Publications: Dr Miguel Branco
De Borre M, Branco MR
(
2021
)
.
Oxidative Bisulfite Sequencing: An Experimental and Computational Protocol
.
vol.
2198
,
333
-
348
.
Senner CE, Chrysanthou S, Burge S, Lin HY, Branco MR, Hemberger M
(
2020
)
.
TET1 and 5-Hydroxymethylation Preserve the Stem Cell State of Mouse Trophoblast
.
Stem Cell Reports
vol.
15
,
(
6
)
1301
-
1316
.
Shendy NAM, Raghu D, Roy S, Perry CH, Safi A, Branco MR, Homayouni R, Abell AN
(
2020
)
.
Coordinated regulation of Rel expression by MAP3K4, CBP, and HDAC6 controls phenotypic switching
.
Communications Biology
vol.
3
,
(
1
)
Deniz Ö, Ahmed M, Todd CD, Rio-Machin A, Dawson MA, Branco MR
(
2020
)
.
Endogenous retroviruses are a source of enhancers with oncogenic potential in acute myeloid leukaemia
.
Nature Communications
vol.
11
,
(
1
)
Santiago M, Antunes C, Guedes M, Iacovino M, Kyba M, Reik W, Sousa N, Pinto L et al.
(
2020
)
.
Correction to: Tet3 regulates cellular identity and DNA methylation in neural progenitor cells (Cellular and Molecular Life Sciences, (2020), 77, 14, (2871-2883), 10.1007/s00018-019-03335-7)
.
Cellular and Molecular Life Sciences
vol.
77
,
(
14
)
Branco MR, Chuong EB
(
2020
)
.
Crossroads between transposons and gene regulation
.
Philosophical Transactions of the Royal Society B: Biological Sciences
vol.
375
,
(
1795
)
Schlesinger S, Branco MR, Mermoud JE
(
2020
)
.
Chapter 7 Roles and regulation of endogenous retroviruses in pluripotency and early development
.
Stem Cell Epigenetics
,
Antunes C, Da Silva JD, Guerra-Gomes S, Alves ND, Ferreira F, Loureiro-Campos E, Branco MR, Sousa N et al.
(
2020
)
.
Tet3 ablation in adult brain neurons increases anxiety-like behavior and regulates cognitive function in mice
.
Molecular Psychiatry
Carrillo-Jimenez A, Deniz Ö, Niklison-Chirou MV, Ruiz R, Bezerra-Salomão K, Stratoulias V, Amouroux R, Yip PK et al.
(
2019
)
.
TET2 Regulates the Neuroinflammatory Response in Microglia
.
Cell Reports
vol.
29
,
(
3
)
697
-
713.e8
.
Todd CD, Deniz Ö, Taylor D, Branco MR
(
2019
)
.
Functional evaluation of transposable elements as enhancers in mouse embryonic and trophoblast stem cells
.
eLife
vol.
8
,
Deniz Ö, Frost JM, Branco MR
(
2019
)
.
Author Correction: Regulation of transposable elements by DNA modifications
.
Nat Rev Genet
Deniz Ö, Frost JM, Branco MR
(
2019
)
.
Regulation of transposable elements by DNA modifications
.
Nat Rev Genet
Olova N, Krueger F, Andrews S, Oxley D, Berrens RV, Branco MR, Reik W
(
2019
)
.
Correction to: Comparison of whole-genome bisulfite sequencing library preparation strategies identifies sources of biases affecting DNA methylation data (Genome Biology (2018) 19 (33) DOI: 10.1186/s13059-018-1408-2)
.
Genome Biology
vol.
20
,
(
1
)
Santiago M, Antunes C, Guedes M, Iacovino M, Kyba M, Reik W, Sousa N, Pinto L et al.
(
2019
)
.
Tet3 regulates cellular identity and DNA methylation in neural progenitor cells
.
Cellular and Molecular Life Sciences
Schoenfelder S, Mifsud B, Senner CE, Todd CD, Chrysanthou S, Darbo E, Hemberger M, Branco MR
(
2018
)
.
Divergent wiring of repressive and active chromatin interactions between mouse embryonic and trophoblast lineages
.
Nature Communications
vol.
9
,
(
1
)
Olova N, Krueger F, Andrews S, Oxley D, Berrens RV, Branco MR, Reik W
(
2018
)
.
Comparison of whole-genome bisulfite sequencing library preparation strategies identifies sources of biases affecting DNA methylation data
.
Genome Biology
vol.
19
,
(
1
)
Deniz Ö, de la Rica L, Cheng KCL, Spensberger D, Branco MR
(
2018
)
.
