Works by Lizio, Marina

Results: 17

Automated Workflow for Preparation of cDNA for Cap Analysis of Gene Expression on a Single Molecule Sequencer.

Published in:

PLoS ONE, 2012, v. 7, n. 1, p. 1, doi. 10.1371/journal.pone.0030809

By:

Itoh, Masayoshi;
Kojima, Miki;
Nagao-Sato, Sayaka;
Saijo, Eri;
Lassmann, Timo;
Kanamori-Katayama, Mutsumi;
Kaiho, Ai;
Lizio, Marina;
Kawaji, Hideya;
Carninci, Piero;
Forrest, Alistair R. R.;
Hayashizaki, Yoshihide

Publication type:

Article

Shared activity patterns arising at genetic susceptibility loci reveal underlying genomic and cellular architecture of human disease.

Published in:

PLoS Computational Biology, 2018, v. 14, n. 3, p. 1, doi. 10.1371/journal.pcbi.1005934

By:

Baillie, J. Kenneth;
Bretherick, Andrew;
Haley, Christopher S.;
Clohisey, Sara;
Gray, Alan;
Neyton, Lucile P. A.;
Barrett, Jeffrey;
Stahl, Eli A.;
Tenesa, Albert;
Andersson, Robin;
Brown, J. Ben;
Faulkner, Geoffrey J.;
Lizio, Marina;
Schaefer, Ulf;
Daub, Carsten;
Itoh, Masayoshi;
Kondo, Naoto;
Lassmann, Timo;
Kawai, Jun;
null, null

Publication type:

Article

Mapping Mammalian Cell-type-specific Transcriptional Regulatory Networks Using KD-CAGE and ChIP-seq Data in the TC-YIK Cell Line.

Published in:

Frontiers in Genetics, 2015, v. 6, p. 1, doi. 10.3389/fgene.2015.00331

By:

Lizio, Marina;
Yuri Ishizu;
Masayoshi Itoh;
Timo Lassmann;
Akira Hasegawa;
Atsutaka Kubosaki;
Severin, Jessica;
Hideya Kawaji;
Yukio Nakamura;
Harukazu Suzuki;
Yoshihide Hayashizaki;
Carninci, Piero;
Forrest, Alistair R. R.;
Boden, Mikael

Publication type:

Article

NETS‐seq advances the understanding of neuronal vulnerability in AD progression facilitating the identification of novel therapeutic targets at the single cell type level.

Published in:

Alzheimer's & Dementia: The Journal of the Alzheimer's Association, 2023, v. 19, p. 1, doi. 10.1002/alz.071405

By:

Bayraktar, Gonca;
Christie, Louisa;
Brice, Nicola;
Xu, Xiao;
Stirparo, Giuliano;
Lizio, Marina;
Powell, Justin;
Cadwalladr, David;
Cheung, Toni;
Sheardown, Steven;
Page, Keith;
Dawson, Lee A;
Carlton, Mark

Publication type:

Article

Systematic analysis of transcription start sites in avian development.

Published in:

PLoS Biology, 2017, v. 15, n. 9, p. 1, doi. 10.1371/journal.pbio.2002887

By:

Lizio, Marina;
Deviatiiarov, Ruslan;
Nagai, Hiroki;
Galan, Laura;
Arner, Erik;
Itoh, Masayoshi;
Lassmann, Timo;
Kasukawa, Takeya;
Hasegawa, Akira;
Ros, Marian A.;
Hayashizaki, Yoshihide;
Carninci, Piero;
Forrest, Alistair R. R.;
Kawaji, Hideya;
Gusev, Oleg;
Sheng, Guojun

Publication type:

Article

Transcriptome analysis of periodontitis-associated fibroblasts by CAGE sequencing identified DLX5 and RUNX2 long variant as novel regulators involved in periodontitis.

