Epigenomics and transcriptomics profiles of developing zebrafish heart cells
Chahal, G., Eichenlaub, M.P., Tondl, M. et al.
Sci Data 12, 1620 (2025)
Protocol for the preparation of zebrafish whole heart cell suspension for single-cell analyses
Abu Nahia K., Winata C.
STAR Protocols 6, 1 (2025)
Computational analysis of congenital heart disease associated SNPs: Unveiling their impact on the gene regulatory system
Vashisht S., Parisi C., Winata C.
BMC Genomics 26, 55 (2025)
Loss of Stim2 in zebrafish induces glaucoma-like phenotype
Baranykova, S., Gupta, R.K., Kajdasz, A., Wasilewska, I., Macias, M., Szybinska, A., Węgierski, T., Nahia, K.A., Mondal, S.S., Winata, C.L., Kuźnicki, J., Majewski, L.
Scientific Reports. 14:2444224442 (2024)
scRNA-seq reveals the diversity of the developing cardiac cell lineage and molecular building blocks of the primary pacemaker
Abu Nahia K., Sulej A., Migdał M., Ochocka N., Ho R., Kamińska B., Zagorski M., Winata C.L.
iScience 27(6) (2024)
Lack of Stim2 Affects Vision-Dependent Behavior and Sensitivity to Hypoxia
Wasilewska I., Majewski L., Adamek-Urbańska D., Mondal S.S., Baranykova S., Gupta R.K., Bielecki D., Winata C.L., and Kuznicki J.
Zebrafish 20(4): 146-159 (2023)
xcore: an R package for inference of gene expression regulators
Migdał M., Arakawa T., Takizawa S., Furuno M., Suzuki H., Arner E., Winata C.L., Kaczkowski B.
BMC Bioinformatics 24:14 (2023)
Profiling subcellular localization of nuclear-encoded mitochondrial gene products in zebrafish
Uszczynska-Ratajczak B., Sugunan S., Kwiatkowska M., Migdal M., Carbonell-Sala S., Sokol A., Winata C.L., Chacinska A.
Life Sci Alliance 6(1):e202201514 (2022)
A Zebrafish/Drosophila Dual System Model for Investigating Human Microcephaly
Bartoszewski, S., Dawidziuk, M., Kasica, N., Durak, R., Jurek, M., Podwysocka, A., Guilbride, D.L., Podlasz, P., Winata, C.L., Gawlinski, P.
Cells. 11(17) (2022)
Adar-mediated A-to-I editing is required for establishment of embryonic body axes in zebrafish
Niescierowicz K., Pryszcz L., Navarette C., Tralle E., Sulej A., Abu Nahia K., Kasprzyk M., Misztal K., Pateria A., Pakula A., Bochtler M., Winata C.
Nature Communications 13(1): 5520 (2022)
Multiomic atlas with functional stratification and developmental dynamics of zebrafish cis-regulatory elements
Baranasic D., Hortenhuber M., Balwierz P., Zehnder T., Mukarram A., Nepal C., et al.
Nature Genetics 54, 1037-1050 (2022)
Cardiac-specific β-catenin deletion dysregulates energetic metabolism and mitochondrial function in perinatal cardiomyocytes
V. Balatskyi, Vaskivskyi, V. O., Myronova, A., Avramets, D., Nahia, K. Abu, Macewicz, L. L., Ruban, T. P., Kucherenko, D. ‘yaYu, Soldatkin, O. O., Lushnikova, I. V., Skibo, G. G., Winata, C. L., Dobrzyn, P., and Piven, O. O.
Mitochondrion, vol. 60, pp. 59-69 (2021)
Multi-omics analyses of early liver injury reveals cell-type-specific transcriptional and epigenomic shift
Migdał M., Tralle E., Abu Nahia K., Bugajski Ł., Kędzierska K., Garbicz F., Piwocka K., Winata C., Pawlak M.
