Microscopy

(2018) Nathan Heath Patterson et al.   ANALYTICAL CHEMISTRY

Identification of spatially associated subpopulations by combining scRNAseq and sequential fluorescence in situ hybridization data

(2018) Qian Zhu et al.   NATURE BIOTECHNOLOGY

Scaling single-cell genomics from phenomenology to mechanism

(2017) Amos Tanay et al.   NATURE

Genetic effects on gene expression across human tissues

(2017) François Aguet et al.   NATURE

Toil enables reproducible, open source, big biomedical data analyses

(2017) John Vivian et al.   NATURE BIOTECHNOLOGY

Ultrasensitive optical imaging with lanthanide lumiphores

(2017) Ukrae Cho et al.   Nature Chemical Biology

histoCAT: analysis of cell phenotypes and interactions in multiplex image cytometry data

(2017) Denis Schapiro et al.   NATURE METHODS

Power analysis of single-cell RNA-sequencing experiments

(2017) Valentine Svensson et al.   NATURE METHODS

An interactive framework for whole-brain maps at cellular resolution

(2017) Daniel Fürth et al.   NATURE NEUROSCIENCE

seqFISH Accurately Detects Transcripts in Single Cells and Reveals Robust Spatial Organization in the Hippocampus

(2017) Sheel Shah et al.   NEURON

The BRAIN Initiative Cell Census Consortium: Lessons Learned toward Generating a Comprehensive Brain Cell Atlas

(2017) Joseph R. Ecker et al.   NEURON

Factors That Influence the Quality of RNA From the Pancreas of Organ Donors

(2017) Tiffany Philips et al.   PANCREAS

Comprehensive single-cell transcriptional profiling of a multicellular organism

(2017) Junyue Cao et al.   SCIENCE

The Human Cell Atlas

(2017) Aviv Regev et al.   eLife

In Situ Transcription Profiling of Single Cells Reveals Spatial Organization of Cells in the Mouse Hippocampus

(2016) Sheel Shah et al.   NEURON

Next-generation technologies for spatial proteomics: Integrating ultra-high speed MALDI-TOF and high mass resolution MALDI FTICR imaging mass spectrometry for protein analysis

(2016) Jeffrey M. Spraggins et al.   PROTEOMICS

Principles of metadata organization at the ENCODE data coordination center

(2016) Eurie L. Hong et al.   Database-The Journal of Biological Databases and Curation

The FAIR Guiding Principles for scientific data management and stewardship

(2016) Mark D. Wilkinson et al.   Scientific Data

Single-cell chromatin accessibility reveals principles of regulatory variation

(2015) Jason D. Buenrostro et al.   NATURE

Image fusion of mass spectrometry and microscopy: a multimodality paradigm for molecular tissue mapping

(2015) Raf Van de Plas et al.   NATURE METHODS

Single-cell epigenomics: techniques and emerging applications

(2015) Omer Schwartzman et al.   NATURE REVIEWS GENETICS

Expression Atlas update—an integrated database of gene and protein expression in humans, animals and plants

(2015) Robert Petryszak et al.   NUCLEIC ACIDS RESEARCH

Multiplex single-cell profiling of chromatin accessibility by combinatorial cellular indexing

(2015) D. A. Cusanovich et al.   SCIENCE

Interactive Human Protein Atlas Launches

(2015)   Cancer Discovery

Single-cell in situ RNA profiling by sequential hybridization

(2014) Eric Lubeck et al.   NATURE METHODS

Analysis of Tissue Specimens by Matrix-Assisted Laser Desorption/Ionization Imaging Mass Spectrometry in Biological and Clinical Research

(2013) Jeremy L. Norris et al.   CHEMICAL REVIEWS

The Juvenile Diabetes Research Foundation Network for Pancreatic Organ Donors with Diabetes (nPOD) Program: goals, operational model and emerging findings

(2013) Alberto Pugliese et al.   PEDIATRIC DIABETES

Network for Pancreatic Organ Donors with Diabetes (nPOD): developing a tissue biobank for type 1 diabetes

(2012) Martha Campbell-Thompson et al.   DIABETES-METABOLISM RESEARCH AND REVIEWS

The Cardiac Atlas Project—an imaging database for computational modeling and statistical atlases of the heart

(2011) Carissa G. Fonseca et al.   BIOINFORMATICS