Published in:

Scientific Reports, 2016, p. 33666, doi. 10.1038/srep33666

By:

Horie, Masafumi;
Yamaguchi, Yoko;
Saito, Akira;
Nagase, Takahide;
Lizio, Marina;
Itoh, Masayoshi;
Kawaji, Hideya;
Lassmann, Timo;
Carninci, Piero;
Forrest, Alistair R. R.;
Hayashizaki, Yoshihide;
Suzutani, Tatsuo;
Kappert, Kai;
Micke, Patrick;
Ohshima, Mitsuhiro

Publication type:

Article

Differential contribution of THIK-1 K<sup>+</sup> channels and P2X7 receptors to ATP-mediated neuroinflammation by human microglia.

Published in:

Journal of Neuroinflammation, 2024, v. 21, n. 1, p. 1, doi. 10.1186/s12974-024-03042-6

By:

Rifat, Ali;
Ossola, Bernardino;
Bürli, Roland W.;
Dawson, Lee A.;
Brice, Nicola L.;
Rowland, Anna;
Lizio, Marina;
Xu, Xiao;
Page, Keith;
Fidzinski, Pawel;
Onken, Julia;
Holtkamp, Martin;
Heppner, Frank L.;
Geiger, Jörg R. P.;
Madry, Christian

Publication type:

Article

FANTOM5 transcriptome catalog of cellular states based on Semantic MediaWiki.

Published in:

Database: The Journal of Biological Databases & Curation, 2016, v. 2016, p. 1, doi. 10.1093/database/baw105

By:

Abugessaisa, Imad;
Hisashi Shimoji;
Serkan Sahin;
Atsushi Kondo;
Harshbarger, Jayson;
Lizio, Marina;
Yoshihide Hayashizaki;
Carninci, Piero;
Forrest, Alistair;
Takeya Kasukawa;
Hideya Kawaji

Publication type:

Article

Update of the FANTOM web resource: expansion to provide additional transcriptome atlases.

Published in:

Nucleic Acids Research, 2019, v. 47, n. D1, p. D752, doi. 10.1093/nar/gky1099

By:

Lizio, Marina;
Abugessaisa, Imad;
Noguchi, Shuhei;
Kondo, Atsushi;
Hasegawa, Akira;
Hon, Chung Chau;
de Hoon, Michiel;
Severin, Jessica;
Oki, Shinya;
Hayashizaki, Yoshihide;
Carninci, Piero;
Kasukawa, Takeya;
Kawaji, Hideya

Publication type:

Article

Corrigendum: A draft network of ligand-receptor-mediated multicellular signalling in human.

Published in:

Nature Communications, 2016, v. 7, n. 2, p. 10706, doi. 10.1038/ncomms10706

By:

Ramilowski, Jordan A.;
Goldberg, Tatyana;
Harshbarger, Jayson;
Kloppmann, Edda;
Lizio, Marina;
Satagopam, Venkata P.;
Itoh, Masayoshi;
Kawaji, Hideya;
Carninci, Piero;
Rost, Burkhard;
Forrest, Alistair R. R.

Publication type:

Article

A draft network of ligand-receptor-mediated multicellular signalling in human.

Published in:

Nature Communications, 2015, v. 6, n. 7, p. 7866, doi. 10.1038/ncomms8866

By:

Ramilowski, Jordan A.;
Goldberg, Tatyana;
Harshbarger, Jayson;
Kloppman, Edda;
Lizio, Marina;
Satagopam, Venkata P.;
Itoh, Masayoshi;
Kawaji, Hideya;
Carninci, Piero;
Rost, Burkhard;
Forrest, Alistair R. R.

Publication type:

Article

Defining super-enhancers by highly ranked histone H4 multi-acetylation levels identifies transcription factors associated with glioblastoma stem-like properties.

