Multiomic atlas with functional stratification and developmental dynamics of zebrafish cis-regulatory elements

Autor: Damir Baranasic, Matthias Hörtenhuber, Piotr J. Balwierz, Tobias Zehnder, Abdul Kadir Mukarram, Chirag Nepal, Csilla Várnai, Yavor Hadzhiev, Ada Jimenez-Gonzalez, Nan Li, Joseph Wragg, Fabio M. D’Orazio, Dorde Relic, Mikhail Pachkov, Noelia Díaz, Benjamín Hernández-Rodríguez, Zelin Chen, Marcus Stoiber, Michaël Dong, Irene Stevens, Samuel E. Ross, Anne Eagle, Ryan Martin, Oluwapelumi Obasaju, Sepand Rastegar, Alison C. McGarvey, Wolfgang Kopp, Emily Chambers, Dennis Wang, Hyejeong R. Kim, Rafael D. Acemel, Silvia Naranjo, Maciej Łapiński, Vanessa Chong, Sinnakaruppan Mathavan, Bernard Peers, Tatjana Sauka-Spengler, Martin Vingron, Piero Carninci, Uwe Ohler, Scott Allen Lacadie, Shawn M. Burgess, Cecilia Winata, Freek van Eeden, Juan M. Vaquerizas, José Luis Gómez-Skarmeta, Daria Onichtchouk, Ben James Brown, Ozren Bogdanovic, Erik van Nimwegen, Monte Westerfield, Fiona C. Wardle, Carsten O. Daub, Boris Lenhard, Ferenc Müller

Publikováno v: Baranasic, D, Hörtenhuber, M, Balwierz, P J, Zehnder, T, Mukarram, A K, Nepal, C, Várnai, C, Hadzhiev, Y, Jimenez-Gonzalez, A, Li, N, Wragg, J, D’Orazio, F M, Relic, D, Pachkov, M, Díaz, N, Hernández-Rodríguez, B, Chen, Z, Stoiber, M, Dong, M, Stevens, I, Ross, S E, Eagle, A, Martin, R, Obasaju, O, Rastegar, S, McGarvey, A C, Kopp, W, Chambers, E, Wang, D, Kim, H R, Acemel, R D, Naranjo, S, Łapiński, M, Chong, V, Mathavan, S, Peers, B, Sauka-Spengler, T, Vingron, M, Carninci, P, Ohler, U, Lacadie, S A, Burgess, S M, Winata, C, van Eeden, F, Vaquerizas, J M, Gómez-Skarmeta, J L, Onichtchouk, D, Brown, B J, Bogdanovic, O, van Nimwegen, E, Westerfield, M, Wardle, F C, Daub, C O, Lenhard, B & Müller, F 2022, ' Multiomic atlas with functional stratification and developmental dynamics of zebrafish cis-regulatory elements ', Nature Genetics, vol. 54, no. 7, pp. 1037-1050 . https://doi.org/10.1038/s41588-022-01089-w
Nature Genetics, 54, 1037–1050
Digital.CSIC. Repositorio Institucional del CSIC
instname

14 pages, 8 figures, supplementary information https://doi.org/10.1038/s41588-022-01089-w.-- Data availability: Raw and aligned sequencing data are available at https://danio-code.zfin.org/dataExport/. The raw sequencing data produced for this study

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::a5c9b0ff730aa047c825365d177a9878
https://edoc.unibas.ch/89500/

Integrated annotation and analysis of genomic features reveal new types of functional elements and large-scale epigenetic phenomena in the developing zebrafish

Autor: Daria Onichtchouk, Carsten O. Daub, Damir Baranasic, Ada Jimenez Gonzalez, Freek van Eeden, Nan Li, Sepand Rastegar, Marcus H. Stoiber, Abdul Kadir Mukarram, Vanessa Chong, Tobias Zehnder, Dennis Wang, Irene Stevens, Joseph W. Wragg, Csilla Várnai, Wolfgang Kopp, Ferenc Müller, Juan M. Vaquerizas, José Luis Gómez-Skarmeta, Sinnakaruppan Mathavan, Scott A. Lacadie, Uwe Ohler, Maciej Lapinski, Hyejeong R. Kim, Shawn M. Burgess, Benjamín Hernández Rodríguez, Fiona C. Wardle, Tatjana Sauka-Spengler, Matthias Hörtenhuber, Zelin Chen, Alison C. McGarvey, Anne E. Eagle, Monte Westerfield, Ozren Bogdanovic, Samuel E. Ross, Noelia Díaz, Cecilia Lanny Winata, Martin Vingron, Piotr J. Balwierz, Piero Carninci, Chirag Nepal, Ryan Martin, Bernard Peers, Ben Brown, Boris Lenhard, Emily V. Chambers, Rafael D. Acemel, Silvia Naranjo, Yavor Hadzhiev, Pelumi Obasaju, Michaël Dong, Fabio M. D’Orazio

Publikováno v: bioRxiv

Zebrafish, a popular model for embryonic development and for modelling human diseases, has so far lacked a systematic functional annotation programme akin to those in other animal models. To address this, we formed the international DANIO-CODE consor

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::1840b36d0deb08af1ec0bd42e5451af2
https://hdl.handle.net/21.11116/0000-0009-1A6B-321.11116/0000-0009-1A69-5

Robotic pancreaticoduodenectomy provides better histopathological outcomes as compared to its open counterpart: a meta-analysis

Autor: Xiang Da Dong, Daniel Moritz Felsenreich, Shekhar Gogna, Aram Rojas, Ethan Zhang, Michael Dong, Asad Azim, Mahir Gachabayov

Publikováno v: Scientific Reports, Vol 11, Iss 1, Pp 1-20 (2021)

Abstract The aim of this meta-analysis was to evaluate whether robotic pancreaticoduodenectomy (PD) may provide better clinical and pathologic outcomes compared to its open counterpart. The Pubmed, EMBASE, and Cochrane Library were systematically sea

Externí odkaz: https://doaj.org/article/5c12f73163e74cf986c53f49a483484f

Globe rupture and total traumatic aniridia following blunt facial trauma 30 years after cataract surgery

Autor: Michael Dong, Daniel T Hogarty, Brandon Thia, Robin Meusemann

Publikováno v: Archives of Trauma Research, Vol 10, Iss 2, Pp 107-108 (2021)

Modern advancements in surgical technique and intraocular implants have reduced the size of the incision required for cataract surgery. However, despite their small size, these wounds may constitute areas of weakness in the globe many years after hea

Externí odkaz: https://doaj.org/article/f1a15df3736f411f93163f2d78357695