BMC Genomics 22: 904 (2021)
Genomic and physiological analyses of the zebrafish atrioventricular canal reveal molecular building blocks of the secondary pacemaker region
Abu Nahia K., Migdał M., Quinn T.A., Poon K.L., Łapiński M., Sulej A., Liu J., Mondal S.S., Pawlak M., Bugajski Ł., Piwocka K., Brand T., Kohl P., Korzh V., Winata C.
Cellular and Molecular Life Sciences 78(19-20):6669-6687 (2021)
Transcriptome profile of the sinoatrial ring reveals conserved and novel genetic programs of the zebrafish pacemaker
Minhas R., Loeffler-Wirth H., Siddiqui Y.H., Obrębski T., Vashisht S., Abu Nahia K., Paterek A., Brzozowska A., Bugajski L., Piwocka K., Korzh V., Binder H., Winata C.L.
BMC Genomics. 22(1):715 (2021)
Exploring Translational Control of Maternal mRNAs in Zebrafish
Winata C.L., Łapiński M., Ismail H., Mathavan S., and Sampath P.
Methods Mol Biol, vol. 2218, pp. 367-380 (2021)
Fish-Ing for Enhancers in the Heart
Parisi C., Vashisht, S., and Winata, C. L.
Int J Mol Sci, vol. 22, no. 8 (2021)
Targeted RNA knockdown by a Type III CRISPR-Cas complex in zebrafish
Fricke T., Smalakyte D., Lapinski M., Pateria A., Weige C., Pastor M., Kolano A., Winata C., Siksnys V., Tamulaitis G. Bochtler M.
CRISPR Journal 3(4): 299-313 (2020)
The zebrafish as a model for developmental and biomedical research in Poland and beyond
Winata C. L., Dodzian, J., and Bialek-Wyrzykowska, U.
Dev Biol, vol. 457, no. 2, pp. 167-168 (2020)
A novel conserved enhancer at zebrafish zic3 and zic6 loci drives neural expression
Minhas R., Paterek A., Łapiński M., Bazała M., Korzh V., Winata C.L.
Developmental Dynamics. 248(9):837-849 (2019)
Dynamics of cardiomyocyte transcriptome and chromatin landscape demarcates key events of heart development
Pawlak M., Kedzierska K.Z., Migdal M., Abu Nahia K., Ramilowski J.A., Bugajski L., Hashimoto K., Marconi A., Piwocka K., Carninci P., Winata C.L.
Genome Research, 29(3): 506–519 (2019)
Cytoplasmic polyadenylation-mediated translational control of maternal mRNAs directs maternal-to-zygotic transition
Winata C.L., Łapiński M., Pryszcz L., Vaz C., Bin Ismail M. H., Nama S., Hajan H. S., Lee S. G. P., Korzh V., Sampath P., Tanavde V., and Mathavan S.
Development, vol. 145 (2018)
The translational regulation of maternal mRNAs in time and space
Winata C. L. and Korzh V.
FEBS Lett. (2018)
The canonical way to make a heart: β-catenin and plakoglobin in heart development and remodeling
Piven O. O. and Winata C. L.
Exp. Biol. Med. (Maywood), vol. 242, pp. 1735–1745 (2017)
DANIO-CODE: Toward an Encyclopedia of DNA Elements in Zebrafish
Tan H., Onichtchouk D., and Winata C.
Zebrafish, vol. 13, no. 1, pp. 54-60 (2016)
BAC transgenic zebrafish for transcriptional promoter and enhancer studies
Kraus P., Winata C. L., and Lufkin T.
Methods Mol Biol, vol. 1227, pp. 245-58 (2015)
Changing Faces of Transcriptional Regulation Reflected by Zic3
Winata C. L., Kondrychyn I., and Korzh V.
Current Genomics, vol. 16, pp. 117-127 (2015)
Impaired development of neural-crest cell-derived organs and intellectual disability caused by MED13L haploinsufficiency
Hana Utami K., Winata C. L., Hillmer A. M., Aksoy I., Long H. Truong, Liany H., G Y Chew E., Mathavan S., Tay S. K. H., Korzh V., Sarda P., Davila S., and Cacheux V.
