Liver Spatial Omics

Project Information

LSO

Grant agreement ID: 768956

DOI 10.3030/768956

Project closed

EC signature date 22 January 2018

Start date 1 November 2018

End date 31 October 2023

Funded under

• EXCELLENT SCIENCE - European Research Council (ERC)

Total cost € 2 000 000,00

EU contribution € 2 000 000,00

Coordinated by

WEIZMANN INSTITUTE OF SCIENCE
Israel

CORDIS provides links to public deliverables and publications of HORIZON projects.

Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Publications

Peer reviewed articles (18)

Space-time logic of liver gene expression at sub-lobular scale

Author(s): Colas Droin, Jakob El Kholtei, Keren Bahar Halpern, Clémence Hurni, Milena Rozenberg, Sapir Muvkadi, Shalev Itzkovitz, Felix Naef
Published in: Nature Metabolism, Issue 3/1, 2021, Page(s) 43-58, ISSN 2522-5812
Publisher: Nature Metabolism
DOI: 10.1038/s42255-020-00323-1

Clump sequencing exposes the spatial expression programs of intestinal secretory cells

Author(s): Rita Manco The Weizmann Institute of Science, Department of Molecular Cell Biology Inna Averbukh The Weizmann Institute of Science, Department of Molecular Cell Biology Ziv Porat The Weizmann Institute of Science, Life Sciences Core Facilities Keren Bahar Halpern The Weizmann Institute of Science, Department of Molecular Cell Biology Ido Amit The Weizmann Institute of Science, Department of Sy
Published in: Nature communications, 2021, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-021-23245-2

Distal fecal wash host transcriptomics identifies inflammation throughout the colon and terminal ileum

Author(s): Stav Dan The Weizmann Institute of Science, Department of Molecular Cell Biology Bella Ungar Tel Aviv University Shani Ben-Moshe The Weizmann Institute of Science, Department of Molecular Cell Biology Keren Bahar Halpern The Weizmann Institute of Science, Department of Molecular Cell Biology Miri Yavzori Tel Aviv University Ella Fudim Tel Aviv University Orit Picard Tel Aviv University Chay
Published in: Cellular and molecular gastroenterology and hepatology, 2023, ISSN 2352-345X
Publisher: Elsevier Inc.
DOI: 10.1016/j.jcmgh.2023.02.002

Zonation of Pancreatic Acinar Cells in Diabetic Mice

Author(s): Adi Egozi, Keren Bahar Halpern, Lydia Farack, Hagar Rotem, Shalev Itzkovitz
Published in: Cell Reports, Issue 32/7, 2020, Page(s) 108043, ISSN 2211-1247
Publisher: Cell Press
DOI: 10.1016/j.celrep.2020.108043

The spatiotemporal program of zonal liver regeneration following acute injury

Author(s): Shani Ben-Moshe, Tamar Veg, Rita Manco, Stav Dan, Delfina Papinutti, Aviezer Lifshitz, Aleksandra A Kolodziejczyk, Keren Bahar Halpern, Eran Elinav and Shalev Itzkovitz
Published in: Cell stem cell, 2022, ISSN 1934-5909
Publisher: Cell Press
DOI: 10.1016/j.stem.2022.04.008

Transcriptional Heterogeneity of Beta Cells in the Intact Pancreas

Author(s): Lydia Farack, Matan Golan, Adi Egozi, Nili Dezorella, Keren Bahar Halpern, Shani Ben-Moshe, Immacolata Garzilli, Beata Toth, Lior Roitman, Valery Krizhanovsky, Shalev Itzkovitz
Published in: Developmental Cell, 2019, ISSN 1534-5807
Publisher: Cell Press
DOI: 10.1016/j.devcel.2018.11.001

Spatial discordances between mRNAs and proteins in the intestinal epithelium

Author(s): Yotam Harnik, Lisa Buchauer, Shani Ben-Moshe, Inna Averbukh, Yishai Levin, Alon Savidor, Raya Eilam, Andreas E Moor and Shalev Itzkovitz
Published in: Nature metabolism, 2021, ISSN 2522-5812
Publisher: Nature Research
DOI: 10.1038/s42255-021-00504-6

The cellular states and fates of shed intestinal cells

Author(s): Keren Bahar Halpern*, Yael Korem Kohanim, Adi Biram, Yotam Harnik, Adi Egozi, Oran Yakubovsky, Ziv Shulman, Shalev Itzkovitz*
Published in: Nature metabolism, 2023, ISSN 2522-5812
Publisher: Nature Research
DOI: 10.1038/s42255-023-00905-9

Paired-cell sequencing enables spatial gene expression mapping of liver endothelial cells

