Browse by Research Team

Andrology

Analysis of copy number variation in men with non-obstructive azoospermia.
Wyrwoll, M.J. and Wabschke, R. and Röpke, A. and Wöste, M. and Ruckert, C. and Perrey, S. and Rotte, N. and Hardy, J. and Astica, L. and Lupianez, D.G. and Wistuba, J. and Westernströer, B. and Schlatt, S. and Berman, A.J. and Müller, A.M. and Kliesch, S. and Yatsenko, A.N. and Tüttelmann, F. and Friedrich, C.
Andrology 10 (8): 1593-1604. November 2022

BMC Genomics

GOPHER: Generator Of Probes for capture Hi-C Experiments at high Resolution.
Hansen, P. and Ali, S. and Blau, H. and Danis, D. and Hecht, J. and Kornak, U. and Lupiáñez, D.G. and Mundlos, S. and Steinhaus, R. and Robinson, P.N.
BMC Genomics 20 (1): 40. 14 January 2019

First genome-wide CNV mapping in FELIS CATUS using next generation sequencing data.
Genova, F. and Longeri, M. and Lyons, L.A. and Bagnato, A. and Strillacci, M.G.
BMC Genomics 19 (1): 895. 10 December 2018

Biology of Reproduction

A microRNA (mmu-miR-124) prevents Sox9 expression in developing mouse ovarian cells.
Real, F.M. and Sekido, R. and Lupiáñez, D.G. and Lovell-Badge, R. and Jiménez, R. and Burgos, M.
Biology of Reproduction 89 (4): 78. 1 October 2013

Identification of live germ-cell desquamation as a major mechanism of seasonal testis regression in mammals: a study in the Iberian mole (Talpa occidentalis).
Dadhich, R.K. and Barrionuevo, F.J. and Real, F.M. and Lupiañez, D.G. and Ortega, E. and Burgos, M. and Jiménez, R.
Biology of Reproduction 88 (4): 101. 1 April 2013

Briefings in Functional Genomics

Order and disorder: abnormal 3D chromatin organization in human disease.
Anania, C. and Lupianez, D.G.
Briefings in Functional Genomics 19 (2): 128-138. March 2020

Cancer Discovery

Cancer evolution: a multifaceted affair.
Ciriello, G. and Magnani, L. and Aitken, S.J. and Akkari, L. and Behjati, S. and Hanahan, D. and Landau, D.A. and Lopez-Bigas, N. and Lupiáñez, D.G. and Marine, J.C. and Martin-Villalba, A. and Natoli, G. and Obenauf, A.C. and Oricchio, E. and Scaffidi, P. and Sottoriva, A. and Swarbrick, A. and Tonon, G. and Vanharanta, S. and Zuber, J.
Cancer Discovery 14 : 1-13. January 2024

Cell

Disruptions of topological chromatin domains cause pathogenic rewiring of gene-enhancer interactions.
Lupiáñez, D.G. and Kraft, K. and Heinrich, V. and Krawitz, P. and Brancati, F. and Klopocki, E. and Horn, D. and Kayserili, H. and Opitz, J.M. and Laxova, R. and Santos-Simarro, F. and Gilbert-Dussardier, B. and Wittler, L. and Borschiwer, M. and Haas, S.A. and Osterwalder, M. and Franke, M. and Timmermann, B. and Hecht, J. and Spielmann, M. and Visel, A. and Mundlos, S.
Cell 161 (5): 1012-1025. 21 May 2015

Cell Reports

Deletions, inversions, duplications: engineering of structural variants using CRISPR/Cas in mice.
Kraft, K. and Geuer, S. and Will, A.J. and Chan, W.L. and Paliou, C. and Borschiwer, M. and Harabula, I. and Wittler, L. and Franke, M. and Ibrahim, D.M. and Kragesteen, B.K. and Spielmann, M. and Mundlos, S. and Lupiáñez, D.G. and Andrey, G.
Cell Reports 10 (5): 833-839. 10 February 2015

Current opinion in genetics & development

Evolution of 3D chromatin organization at different scales.
Acemel, R.D. and Lupianez, D.G.
Current opinion in genetics & development 78 : 102019. February 2023

Developmental Dynamics

Assessing evolutionary and developmental transcriptome dynamics in homologous cell types.
Feregrino, C. and Tschopp, P.
Developmental Dynamics 251 (9): 1472-1489. September 2022

Genes

A (3D-nuclear) space odyssey: making sense of Hi-C maps.
Mota-Gómez, I. and Lupiáñez, D.G.
Genes 10 (6): 415. 29 May 2019

