Eneritz Agirre

Publications
Grants
Public outreach and news

Articles

Article: NATURE. 2023;616(7955):113-122

Spatial epigenome-transcriptome co-profiling of mammalian tissues.

Zhang D; Deng Y; Kukanja P; Agirre E; Bartosovic M; Dong M; Ma C; Ma S; Su G; Bao S; Liu Y; Xiao Y; Rosoklija GB; Dwork AJ; Mann JJ; Leong KW; Boldrini M; Wang L; Haeussler M; Raphael BJ; Kluger Y; Castelo-Branco G; Fan R
Article: NATURE CELL BIOLOGY. 2022;24(8):1265-1277

A complex epigenome-splicing crosstalk governs epithelial-to-mesenchymal transition in metastasis and brain development.

Sahu SK; Agirre E; Inayatullah M; Mahesh A; Tiwari N; Lavin DP; Singh A; Strand S; Diken M; Luco RF; Belmonte JCI; Tiwari VK
Article: NEURON. 2022;110(7):1193-1210.e13

Epigenomic priming of immune genes implicates oligodendroglia in multiple sclerosis susceptibility.

Meijer M; Agirre E; Kabbe M; van Tuijn CA; Heskol A; Zheng C; Mendanha Falcão A; Bartosovic M; Kirby L; Calini D; Johnson MR; Corces MR; Montine TJ; Chen X; Chang HY; Malhotra D; Castelo-Branco G
Article: NATURE COMMUNICATIONS. 2021;12(1):682

Splicing-associated chromatin signatures: a combinatorial and position-dependent role for histone marks in splicing definition.

Agirre E; Oldfield AJ; Bellora N; Segelle A; Luco RF
Article: JOURNAL OF CELL BIOLOGY. 2020;219(9):e201908097

Nuclear role for human Argonaute-1 as an estrogen-dependent transcription coactivator.

Gómez Acuña LI; Nazer E; Rodríguez-Seguí SA; Pozzi B; Buggiano V; Marasco LE; Agirre E; He C; Alló M; Kornblihtt AR
Article: NATURE NEUROSCIENCE. 2020;23(3):363-374

Functionally distinct subgroups of oligodendrocyte precursor cells integrate neural activity and execute myelin formation.

Marisca R; Hoche T; Agirre E; Hoodless LJ; Barkey W; Auer F; Castelo-Branco G; Czopka T
Article: NATURE COMMUNICATIONS. 2020;11(1):1018

RADICL-seq identifies general and cell type-specific principles of genome-wide RNA-chromatin interactions.

Bonetti A; Agostini F; Suzuki AM; Hashimoto K; Pascarella G; Gimenez J; Roos L; Nash AJ; Ghilotti M; Cameron CJF; Valentine M; Medvedeva YA; Noguchi S; Agirre E; Kashi K; Samudyata; Luginbühl J; Cazzoli R; Agrawal S; Luscombe NM; Blanchette M; Kasukawa T; Hoon MD; Arner E; Lenhard B; Plessy C; Castelo-Branco G; Orlando V; Carninci P
Article: CELL REPORTS. 2019;29(4):904-919.e9

Oligodendrocyte Intrinsic miR-27a Controls Myelination and Remyelination.

Tripathi A; Volsko C; Garcia JP; Agirre E; Allan KC; Tesar PJ; Trapp BD; Castelo-Branco G; Sim FJ; Dutta R
Article: CELL REPORTS. 2019;27(8):2508-2523.e4

An Atlas of Vagal Sensory Neurons and Their Molecular Specialization.

Kupari J; Häring M; Agirre E; Castelo-Branco G; Ernfors P
Article: SCIENCE ADVANCES. 2019;5(5):eaav3673

SETDB1-dependent heterochromatin stimulates alternative lengthening of telomeres.

Gauchier M; Kan S; Barral A; Sauzet S; Agirre E; Bonnell E; Saksouk N; Barth TK; Ide S; Urbach S; Wellinger RJ; Luco RF; Imhof A; Déjardin J
Article: CELL REPORTS. 2019;27(4):1090-1102.e10

PAD2-Mediated Citrullination Contributes to Efficient Oligodendrocyte Differentiation and Myelination.