Published in:

BMC Genomics, 2023, v. 24, n. 1, p. 1, doi. 10.1186/s12864-023-09659-w

By:

Das, Nando D.;
Chang, Jen-Chien;
Hon, Chung-Chau;
Kelly, S. Thomas;
Ito, Shinsuke;
Lizio, Marina;
Kaczkowski, Bogumil;
Watanabe, Hisami;
Katsushima, Keisuke;
Natsume, Atsushi;
Koseki, Haruhiko;
Kondo, Yutaka;
Minoda, Aki;
Umehara, Takashi

Publication type:

Article

Gateways to the FANTOM5 promoter level mammalian expression atlas.

Published in:

Genome Biology, 2015, v. 16, n. 1, p. 1, doi. 10.1186/s13059-014-0560-6

By:

Lizio, Marina;
Harshbarger, Jayson;
Hisashi Shimoji;
Severin, Jessica;
Takeya Kasukawa;
Sahin, Serkan;
Abugessaisa, Imad;
Shiro Fukuda;
Fumi Hori;
Sachi Ishikawa-Kato;
Mungall, Christopher J.;
Arner, Erik;
Baillie, J. Kenneth;
Bertin, Nicolas;
Hidemasa Bono;
de Hoon, Michiel;
Diehl, Alexander D.;
Dimont, Emmanuel;
Freeman, Tom C.;
Kaori Fujieda

Publication type:

Article

Update of the FANTOM web resource: high resolution transcriptome of diverse cell types in mammals.

Published in:

Nucleic Acids Research, 2017, v. 45, n. D1, p. D737, doi. 10.1093/nar/gkw995

By:

Lizio, Marina;
Harshbarger, Jayson;
Abugessaisa, Imad;
Shuei Noguchi;
Atsushi Kondo;
Severin, Jessica;
Mungall, Chris;
Arenillas, David;
Mathelier, Anthony;
Medvedeva, Yulia A.;
Lennartsson, Andreas;
Drabløs, Finn;
Ramilowski, Jordan A.;
Rackham, Owen;
Gough, Julian;
Andersson, Robin;
Sandelin, Albin;
Ienasescu, Hans;
Hiromasa Ono;
Hidemasa Bono

Publication type:

Article

Update of the FANTOM web resource: from mammalian transcriptional landscape to its dynamic regulation.

Published in:

Nucleic Acids Research, 2011, v. 39, n. suppl_1, p. D856, doi. 10.1093/nar/gkq1112

By:

Kawaji, Hideya;
Severin, Jessica;
Lizio, Marina;
Forrest, Alistair R. R.;
van Nimwegen, Erik;
Rehli, Michael;
Schroder, Kate;
Irvine, Katharine;
Suzuki, Harukazu;
Carninci, Piero;
Hayashizaki, Yoshihide;
Daub, Carsten O.

Publication type:

Article

Interactive visualization and analysis of large-scale sequencing datasets using ZENBU.

Published in:

Nature Biotechnology, 2014, v. 32, n. 3, p. 217, doi. 10.1038/nbt.2840

By:

Severin, Jessica;
Lizio, Marina;
Harshbarger, Jayson;
Kawaji, Hideya;
Daub, Carsten O;
Hayashizaki, Yoshihide;
Bertin, Nicolas;
Forrest, Alistair R R

Publication type:

Article

JQ1 affects BRD2-dependent and independent transcription regulation without disrupting H4-hyperacetylated chromatin states.

Published in:

Epigenetics, 2018, v. 13, n. 4, p. 410, doi. 10.1080/15592294.2018.1469891

By:

Handoko, Lusy;
Kaczkowski, Bogumil;
Hon, Chung-Chau;
Lizio, Marina;
Wakamori, Masatoshi;
Matsuda, Takayoshi;
Ito, Takuhiro;
Jeyamohan, Prashanti;
Sato, Yuko;
Sakamoto, Kensaku;
Yokoyama, Shigeyuki;
Kimura, Hiroshi;
Minoda, Aki;
Umehara, Takashi

Publication type:

Article