SETDB1 prevents TET2-dependent activation of IAP retroelements in naïve embryonic stem cells
.
Genome Biology
vol.
19
,
(
1
)
Garcia-Gomez A, Li T, Kerick M, Català-Moll F, Comet NR, Rodríguez-Ubreva J, De La Rica L, Branco MR et al.
(
2017
)
.
TET2- and TDG-mediated changes are required for the acquisition of distinct histone modifications in divergent terminal differentiation of myeloid cells
.
Nucleic Acids Research
vol.
45
,
(
17
)
10002
-
10017
.
Barbieri M, Xie SQ, Torlai Triglia E, Chiariello AM, Bianco S, De Santiago I, Branco MR, Rueda D et al.
(
2017
)
.
Active and poised promoter states drive folding of the extended HoxB locus in mouse embryonic stem cells
.
Nature Structural and Molecular Biology
vol.
24
,
(
6
)
515
-
524
.
Beagrie RA, Scialdone A, Schueler M, Kraemer DCA, Chotalia M, Xie SQ, Barbieri M, De Santiago I et al.
(
2017
)
.
Complex multi-enhancer contacts captured by genome architecture mapping
.
Nature
vol.
543
,
(
7646
)
519
-
524
.
de la Rica L, Deniz Ö, Cheng KC, Todd CD, Cruz C, Houseley J, Branco MR
(
2016
)
.
TET-dependent regulation of retrotransposable elements in mouse embryonic stem cells
.
Genome Biol
vol.
17
,
(
1
)
234
-
234
.
Branco MR, King M, Perez-Garcia V, Bogutz AB, Caley M, Fineberg E, Lefebvre L, Cook SJ et al.
(
2016
)
.
Maternal DNA Methylation Regulates Early Trophoblast Development
.
Developmental Cell
vol.
36
,
(
2
)
152
-
163
.
de la Rica L, Stanley JS, Branco MR
(
2016
)
.
Profiling DNA methylation and hydroxymethylation at retrotransposable elements
.
vol.
1400
,
387
-
401
.
Booth MJ, Ost TWB, Beraldi D, Bell NM, Branco MR, Reik W, Balasubramanian S
(
2013
)
.
Oxidative bisulfite sequencing of 5-methylcytosine and 5-hydroxymethylcytosine
.
Nat Protoc
vol.
8
,
(
10
)
1841
-
1851
.
Ficz G, Hore TA, Santos F, Lee HJ, Dean W, Arand J, Krueger F, Oxley D et al.
(
2013
)
.
FGF signaling inhibition in ESCs drives rapid genome-wide demethylation to the epigenetic ground state of pluripotency
.
Cell Stem Cell
vol.
13
,
(
3
)
351
-
359
.
Ficz G, Hore TA, Santos F, Lee HJ, Dean W, Arand J, Krueger F, Oxley D et al.
(
2013
)
.
FGF signalling inhibition in ESCs drives rapid genome-wide demethylation to the epigenetic ground state of pluripotency
.
Clinical Epigenetics
vol.
5
,
(
Suppl 1
)
Branco MR
(
2013
)
.
Bridging genomics technology and biology
.
Genome Biol
vol.
14
,
(
10
)
Hackett JA, Reddington JP, Nestor CE, Dunican DS, Branco MR, Reichmann J, Reik W, Surani MA et al.
(
2012
)
.
Promoter DNA methylation couples genome-defence mechanisms to epigenetic reprogramming in the mouse germline
.
Development
vol.
139
,
(
19
)
3623
-
3632
.
Raiber E-A, Beraldi D, Ficz G, Burgess HE, Branco MR, Murat P, Oxley D, Booth MJ et al.
(
2012
)
.
Genome-wide distribution of 5-formylcytosine in embryonic stem cells is associated with transcription and depends on thymine DNA glycosylase
.
Genome Biol
vol.
13
,
(
8
)
Arand J, Spieler D, Karius T, Branco MR, Meilinger D, Meissner A, Jenuwein T, Xu G et al.
(
2012
)
.
In vivo control of CpG and non-CpG DNA methylation by DNA methyltransferases
.
PLoS Genet
vol.
8
,
(
6
)
Booth MJ, Branco MR, Ficz G, Oxley D, Krueger F, Reik W, Balasubramanian S
(
2012
)
.
Quantitative sequencing of 5-methylcytosine and 5-hydroxymethylcytosine at single-base resolution
.
Science
vol.
336
,
(
6083
)
934
-
937
.