Genome Research

Exome sequencing and CRISPR/Cas genome editing identify mutations of ZAK as a cause of limb defects in humans and mice.
Spielmann, M. and Kakar, N. and Tayebi, N. and Leettola, C. and Nürnberg, G. and Sowada, N. and Lupiáñez, D.G. and Harabula, I. and Flöttmann, R. and Horn, D. and Chan, W.L. and Wittler, L. and Yilmaz, R. and Altmüller, J. and Thiele, H. and van Bokhoven, H. and Schwartz, C.E. and Nürnberg, P. and Bowie, J.U. and Ahmad, J. and Kubisch, C. and Mundlos, S. and Borck, G.
Genome Research 26 (2): 183-191. February 2016

International Journal of Developmental Biology

The spatio-temporal pattern of testis organogenesis in mammals - insights from the mole.
Carmona, F.D. and Lupianez, D.G. and Martin, J.E. and Burgos, M. and Jimenez, R. and Zurita, F.
International Journal of Developmental Biology 53 (7): 1035-1044. 2009

Journal of Anatomy

Morphology and ultrastructure of the chorioallantoic placenta of the Iberian mole (Talpa occidentalis) with special reference to heterophagous areolas and the nature of interhaemal barrier.
Siniza, S. and Lupianez, D.G. and Jimenez, R. and Zeller, U.
Journal of Anatomy 221 (2): 164-173. August 2012

Journal of Experimental Zoology Part B : Molecular and Developmental Evolution

Pattern and density of vascularization in mammalian testes, ovaries, and ovotestes.
Lupianez, D.G. and Real, F.M. and Dadhich, R.K. and Carmona, F.D. and Burgos, M. and Barrionuevo, F.J. and Jimenez, R.
Journal of Experimental Zoology Part B : Molecular and Developmental Evolution 318 (3): 170-181. May 2012

SOX9 is not required for the cellular events of testicular organogenesis in XX mole ovotestes.
Carmona, F.D. and Lupianez, D.G. and Real, F.M. and Burgos, M. and Zurita, F. and Jimenez, R.
Journal of Experimental Zoology Part B : Molecular and Developmental Evolution 312 (7): 734-748. 15 November 2009

Journal of Experimental Zoology Part B: Molecular and Developmental Evolution

Cell adhesion and immune response, two main functions altered in the transcriptome of seasonally regressed testes of two mammalian species.
Real, F.M. and Lao-Pérez, M. and Burgos, M. and Mundlos, S. and Lupiáñez, D.G. and Jiménez, R. and Barrionuevo, F.J.
Journal of Experimental Zoology Part B: Molecular and Developmental Evolution 340 (3): 231-244. May 2023

Journal of Investigative Dermatology

Sox9 is required for nail bed differentiation and digit tip regeneration.
Lao, M. and Hurtado, A. and de Castro, A.C. and Burgos, M. and Jiménez, R. and Barrionuevo, F.J.
Journal of Investigative Dermatology 142 (10): 2613-2622. October 2022

Mammalian Biology

Positive and negative unintended human-induced effects on Iberian mole abundance at the edge of its distribution area.
García-López de Hierro, L. and Moleón, M. and Lupiáñez, D.G. and Virgós, E. and Jiménez, R.
Mammalian Biology 78 (4): 276-282. June 2013

Nature

Marsupial genomes reveal how a skin membrane for gliding evolved.
Lupiáñez, D.G.
Nature 629 (8010): 43-44. 2 May 2024

The little skate genome and the evolutionary emergence of wing-like fins.
Marlétaz, F. and de la Calle-Mustienes, E. and Acemel, R.D. and Paliou, C. and Naranjo, S. and Martínez-García, P.M. and Cases, I. and Sleight, V.A. and Hirschberger, C. and Marcet-Houben, M. and Navon, D. and Andrescavage, A. and Skvortsova, K. and Duckett, P.Ed. and González-Rajal, Á. and Bogdanovic, O. and Gibcus, J.H. and Yang, L. and Gallardo-Fuentes, L. and Sospedra, I. and Lopez-Rios, J. and Darbellay, F. and Visel, A. and Dekker, J. and Shubin, N. and Gabaldón, T. and Nakamura, T. and Tena, J.J. and Lupianez, D.G. and Rokhsar, D.S. and Gómez-Skarmeta, J.L.
Nature 616 (7957): 495-503. 20 April 2023