Author(s): Keren Bahar Halpern, Rom Shenhav, Hassan Massalha, Beata Toth, Adi Egozi, Efi E. Massasa, Chiara Medgalia, Eyal David, Amir Giladi, Andreas E. Moor, Ziv Porat, Ido Amit, Shalev Itzkovitz*
Published in: Nature Biotechnology, Issue 36, 2018, Page(s) 962-970, ISSN 1087-0156
Publisher: Nature Publishing Group
DOI: 10.1038/nbt.4231

Spatial sorting enables comprehensive characterization of liver zonation

Author(s): Shani Ben-Moshe, Yonatan Shapira, Andreas E. Moor, Rita Manco, Tamar Veg, Keren Bahar Halpern, Shalev Itzkovitz
Published in: Nature Metabolism, Issue 1/9, 2019, Page(s) 899-911, ISSN 2522-5812
Publisher: Nature Metabolism
DOI: 10.1038/s42255-019-0109-9

Lgr5+telocytes are a signaling source at the intestinal villus tip

Author(s): Keren Bahar Halpern, Hassan Massalha, Rachel K. Zwick, Andreas E. Moor, David Castillo-Azofeifa, Milena Rozenberg, Lydia Farack, Adi Egozi, Dan R. Miller, Inna Averbukh, Yotam Harnik, Noa Weinberg-Corem, Frederic J. de Sauvage, Ido Amit, Ophir D. Klein, Michal Shoshkes-Carmel, Shalev Itzkovitz
Published in: Nature Communications, 2020, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-020-15714-x

Spatial heterogeneity in the mammalian liver

Author(s): Shani Ben-Moshe, Shalev Itzkovitz*
Published in: Nature Reviews Gastroenterology and Hepatology, 2019, ISSN 1759-5045
Publisher: Nature Publishing Group
DOI: 10.1038/s41575-019-0134-x

Insulin is expressed by enteroendocrine cells during human fetal development

Author(s): Adi Egozi, Dhana Llivichuzhca-Loja, Blake T McCourt, Keren Bahar Halpern, Lydia Farack, Xiaojing An, Fujing Wang, Kong Chen, Liza Konnikova and Shalev Itzkovitz
Published in: Nature medicine, 2021, ISSN 1078-8956
Publisher: Nature Publishing Group
DOI: 10.1038/s41591-021-01586-1

Spatial gene expression maps of the intestinal lymphoid follicle and associated epithelium identify zonated expression programs.

Author(s): Noam Cohen; Noam Cohen; Hassan Massalha; Hassan Massalha; Shani Ben-Moshe; Adi Egozi; Milena Rozenberg; Keren Bahar Halpern; Shalev Itzkovitz
Published in: PLoS Biology, Vol 19, Iss 10, p e3001214 (2021), Issue 2, 2021, ISSN 1544-9173
Publisher: Public Library of Science
DOI: 10.1371/journal.pbio.3001214

Protocol for Single-Molecule Fluorescence In Situ Hybridization for Intact Pancreatic Tissue

Author(s): Lydia Farack - The Weizmann Institute of Science, Department of Molecular Cell Biology Shalev Itzkovitz - The Weizmann Institute of Science, Department of Molecular Cell Biology
Published in: STAR protocols, 2020, ISSN 2666-1667
Publisher: Elsevier
DOI: 10.1016/j.xpro.2019.100007

Host transcriptome signatures in human faecal-washes predict histological remission in patients with IBD

Author(s): Bella Ungar, Miri Yavzori, Ella Fudim, Orit Picard, Uri Kopylov, Rami Eliakim, Dror Shouval, Yishai Levin, Alon Savidor, Shani Ben-Moshe, Rita Manco, Stav Dan, Adi Egozi, Keren Bahar Halpern, Chen Mayer, Iris Barshack, Shomron Ben-Horin, Shalev Itzkovitz
Published in: Gut, 2022, ISSN 0017-5749
Publisher: BMJ Publishing Group
DOI: 10.1136/gutjnl-2021-325516

A spatiotemporally resolved single-cell atlas of the Plasmodium liver stage

Author(s): Amichay Afriat, Vanessa Zuzarte-Luis, Keren Bahar Halpern, Lisa Buchauer, Sofia Marques, Angelo Ferreira Chora, Aparajita Lahree, Ido Amit, Maria M. Mota*, Shalev Itzkovitz*
Published in: Nature (London), Issue 611, 2022, Page(s) 563-569, ISSN 0028-0836
Publisher: Nature Publishing Group
DOI: 10.1038/s41586-022-05406-5

A single cell atlas of the human liver tumor microenvironment

Author(s): Hassan Massalha, Keren Bahar Halpern, Samir Abu‐Gazala, Tamar Jana, Efi E Massasa, Andreas E Moor, Lisa Buchauer, Milena Rozenberg, Eli Pikarsky, Ido Amit, Gideon Zamir, Shalev Itzkovitz
Published in: Molecular Systems Biology, Issue 16/12, 2020, ISSN 1744-4292
Publisher: Nature Publishing Group
DOI: 10.15252/msb.20209682