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1

Addendum: Quantitative sequencing of 5-formylcytosine in DNA at single-base resolution

Booth, Michael J., Marsico, Giovanni, Bachman, Martin, Beraldi, Dario, Balasubramanian, Shankar

Journal:

Nature Chemistry

Year:

2014

Language:

english

File:

PDF, 519 KB

english, 2014

2

G-quadruplex structures are stable and detectable in human genomic DNA

Lam, Enid Yi Ni, Beraldi, Dario, Tannahill, David, Balasubramanian, Shankar

Journal:

Nature Communications

Year:

2013

Language:

english

File:

PDF, 850 KB

english, 2013

3

Quantitative trait loci (QTL) mapping of resistance to strongyles and coccidia in the free-living Soay sheep (Ovis aries)

Dario Beraldi, Allan F. McRae, Jacob Gratten, Jill G. Pilkington, Jon Slate, Peter M. Visscher, Josephine M. Pemberton

Journal:

International Journal for Parasitology

Year:

2007

Language:

english

File:

PDF, 1.25 MB

english, 2007

4

5-Formylcytosine organizes nucleosomes and forms Schiff base interactions with histones in mouse embryonic stem cells

Raiber, Eun-Ang, Portella, Guillem, Martínez Cuesta, Sergio, Hardisty, Robyn, Murat, Pierre, Li, Zhe, Iurlaro, Mario, Dean, Wendy, Spindel, Julia, Beraldi, Dario, Liu, Zheng, Dawson, Mark A., Reik, Wo

Journal:

Nature Chemistry

Year:

2018

Language:

english

File:

PDF, 2.21 MB

english, 2018

5

Oxidative bisulfite sequencing of 5-methylcytosine and 5-hydroxymethylcytosine

Booth, Michael J, Ost, Tobias W B, Beraldi, Dario, Bell, Neil M, Branco, Miguel R, Reik, Wolf, Balasubramanian, Shankar

Journal:

Nature Protocols

Year:

2013

Language:

english

File:

PDF, 603 KB

english, 2013

6

Enhanced Methylation Analysis by Recovery of Unsequenceable Fragments

McInroy, Gordon R., Beraldi, Dario, Raiber, Eun-Ang, Modrzynska, Katarzyna, van Delft, Pieter, Billker, Oliver, Balasubramanian, Shankar, Tost, Jorg

Journal:

Year:

2016

Language:

english

File:

PDF, 977 KB

english, 2016

7

GENE-46. COMPARISON OF MATCHED GLIOBLASTOMA TUMOR AND MARGIN SAMPLES USING SINGLE BASE RESOLUTION MAPS REVEALS ACQUIRED, EARLY EPIGENETIC CHANGES THAT PREDISPOSE TO MUTATIONS DURING TUMOURIGENESIS

Raiber, Eun-Ang, Beraldi, Dario, Cuesta, Sergio Martinez, McInroy, Gordon, Kingsbury, Zoya, Becq, Jennifer, James, Terena, Lopes, Margarida, Allinson, Kieren, Field, Sarah, Humphray, Sean, Santarius,

Journal:

Year:

2017

File:

PDF, 89 KB

2017

8

Genome-wide distribution of 5-formylcytosine in embryonic stem cells is associated with transcription and depends on thymine DNA glycosylase

Eun-Ang Raiber, Dario Beraldi, Gabriella Ficz, Heather E Burgess, Miguel R Branco, Pierre Murat, David Oxley, Michael J Booth, Wolf Reik, Shankar Balasubramanian

Journal:

Year:

2012

Language:

english

File:

PDF, 391 KB

english, 2012

9

Sequencing 5-hydroxymethyluracil at single-base resolution

Kawasaki, Fumiko, Martínez Cuesta, Sergio, Beraldi, Dario, Mahtey, Areeb, Hardisty, Robyn E., Carrington, Mark, Balasubramanian, Shankar

Journal:

Angewandte Chemie International Edition

Year:

2018

Language:

english

File:

PDF, 1.08 MB

english, 2018

10

Accurate Measurement of 5-Methylcytosine and 5-Hydroxymethylcytosine in Human Cerebellum DNA by Oxidative Bisulfite on an Array (OxBS-Array)

Field, Sarah F., Beraldi, Dario, Bachman, Martin, Stewart, Sabrina K., Beck, Stephan, Balasubramanian, Shankar, Ballestar, Esteban