Nature Cell Biology

Dynamic antagonism between key repressive pathways maintains the placental epigenome.
Weigert, R. and Hetzel, S. and Bailly, N. and Haggerty, C. and Ilik, I.A. and Yung, P.Y.K. and Navarro, C. and Bolondi, A. and Kumar, A.S. and Anania, C. and Brändl, B. and Meierhofer, D. and Lupianez, D.G. and Müller, F.J. and Aktas, T. and Elsässer, S.J. and Kretzmer, H. and Smith, Z.D. and Meissner, A.
Nature Cell Biology 25 : 579–591. April 2023

Nature Communications

Complete male-to-female sex reversal in XY mice lacking the miR-17~92 cluster.
Hurtado, A. and Mota-Gómez, I. and Lao, M. and Real, F.M. and Jedamzick, J. and Burgos, M. and Lupiáñez, D.G. and Jiménez, R. and Barrionuevo, F.J.
Nature Communications 15 (1): 3809. 7 May 2024

Nature Genetics

In vivo dissection of a clustered-CTCF domain boundary reveals developmental principles of regulatory insulation.
Anania, C. and Acemel, R.D. and Jedamzick, J. and Bolondi, A. and Cova, G. and Brieske, N. and Kühn, R. and Wittler, L. and Real, F.M. and Lupiáñez, D.G.
Nature Genetics July 2022

Multiomic atlas with functional stratification and developmental dynamics of zebrafish cis-regulatory elements.
Baranasic, D. and Hörtenhuber, M. and Balwierz, P.J. and Zehnder, T. and Mukarram, A.K. and Nepal, C. and Várnai, C. and Hadzhiev, Y. and Jimenez-Gonzalez, A. and Li, N. and Wragg, J. and D'Orazio, F.M. and Relic, D. and Pachkov, M. and Díaz, N. and Hernández-Rodríguez, B. and Chen, Z. and Stoiber, M. and Dong, M. and Stevens, I. and Ross, S.E. and Eagle, A. and Martin, R. and Obasaju, O. and Rastegar, S. and McGarvey, A.C. and Kopp, W. and Chambers, E. and Wang, D. and Kim, H.R. and Acemel, R.D. and Naranjo, S. and Łapiński, M. and Chong, V. and Mathavan, S. and Peers, B. and Sauka-Spengler, T. and Vingron, M. and Carninci, P. and Ohler, U. and Lacadie, S.A. and Burgess, S.M. and Winata, C. and van Eeden, F. and Vaquerizas, J.M. and Gómez-Skarmeta, J.L. and Onichtchouk, D. and Brown, B.J. and Bogdanovic, O. and van Nimwegen, E. and Westerfield, M. and Wardle, F.C and Daub, C.O. and Lenhard, B. and Müller, F.
Nature Genetics 54 (7): 1037-1050. July 2022

Dynamic 3D chromatin architecture contributes to enhancer specificity and limb morphogenesis.
Kragesteen, B.K. and Spielmann, M. and Paliou, C. and Heinrich, V. and Schöpflin, R. and Esposito, A. and Annunziatella, C. and Bianco, S. and Chiariello, A.M. and Jerković, I. and Harabula, I. and Guckelberger, P. and Pechstein, M. and Wittler, L. and Chan, Wi.L. and Franke, M. and Lupiáñez, D.G. and Kraft, K. and Timmermann, B. and Vingron, M. and Visel, A. and Nicodemi, M. and Mundlos, S. and Andrey, G.
Nature Genetics 50 (10): 1463-1473. October 2018

Polymer physics predicts the effects of structural variants on chromatin architecture.
Bianco, S. and Lupiáñez, D.G. and Chiariello, A.M. and Annunziatella, C. and Kraft, K. and Schöpflin, R. and Wittler, L. and Andrey, G. and Vingron, M. and Pombo, A. and Mundlos, S. and Nicodemi, M.
Nature Genetics 50 (5): 662-667. May 2018

Composition and dosage of a multipartite enhancer cluster control developmental expression of Ihh (Indian hedgehog).
Will, A.J. and Cova, G. and Osterwalder, M. and Chan, W.L. and Wittler, L. and Brieske, N. and Heinrich, V. and de Villartay, J.P. and Vingron, M. and Klopocki, E. and Visel, A. and Lupiáñez, D.G. and Mundlos, S.
Nature Genetics 49 (10): 1539-1545. October 2017

Nature Reviews Genetics

Structural variation in the 3D genome.
Spielmann, M. and Lupiáñez, D.G. and Mundlos, S.
Nature Reviews Genetics 19 (7): 453-467. July 2018

