Concept

Transcriptome

Related publications (147)

Quantifying and Localizing the Mitochondrial Proteome Across Five Tissues in A Mouse Population

Johan Auwerx, Jun Yong Kim, Dongryeol Ryu, Evan Graehl Williams, Pooja Jha, Jiayi Lan, Ruedi Aebersold, Moaraj Hasan

We have used SWATH mass spectrometry to quantify 3648 proteins across 76 proteomes collected from genetically diverse BXD mouse strains in two fractions (mitochondria and total cell) from five tissues: liver, quadriceps, heart, brain, and brown adipose (BA ...

AMER SOC BIOCHEMISTRY MOLECULAR BIOLOGY INC2018

Artificial niche microarrays for identifying extrinsic cell-fate determinants

Matthias Lütolf, Samy Gobaa

The complex cellular microenvironment plays an important role in determining cell fate. For example, stem cells located in a microenvironment termed niche integrate a wide variety of extrinsic cues to take distinct fate choices. Capturing this multiple-inp ...

ELSEVIER ACADEMIC PRESS INC2018

Rapid activation of tumor-associated macrophages boosts preexisting tumor immunity

Michele De Palma, Wei Xu

Depletion of immunosuppressive tumor-associated macrophages (TAMs) or reprogramming toward a proinflammatory activation state represent different strategies to therapeutically target this abundant myeloid population. In this study, we report that inhibitio ...

2018

Arylvinylpiperazine Amides, a New Class of Potent Inhibitors Targeting QcrB of Mycobacterium tuberculosis

Stewart Cole, Andrej Benjak, Anthony Vocat, Jérémie Piton, Shi-Yan Caroline Foo, Andréanne Lupien, Raphael Christopher Sommer

New drugs are needed to control the current tuberculosis (TB) pandemic caused by infection with Mycobacterium tuberculosis. We report here on our work with AX-35, an arylvinylpiperazine amide, and four related analogs, which are potent antitubercular agent ...

AMER SOC MICROBIOLOGY2018

A selective ER‐phagy exerts procollagen quality control via a Calnexin‐FAM134B complex

Maurizio Molinari

Autophagy is a cytosolic quality control process that recognizessubstrates through receptor-mediated mechanisms. Procollagens,the most abundant gene products in Metazoa, are synthesized inthe endoplasmic reticulum (ER), and a fraction that fails to attaint ...

2018

Spatial organization of the somatosensory cortex revealed by osmFISH

Gioele La Manno

Global efforts to create a molecular census of the brain using single-cell transcriptomics are producing a large catalog of molecularly defined cell types. However, spatial information is lacking and new methods are needed to map a large number of cell typ ...

2018

ASAP: a web-based platform for the analysis and interactive visualization of single-cell RNA-seq data

Bart Deplancke, Vincent Roland Julien Gardeux, Adrian Shajkofci, Petra Catalina Schwalie

Motivation: Single-cell RNA-sequencing (scRNA-seq) allows whole transcriptome profiling of thousands of individual cells, enabling the molecular exploration of tissues at the cellular level. Such analytical capacity is of great interest to many research gr ...

Oxford University Press2017

Cross-Tissue Identification of Somatic Stem and Progenitor Cells Using a Single-Cell RNA-Sequencing Derived Gene Signature

Bart Deplancke, Paloma Ordonez Moran, Petra Catalina Schwalie

A long-standing question in biology is whether multipotent somatic stem and progenitor cells (SSPCs) feature molecular properties that could guide their system-independent identification. Population-based transcriptomic studies have so far not been able to ...

Wiley2017

The eukaryotic promoter database in its 30th year: focus on non-vertebrate organisms

Giovanna Ambrosini, Philipp Bucher, René Dreos, Rouayda Cavin Perier, Romain Fernand Pietro Groux

We present an update of the Eukaryotic Promoter Database EPD (http://epd.vital-it.ch), more specifically on the EPDnew division, which contains comprehensive organisms-specific transcription start site (TSS) collections automatically derived from next gene ...

2017

Profiling of Single-Cell Transcriptomes

Bart Deplancke, Vincent Roland Julien Gardeux, Antonio Carlos Alves Meireles Filho, Wanze Chen

Complex biological systems are composed of multiple cell types whose transcriptional activity can vary due to differences in cell state, environmental stimulation or intrinsic programs. Conventional bulk analysis methods capture the average transcriptional ...

2017

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