Hum Mutat, vol. 35, no. 11, pp. 1311-20 (2014)
BAC transgenic zebrafish for transcriptional promoter and enhancer studies
Kraus P., Winata C.L., Lufkin T.
Bacterial Artificial Chromosomes, 245-258 (2014)
Normalization of RNA-sequencing data from samples with varying mRNA levels
Aanes H., Winata C., Moen L.F. , Østrup O., Mathavan S., Collas P., Rognes T., Aleström P.
PloS one 9 (2), e89158 (2014)
Genome wide analysis reveals Zic3 interaction with distal regulatory elements of stage specific developmental genes in zebrafish
Winata C.L., Kondrychyn I., Kumar V., Srinivasan K.G., Orlov Y., Ravishankar A., Prabhakar S., Stanton L.W., Korzh V., Mathavan S.
PLoS genetics 9 (10), e1003852 (2013)
Prepatterning of developmental gene expression by modified histones before zygotic genome activation
Lindeman L.C., Andersen I.S., Reiner nA.H., Li N., Aanes H., Østrup O., Winata C., Mathavan S., Müller F., Aleström P., Collas P.
Developmental cell 21 (6), 993-1004 (2011)
The interaction of epithelial Ihha and mesenchymal Fgf10 in zebrafish esophageal and swimbladder development
Korzh S., WinatanC.L., Zheng W., Yang S., Yin A., Ingham P., Korzh V., Gong Z.
Developmental Biology 359 (2), 262-276 (2011)
Zebrafish mRNA sequencing deciphers novelties in transcriptome dynamics during maternal to zygotic transition
Aanes H., Winata C.L., Lin C.H., Chen J.P., Srinivasan K.G., Lee S.G.P., Lim A.Y.M., Hajan H.S., Collas P., Bourque G., Gong Z., Korzh V., Aleström P., Mathavan S.
Genome research 21 (8), 1328-1338 (2011)
Wnt signaling is required for early development of zebrafish swimbladder
Yin A., Korzh S., Winata C.L., Korzh V., Gong Z.
PloS one 6 (3), e18431 (2011)
Expression of components of Wnt and Hedgehog pathways in different tissue layers during lung development in Xenopus laevis
Yin A., Winata C.L., Korzh S., Korzh V., Gong Z.
Gene expression patterns 10 (7-8), 338-344 (2010)
Mercury-induced hepatotoxicity in zebrafish: in vivo mechanistic insights from transcriptome analysis, phenotype anchoring and targeted gene expression validation
Ung C.Y., Lam S.H., Hlaing M.M., Winata C.L., Korzh S., Mathavan S., Gong Z.
Bmc Genomics 11 (1), 212 (2010)
Chromatin states of developmentally-regulated genes revealed by DNA and histone methylation patterns in zebrafish embryos
Lindeman L.C., Winata C.L., Aanes H., Mathavan S., Aleström P., Collas P.
International Journal of Developmental Biology 54 (5), 803-813 (2010)
The role of vasculature and blood circulation in zebrafish swimbladder development
Winata C.L., Korzh S., Kondrychyn I., Korzh V., Gong Z.
BMC Developmental Biology 10 (1), 3 (2010)
Development of zebrafish swimbladder: The requirement of Hedgehog signaling in specification and organization of the three tissue layers
Winata C.L., Korzh S., Kondrychyn I., Zheng W., Korzh V., Gong Z.
Developmental biology 331 (2), 222-236 (2009)
Requirement of vasculogenesis and blood circulation in late stages of liver growth in zebrafish
Korzh S., Pan X., Garcia-Lecea M., Winata C.L., Pan X., Wohland T., Korzh V., Gong Z.
BMC developmental biology 8 (1), 84 (2008)
Transcriptome kinetics of arsenic-induced adaptive response in zebrafish liver
Lam S.H., Winata C.L., Tong Y., Korzh S., Lim W.S., Korzh V., Spitsbergen J., Gong Z.
Physiological genomics 27 (3), 351-361 (2006)