Journal:

Year:

2015

Language:

english

File:

PDF, 758 KB

english, 2015

11

Erratum to: Gene mapping in the wild with SNPs: guidelines and future directions

Jon Slate, Jake Gratten, Dario Beraldi, Jessica Stapley, Matt Hale, Josephine M. Pemberton

Journal:

Year:

2010

Language:

english

File:

PDF, 96 KB

english, 2010

12

Gene mapping in the wild with SNPs: guidelines and future directions

Jon Slate, Jake Gratten, Dario Beraldi, Jessica Stapley, Matt Hale, Josephine M. Pemberton

Journal:

Year:

2009

Language:

english

File:

PDF, 341 KB

english, 2009

13

Experimental evolution, genetic analysis and genome re-sequencing reveal the mutation conferring artemisinin resistance in an isogenic lineage of malaria parasites

Paul Hunt, Axel Martinelli, Katarzyna Modrzynska, Sofia Borges, Alison Creasey, Louise Rodrigues, Dario Beraldi, Laurence Loewe, Richard Fawcett, Sujai Kumar, Marian Thomson, Urmi Trivedi, Thomas D Ot

Journal:

Year:

2010

Language:

english

File:

PDF, 834 KB

english, 2010

14

A gene expression atlas of the domestic pig

Tom C Freeman, Alasdair Ivens, J Kenneth Baillie, Dario Beraldi, Mark W Barnett, David Dorward, Alison Downing, Lynsey Fairbairn, Ronan Kapetanovic, Sobia Raza, Andru Tomoiu, Ramiro Alberio, Chunlei W

Journal:

Year:

2012

Language:

english

File:

PDF, 2.66 MB

english, 2012

15

G-quadruplex structures mark human regulatory chromatin

Hänsel-Hertsch, Robert, Beraldi, Dario, Lensing, Stefanie V, Marsico, Giovanni, Zyner, Katherine, Parry, Aled, Di Antonio, Marco, Pike, Jeremy, Kimura, Hiroshi, Narita, Masashi, Tannahill, David, Bala

Journal:

Nature Genetics

Year:

2016

Language:

english

File:

PDF, 1.52 MB

english, 2016

16

Conditional knockout of RAD51-related genes in Leishmania major reveals a critical role for homologous recombination during genome replication

Damasceno, Jeziel D., Reis-Cunha, JoÃ£o, Crouch, Kathryn, Beraldi, Dario, Lapsley, Craig, Tosi, Luiz R. O., Bartholomeu, Daniella, McCulloch, Richard, Ouellette, Marc

Journal:

Year:

2020

File:

PDF, 7.54 MB

2020

17

Identification and annotation of conserved promoters and macrophage-expressed genes in the pig genome

Robert, Christelle, Kapetanovic, Ronan, Beraldi, Dario, Watson, Mick, Archibald, Alan L., Hume, David A.

Journal:

Year:

2015

Language:

english

File:

PDF, 1.76 MB

english, 2015

18

FOXM1 binds directly to non-consensus sequences in the human genome

Sanders, Deborah A., Gormally, Michael V., Marsico, Giovanni, Beraldi, Dario, Tannahill, David, Balasubramanian, Shankar

Journal:

Year:

2015

Language:

english

File:

PDF, 2.74 MB

english, 2015

19

Genome-wide association mapping identifies the genetic basis of discrete and quantitative variation in sexual weaponry in a wild sheep population

SUSAN E. JOHNSTON, JOHN C. McEWAN, NATALIE K. PICKERING, JAMES W. KIJAS, DARIO BERALDI, JILL G. PILKINGTON, JOSEPHINE M. PEMBERTON, JON SLATE

Journal:

Molecular Ecology

Year:

2011

Language:

english

File:

PDF, 439 KB

english, 2011

20

MAPPING QUANTITATIVE TRAIT LOCI UNDERLYING FITNESS-RELATED TRAITS IN A FREE-LIVING SHEEP POPULATION

Dario Beraldi, Allan F. McRae, Jacob Gratten, Jon Slate, Peter M. Visscher, Josephine M. Pemberton

Journal:

Year:

2007

Language:

english

File:

PDF, 505 KB

english, 2007

21

Base resolution maps reveal the importance of 5-hydroxymethylcytosine in a human glioblastoma

