World's Best Scientists 2026 revealed!

D-Index & Metrics

Computer Science

D-Index
57
Citations
19363
World Ranking
3752
National Ranking
1792

Overview

Ziv Bar-Joseph is affiliated with Carnegie Mellon University in the United States. Their research primarily focuses on areas within Biochemistry, Genetics, and Molecular Biology, with a significant emphasis on Molecular Biology as a subfield. Additional subfields include Immunology, Cancer Research, Biophysics, and Artificial Intelligence.

Their scientific output includes substantial work in topics such as Single-cell and spatial transcriptomics, Gene Regulatory Network Analysis, Gene expression and cancer classification, Bioinformatics and Genomic Networks, Cell Image Analysis Techniques, Extracellular vesicles in disease, and Immune cells in cancer.

Frequent collaborators include Jun Ding, Euxhen Hasanaj, Ana L. Mora, Dongshunyi Li, and Amir Alavi.

The venues where this scientist regularly publishes include:

  • bioRxiv (Cold Spring Harbor Laboratory)
  • Bioinformatics
  • Genome biology
  • Genome Research
  • Cell Reports Methods

Some recent publications by Ziv Bar-Joseph include:

  • Integrated multi-omics framework of the plant response to jasmonic acid, 2020, Nature Plants
  • Temporal modelling using single-cell transcriptomics, 2022, Nature Reviews Genetics
  • GCNG: graph convolutional networks for inferring gene interaction from spatial transcriptomics data, 2020, Genome biology
  • Reconstructed Single-Cell Fate Trajectories Define Lineage Plasticity Windows during Differentiation of Human PSC-Derived Distal Lung Progenitors, 2020, Cell stem cell
  • Advances and prospects for the Human BioMolecular Atlas Program (HuBMAP), 2023, Nature Cell Biology

Best Publications

  • Transcriptional Regulatory Networks in Saccharomyces cerevisiae

    Tong Ihn Lee;Nicola J. Rinaldi;François Robert;Duncan T. Odom

  • STEM: a tool for the analysis of short time series gene expression data

    Jason Ernst;Ziv Bar-Joseph

  • Computational discovery of gene modules and regulatory networks.

    Ziv Bar-Joseph;Georg K Gerber;Tong Ihn Lee;Nicola J Rinaldi

  • Mapping the Human Body at Cellular Resolution -- The NIH Common Fund Human BioMolecular Atlas Program

    Michael P Snyder;Shin Lin;Amanda Posgai;Mark Atkinson

  • Fast optimal leaf ordering for hierarchical clustering.

    Ziv Bar-Joseph;David K. Gifford;Tommi S. Jaakkola

  • Analyzing time series gene expression data

    Ziv Bar-Joseph

  • Clustering short time series gene expression data

    Jason Ernst;Gerard J. Nau;Ziv Bar-Joseph

  • Studying and modelling dynamic biological processes using time-series gene expression data

    Ziv Bar-Joseph;Anthony Gitter;Itamar Simon

  • A transcription factor hierarchy defines an environmental stress response network

    Liang Song;Shao-shan Carol Huang;Aaron Wise;Rosa Castanon

  • Evaluation of different biological data and computational classification methods for use in protein interaction prediction

    Yanjun Qi;Ziv Bar-Joseph;Judith Klein-Seetharaman;Judith Klein-Seetharaman

  • Continuous Representations of Time-Series Gene Expression Data

    Ziv Bar-Joseph;Georg K. Gerber;David K. Gifford;Tommi S. Jaakkola

  • Texture mixing and texture movie synthesis using statistical learning

    Z. Bar-Joseph;R. El-Yaniv;D. Lischinski;M. Werman

  • A critical assessment of Mus musculus gene function prediction using integrated genomic evidence.

    Lourdes Pena-Castillo;Murat Tasan;Chad L Myers;Hyunju Lee

  • A new approach to analyzing gene expression time series data

    Ziv Bar-Joseph;Georg Gerber;David K. Gifford;Tommi S. Jaakkola

  • Random forest similarity for protein-protein interaction prediction from multiple sources.

    Yanjun Qi;Judith Klein-Seetharaman;Ziv Bar-Joseph

  • Reconstructing dynamic regulatory maps

    Jason Ernst;Oded Vainas;Christopher T Harbison;Itamar Simon

  • Deep learning for inferring gene relationships from single-cell expression data.

    Ye Yuan;Ziv Bar-Joseph

  • Integrated multi-omics framework of the plant response to jasmonic acid

    Mark Zander;Mathew G. Lewsey;Mathew G. Lewsey;Natalie M. Clark;Lingling Yin;Lingling Yin

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

    Michael P. Snyder;Shin Lin

  • Using neural networks for reducing the dimensions of single-cell RNA-Seq data

    Chieh Lin;Siddhartha Jain;Hannah Kim;Ziv Bar-Joseph

  • Comparing the continuous representation of time-series expression profiles to identify differentially expressed genes

    Ziv Bar-Joseph;Georg Gerber;Itamar Simon;David K. Gifford

  • A Biological Solution to a Fundamental Distributed Computing Problem

    Yehuda Afek;Noga Alon;Noga Alon;Omer Barad;Eran Hornstein

Frequent Co-Authors

Judith Klein-Seetharaman
Judith Klein-Seetharaman Arizona State University
James S. Hagood
James S. Hagood University of North Carolina at Chapel Hill
Darrell N. Kotton
Darrell N. Kotton Boston University
Amir H. Alavi
Amir H. Alavi University of Pittsburgh
Yanjun Qi
Yanjun Qi University of Virginia
Roni Rosenfeld
Roni Rosenfeld Carnegie Mellon University
Joseph R. Ecker
Joseph R. Ecker Salk Institute for Biological Studies
Joseph R. Nery
Joseph R. Nery Salk Institute for Biological Studies

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