PLoS Genetics

Unraveling the transcriptional regulation of TWIST1 in limb development.
Hirsch, N. and Eshel, R. and Bar Yaacov, R. and Shahar, T. and Shmulevich, F. and Dahan, I. and Levaot, N. and Kaplan, T. and Lupiáñez, D.G. and Birnbaum, R..
PLoS Genetics 14 (10): e1007738. 29 October 2018

Science

The mole genome reveals regulatory rearrangements associated with adaptive intersexuality.
Real, F.M. and Haas, S.A. and Franchini, P. and Xiong, P. and Simakov, O. and Kuhl, H. and Schöpflin, R. and Heller, D. and Moeinzadeh, M.H. and Heinrich, V. and Krannich, T. and Bressin, A. and Hartmann, M.F. and Wudy, S.A. and Dechmann, D.K.N. and Hurtado, A. and Barrionuevo, F.J. and Schindler, M. and Harabula, I. and Osterwalder, M. and Hiller, M. and Wittler, L. and Visel, A. and Timmermann, B. and Meyer, A. and Vingron, M. and Jiménez, R. and Mundlos, S. and Lupiáñez, D.G.
Science 370 (6513): 208-214. 9 October 2020

Science Immunology

C/EBPβ regulates lipid metabolism and Pparg isoform 2 expression in alveolar macrophages.
Dörr, D. and Obermayer, B. and Weiner, J.M. and Zimmermann, K. and Anania, C. and Wagner, L.K. and Lyras, E.M. and Sapozhnikova, V. and Lara-Astiaso, D. and Prósper, F. and Lang, R. and Lupiáñez, D.G. and Beule, D. and Höpken, U.E. and Leutz, A. and Mildner, A.
Science Immunology 7 (75): eabj0140. September 2022

Sexual Development

Non-coding RNAs: lncRNAs, miRNAs, and piRNAs in sexual development.
Burgos, M. and Hurtado, A. and Jiménez, R. and Barrionuevo, F.J.
Sexual Development 15 (5-6): 335-350. December 2021

Expression of genes controlling testicular development in adult testis of the seasonally breeding iberian mole.
Dadhich, R.K. and Barrionuevo, F.J. and Lupianez, D.G. and Real, F.M. and Burgos, M. and Jimenez, R.
Sexual Development 5 (2): 77-88. March 2011

Meiosis onset is postponed to postnatal stages during ovotestis development in female moles.
Zurita, F. and Carmona, F.D. and Lupianez, D.G. and Barrionuevo, F.J. and Guioli, S. and Burgos, M. and Jimenez, R.
Sexual Development 1 (1): 66-76. 2007

Trends in Genetics

Breaking TADs: how alterations of chromatin domains result in disease.
Lupiáñez, D.G. and Spielmann, M. and Mundlos, S.
Trends in Genetics 32 (4): 225-237. April 2016

bioRxiv

The little skate genome and the evolutionary emergence of wing-like fin appendages.
Marletaz, F. and de la Calle-Mustienes, E. and Acemel, R.D. and Nakamura, T. and Paliou, C. and Naranjo, S. and Martinez-Garcia, P.M. and Cases, I. and Sleight, V.A. and Hirschberger, C. and Marcet-Houben, M. and Navon, D. and Andrescavage, A. and Skvortsova, K. and Duckett, P.E. and Gonzalez-Rajal, A. and Bogdanovic, O. and Gibcus, J.H. and Yang, L. and Gallardo-Fuentes, L. and Sospedra, I. and Lopez-Rios, J. and Darbellay, F. and Visel, A. and Dekker, J. and Shubin, N. and Gabaldon, T. and Tena, J.J. and Lupianez, D.G. and Rokhsar, D.S. and Gomez-Skarmeta, J.L.
bioRxiv : 2022.03.21.485123. 22 March 2022

In vivo dissection of a clustered-CTCF domain boundary reveals developmental principles of regulatory insulation.
Anania, C. and Acemel, R.D. and Jedamzick, J. and Bolondi, A. and Cova, G. and Brieske, N. and Kuehn, R. and Wittler, L. and Real, F.M. and Lupianez, D.G.
bioRxiv : 2021.04.14.439779. 14 April 2021

Crowdfunded whole-genome sequencing of the celebrity cat Lil BUB identifies causal mutations for her osteopetrosis and polydactyly.
Bridavsky, M. and Kuhl, H. and Woodruf, A. and Kornak, U. and Timmermann, B. and Mages, N. and Lupiáñez, D.G. and Symmons, O. and Ibrahim, D.M.
bioRxiv : 556761. 22 February 2019