Raiber, Eun-Ang, Beraldi, Dario, Martínez Cuesta, Sergio, McInroy, Gordon R., Kingsbury, Zoya, Becq, Jennifer, James, Terena, Lopes, Margarida, Allinson, Kieren, Field, Sarah, Humphray, Sean, Santariu

Journal:

npj Genomic Medicine

Year:

2017

Language:

english

File:

PDF, 1.65 MB

english, 2017

22

Genome-wide mapping of FOXM1 binding reveals co-binding with estrogen receptor alpha in breast cancer cells

Deborah A Sanders, Caryn S Ross-Innes, Dario Beraldi, Jason S Carroll…

Journal:

Year:

2013

Language:

english

File:

PDF, 1.29 MB

english, 2013

23

Quantitative sequencing of 5-formylcytosine in DNA at single-base resolution

Booth, Michael J., Marsico, Giovanni, Bachman, Martin, Beraldi, Dario, Balasubramanian, Shankar

Journal:

Nature Chemistry

Year:

2014

Language:

english

File:

PDF, 1.03 MB

english, 2014

24

Mapping Quantitative Trait Loci Underlying Fitness-Related Traits in a Free-Living Sheep Population

Dario Beraldi, Allan F. McRae, Jacob Gratten, Jon Slate, Peter M. Visscher and Josephine M. Pemberton

Journal:

Year:

2007

Language:

english

File:

PDF, 2.61 MB

english, 2007

25

Examination of a region showing linkage map discrepancies across sheep breeds

Allan F. McRae, Dario Beraldi

Journal:

Mammalian Genome

Year:

2006

Language:

english

File:

PDF, 119 KB

english, 2006

26

The impact of breed and tissue compartment on the response of pig macrophages to lipopolysaccharide

Kapetanovic, Ronan, Fairbairn, Lynsey, Downing, Alison, Beraldi, Dario, Sester, David P, Freeman, Tom C, Tuggle, Christopher K, Archibald, Alan L, Hume, David A

Journal:

Year:

2013

Language:

english

File:

PDF, 2.09 MB

english, 2013

27

DNA G-quadruplex structures mold the DNA methylome

Mao, Shi-Qing, Ghanbarian, Avazeh T., Spiegel, Jochen, Martínez Cuesta, Sergio, Beraldi, Dario, Di Antonio, Marco, Marsico, Giovanni, Hänsel-Hertsch, Robert, Tannahill, David, Balasubramanian, Shankar

Journal:

Nature Structural and Molecular Biology

Year:

2018

Language:

english

File:

PDF, 1.95 MB

english, 2018

28

In vivo genome-wide profiling reveals a tissue-specific role for 5-formylcytosine

Iurlaro, Mario, McInroy, Gordon R., Burgess, Heather E., Dean, Wendy, Raiber, Eun-Ang, Bachman, Martin, Beraldi, Dario, Balasubramanian, Shankar, Reik, Wolf

Journal:

Year:

2016

Language:

english

File:

PDF, 1.39 MB

english, 2016

29

Sequencing 5-Hydroxymethyluracil at Single-Base Resolution

Kawasaki, Fumiko, Martínez Cuesta, Sergio, Beraldi, Dario, Mahtey, Areeb, Hardisty, Robyn E., Carrington, Mark, Balasubramanian, Shankar

Journal:

Angewandte Chemie

Year:

2018

Language:

english

File:

PDF, 844 KB

english, 2018

30

5-Formylcytosine alters the structure of the DNA double helix

Raiber, Eun-Ang, Murat, Pierre, Chirgadze, Dimitri Y, Beraldi, Dario, Luisi, Ben F, Balasubramanian, Shankar

Journal:

Nature Structural and Molecular Biology

Year:

2014

Language:

english

File:

PDF, 1.88 MB

english, 2014

31

A strong quantitative trait locus for wing length on chromosome 2 in a wild population of great reed warblers

Maja Tarka, Mikael Åkesson, Dario Beraldi, Jules Hernández-Sánchez, Dennis Hasselquist, Staffan Bensch and Bengt Hansson

Journal:

Proceedings Biological Sciences

Year:

2010

Language:

english

File:

PDF, 1.67 MB

english, 2010

32

ASCIIGenome: A command line genome browser for console terminals

Journal:

Year:

2017

Language:

english

File:

PDF, 117 KB

english, 2017

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