Falcão AM; Meijer M; Scaglione A; Rinwa P; Agirre E; Liang J; Larsen SC; Heskol A; Frawley R; Klingener M; Varas-Godoy M; Raposo AASF; Ernfors P; Castro DS; Nielsen ML; Casaccia P; Castelo-Branco G
Article: NATURE. 2019;566(7745):543-547

Altered human oligodendrocyte heterogeneity in multiple sclerosis.

Jäkel S; Agirre E; Mendanha Falcão A; van Bruggen D; Lee KW; Knuesel I; Malhotra D; Ffrench-Constant C; Williams A; Castelo-Branco G
Article: NATURE MEDICINE. 2018;24(12):1837-1844

Disease-specific oligodendrocyte lineage cells arise in multiple sclerosis.

Falcão AM; van Bruggen D; Marques S; Meijer M; Jäkel S; Agirre E; Samudyata; Floriddia EM; Vanichkina DP; Ffrench-Constant C; Williams A; Guerreiro-Cacais AO; Castelo-Branco G
Article: BMC BIOLOGY. 2015;13:31

A chromatin code for alternative splicing involving a putative association between CTCF and HP1α proteins.

Agirre E; Bellora N; Alló M; Pagès A; Bertucci P; Kornblihtt AR; Eyras E
Article: NATURE STRUCTURAL & MOLECULAR BIOLOGY. 2015;22(5):370-376

A lncRNA regulates alternative splicing via establishment of a splicing-specific chromatin signature.

Gonzalez I; Munita R; Agirre E; Dittmer TA; Gysling K; Misteli T; Luco RF
Article: PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2014;111(44):15622-15629

Argonaute-1 binds transcriptional enhancers and controls constitutive and alternative splicing in human cells.

Alló M; Agirre E; Bessonov S; Bertucci P; Gómez Acuña L; Buggiano V; Bellora N; Singh B; Petrillo E; Blaustein M; Miñana B; Dujardin G; Pozzi B; Pelisch F; Bechara E; Agafonov DE; Srebrow A; Lührmann R; Valcárcel J; Eyras E; Kornblihtt AR
Article: METHODS IN MOLECULAR BIOLOGY. 2014;1126:357-397

Methods to study splicing from high-throughput RNA sequencing data.

Alamancos GP; Agirre E; Eyras E
Article: COLD SPRING HARBOR SYMPOSIA ON QUANTITATIVE BIOLOGY. 2010;75:103-111

Chromatin and alternative splicing.

Alló M; Schor IE; Muñoz MJ; de la Mata M; Agirre E; Valcárcel J; Eyras E; Kornblihtt AR
Article: NATURE STRUCTURAL & MOLECULAR BIOLOGY. 2009;16(7):717-724

Control of alternative splicing through siRNA-mediated transcriptional gene silencing.

Alló M; Buggiano V; Fededa JP; Petrillo E; Schor I; de la Mata M; Agirre E; Plass M; Eyras E; Elela SA; Klinck R; Chabot B; Kornblihtt AR
Article: TRENDS IN GENETICS. 2008;24(12):590-594

Co-evolution of the branch site and SR proteins in eukaryotes.

Plass M; Agirre E; Reyes D; Camara F; Eyras E

All other publications

Preprint: BIORXIV. 2023

Single cell-resolutionin situsequencing elucidates spatial dynamics of multiple sclerosis lesion and disease evolution

Langseth CM; Kukanja P; Rubio Rodríguez-Kirby LA; Agirre E; Raman A; Yokota C; Avenel C; Tiklová K; Guerreiro-Cacais AO; Olsson T; Hilscher MM; Nilsson M; Castelo-Branco G
Preprint: BIORXIV. 2022

Single nuclei RNAseq stratifies multiple sclerosis patients into distinct white matter glial responses

Macnair W; Calini D; Agirre E; Bryois J; Jäkel S; Kukanja P; Stokar N; Ott V; Foo L; Collin L; Schippling S; Urich E; Nutma E; Marzin M; Amor S; Magliozzi R; Heidari E; Robinson M; ffrench-Constant C; Castelo-Branco G; Williams A; Malhotra D
Corrigendum: NATURE COMMUNICATIONS. 2021;12(1):3128

Author Correction: RADICL-seq identifies general and cell type-specific principles of genome-wide RNA-chromatin interactions.