Pombo A, Branco MR
(
2012
)
.
Intermingling of chromosome territories, translocations and interchromosomal associations
.
MUTAGENESIS
.
vol.
27
,
118
-
118
.
Krueger C, King MR, Krueger F, Branco MR, Osborne CS, Niakan KK, Higgins MJ, Reik W
(
2012
)
.
Pairing of homologous regions in the mouse genome is associated with transcription but not imprinting status
.
PLoS One
vol.
7
,
(
7
)
Branco MR, Ficz G, Reik W
(
2011
)
.
Uncovering the role of 5-hydroxymethylcytosine in the epigenome
.
Nat Rev Genet
vol.
13
,
(
1
)
7
-
13
.
Ficz G, Branco MR, Seisenberger S, Santos F, Krueger F, Hore TA, Marques CJ, Andrews S et al.
(
2011
)
.
Dynamic regulation of 5-hydroxymethylcytosine in mouse ES cells and during differentiation
.
Nature
vol.
473
,
(
7347
)
398
-
402
.
Ferrai C, Xie SQ, Luraghi P, Munari D, Ramirez F, Branco MR, Pombo A, Crippa MP
(
2010
)
.
Poised transcription factories prime silent uPA gene prior to activation
.
PLoS Biol
vol.
8
,
(
1
)
Redrup L, Branco MR, Perdeaux ER, Krueger C, Lewis A, Santos F, Nagano T, Cobb BS et al.
(
2009
)
.
The long noncoding RNA Kcnq1ot1 organises a lineage-specific nuclear domain for epigenetic gene silencing
.
DEVELOPMENT
vol.
136
,
(
4
)
525
-
530
.
Branco MR, Oda M, Reik W
(
2008
)
.
Safeguarding parental identity: Dnmt1 maintains imprints during epigenetic reprogramming in early embryogenesis
.
Genes Dev
vol.
22
,
(
12
)
1567
-
1571
.
Noordermeer D, Branco MR, Splinter E, Klous P, van Ijcken W, Swagemakers S, Koutsourakis M, van der Spek P et al.
(
2008
)
.
Transcription and chromatin organization of a housekeeping gene cluster containing an integrated beta-globin locus control region
.
PLoS Genet
vol.
4
,
(
3
)
Noordermeer D, Branco MR, Splinter E, Klous P, van IJcken W, Swagemakers S, Koutsourakis M, van der Spek P et al.
(
2008
)
.
Correction: Transcription and Chromatin Organization of a Housekeeping Gene Cluster Containing an Integrated β-Globin Locus Control Region
.
PLOS Genetics
vol.
4
,
(
3
)
Branco MR, Branco T, Ramirez F, Pombo A
(
2008
)
.
Changes in chromosome organization during PHA-activation of resting human lymphocytes measured by cryo-FISH
.
Chromosome Res
vol.
16
,
(
3
)
413
-
426
.
Pombo A, Branco MR
(
2007
)
.
Functional organisation of the genome during interphase
.
Curr Opin Genet Dev
vol.
17
,
(
5
)
451
-
455
.
Branco MR, Pombo A
(
2007
)
.
Chromosome organization: new facts, new models
.
Trends Cell Biol
vol.
17
,
(
3
)
127
-
134
.
Branco MR, Pombo A
(
2006
)
.
Intermingling of chromosome territories in interphase suggests role in translocations and transcription-dependent associations
.
PLoS Biol
vol.
4
,
(
5
)
Pombo A, Branco MR
(
2006
)
.
Mapping chromosome interactions in the nucleus of mammalian cells
.
EUROPEAN JOURNAL OF CELL BIOLOGY
.
vol.
85
,
100
-
100
.
BRANCO M, Xie SQ, Martin S, Pombo A
(
2006
)
.
Correlative microscopy using Tokuyasu cryosections: applications for immunolabeling and in situ hybridization
.
Cell Imaging
,
Editors:
Stephens, D
,
Scion Publishing Ltd
Branco MR, Marinho HS, Cyrne L, Antunes F
(
2004
)
.
Decrease of H2O2 plasma membrane permeability during adaptation to H2O2 in Saccharomyces cerevisiae
.
J Biol Chem
vol.
279
,
(
8
)
6501
-
6506
.
Branco MR, Pedros N, Sousa-Lopes A, Marinho HS, Cyrne L, Antunes F
(
2004
)
.
Regulation of the permeability of biomembranes to H2O2: Implications for redox compartmentalization
.
FREE RADICAL BIOLOGY AND MEDICINE
.
vol.
37
,
S60
-
S60
.