Fetal liver hematopoietic stem cell niches associate with portal vessels

JA Khan, A Mendelson, Y Kunisaki, A Birbrair, Y Kou… - Science, 2016 - science.org
Whereas the cellular basis of the hematopoietic stem cell (HSC) niche in the bone marrow
has been characterized, the nature of the fetal liver niche is not yet elucidated. We show that …

Gene set knowledge discovery with Enrichr

Z Xie, A Bailey, MV Kuleshov, DJB Clarke… - Current …, 2021 - Wiley Online Library
Profiling samples from patients, tissues, and cells with genomics, transcriptomics,
epigenomics, proteomics, and metabolomics ultimately produces lists of genes and proteins …

Unifying immunology with informatics and multiscale biology

BA Kidd, LA Peters, EE Schadt, JT Dudley - Nature immunology, 2014 - nature.com
The immune system is a highly complex and dynamic system. Historically, the most common
scientific and clinical practice has been to evaluate its individual components. This kind of …

Synaptic, transcriptional and chromatin genes disrupted in autism

S De Rubeis, X He, AP Goldberg, CS Poultney… - Nature, 2014 - nature.com
The genetic architecture of autism spectrum disorder involves the interplay of common and
rare variants and their impact on hundreds of genes. Using exome sequencing, here we …

NetworkAnalyst-integrative approaches for protein–protein interaction network analysis and visual exploration

J Xia, MJ Benner, REW Hancock - Nucleic acids research, 2014 - academic.oup.com
Biological network analysis is a powerful approach to gain systems-level understanding of
patterns of gene expression in different cell types, disease states and other biological …

LINCS Canvas Browser: interactive web app to query, browse and interrogate LINCS L1000 gene expression signatures

Q Duan, C Flynn, M Niepel, M Hafner… - Nucleic acids …, 2014 - academic.oup.com
Abstract For the Library of Integrated Network-based Cellular Signatures (LINCS) project
many gene expression signatures using the L1000 technology have been produced. The …

Polycomb repressive complex 2 (PRC2) silences genes responsible for neurodegeneration

M von Schimmelmann, PA Feinberg, JM Sullivan… - Nature …, 2016 - nature.com
Normal brain function depends on the interaction between highly specialized neurons that
operate within anatomically and functionally distinct brain regions. Neuronal specification is …

[HTML][HTML] Modeling familial cancer with induced pluripotent stem cells

DF Lee, J Su, HS Kim, B Chang, D Papatsenko, R Zhao… - Cell, 2015 - cell.com
In vitro modeling of human disease has recently become feasible with induced pluripotent
stem cell (iPSC) technology. Here, we established patient-derived iPSCs from a Li-Fraumeni …

Lean Big Data integration in systems biology and systems pharmacology

A Ma'ayan, AD Rouillard, NR Clark, Z Wang… - Trends in …, 2014 - cell.com
Data sets from recent large-scale projects can be integrated into one unified puzzle that can
provide new insights into how drugs and genetic perturbations applied to human cells are …

Zfp281 coordinates opposing functions of Tet1 and Tet2 in pluripotent states

M Fidalgo, X Huang, D Guallar, C Sanchez-Priego… - Cell stem cell, 2016 - cell.com
Pluripotency is increasingly recognized as a spectrum of cell states defined by their growth
conditions. Although naive and primed pluripotency states have been characterized …