Bonetti A; Agostini F; Suzuki AM; Hashimoto K; Pascarella G; Gimenez J; Roos L; Nash AJ; Ghilotti M; Cameron CJF; Valentine M; Medvedeva YA; Noguchi S; Agirre E; Kashi K; Samudyata; Luginbühl J; Cazzoli R; Agrawal S; Luscombe NM; Blanchette M; Kasukawa T; de Hoon M; Arner E; Lenhard B; Plessy C; Castelo-Branco G; Orlando V; Carninci P
Preprint: BIORXIV. 2020

A primed immune transcriptional program is activated in oligodendroglia in multiple sclerosis

Meijer M; Agirre E; Kabbe M; van Tuijn C; Heskol A; Falcão AM; Corces R; Montine T; Chen X; Chang H; Castelo-Branco G
Preprint: BIORXIV. 2019

Functionally Distinct Subgroups of Oligodendrocyte Precursor Cells Integrate Neural Activity and Execute Myelin Formation

Hoche T; Marisca R; Agirre E; Hoodless LJ; Barkey W; Auer F; Castelo-Branco G; Czopka T
Preprint: BIORXIV. 2019

RADICL-seq identifies general and cell type-specific principles of genome-wide RNA-chromatin interactions

Bonetti A; Agostini F; Suzuki AM; Hashimoto K; Pascarella G; Gimenez J; Roos L; Nash AJ; Ghilotti M; Cameron CJ; Valentine M; Medvedeva YA; Noguchi S; Agirre E; Kashi K; Samudyata; Luginbuehl J; Cazzoli R; Agrawal S; Luscombe NM; Blanchette M; Kasukawa T; De Hoon M; Arner E; Lenhard B; Plessy C; Castelo-Branco G; Orlando V; Carninci P
Conference publication: GLIA. 2019;67:E471

Single nuclei transcriptomics of human white matter oligodendroglia in multiple sclerosis

Agirre E; Jakel S; Falcao AM; van Bruggen D; Knuesel I; Malhotra D; Lee KW; Ffrench-Constant C; Williams A; Castelo-Branco G
Conference publication: MULTIPLE SCLEROSIS JOURNAL. 2019;25:16-17

Single nuclei transcriptomics of human white matter oligodendroglia in multiple sclerosis

Agirre E; Jakel S; Falcao AM; van Bruggen D; Lee KW; Knuesel I; Malhotra D; Ffrench-Constant C; Williams A; Castelo-Branco G
Preprint: SSRN ELECTRONIC JOURNAL. 2019

Oligodendrocyte Intrinsic miR-27a Controls Myelination and Remyelination

Tripathi A; Volsko C; Garcia J; Agirre E; Allan K; Tesar P; Trapp B; Castelo-Branco G; Sim F; Dutta R
Preprint: BIORXIV. 2018

PADI2-mediated citrullination is required for efficient oligodendrocyte differentiation and myelination

Falcão AM; Meijer M; Scaglione A; Rinwa P; Agirre E; Liang J; Larsen S; Heskol A; Frawley R; Klingener M; Varas-Godoy M; Raposo AASF; Ernfors P; Castro D; Nielsen M; Casaccia P; Castelo-Branco G
Review: CURRENT OPINION IN NEUROBIOLOGY. 2017;47:168-175

Single-cell transcriptomic analysis of oligodendrocyte lineage cells.

van Bruggen D; Agirre E; Castelo-Branco G
Conference publication: MULTIPLE SCLEROSIS JOURNAL. 2017;23:78

Single-cell RNA-sequencing profiling of oligodendrocyte lineage cells isolated from the multiple sclerosis mouse model EAE

Falcao AM; Van Bruggen D; Marques S; Agirre E; Vanichkina D; Castelo-Branco G
Preprint: ARXIV. 2013

Methods to study splicing from high-throughput RNA Sequencing data

Alamancos GP; Agirre E; Eyras E
Review: HUMAN GENOMICS. 2011;5(3):192-199

Databases and resources for human small non-coding RNAs.

Agirre E; Eyras E

Grants

Marie-Sklodowska Curie Fellowship

European Commission Directorate-General for Research and Innovation

15 May 2018 - 15 May 2020

Articles

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