Publications

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2023
B. Uszczynska-Ratajczak, Sugunan, S., Kwiatkowska, M., Migdal, M., Carbonell-Sala, S., Sokol, A., Winata, C. L., and Chacinska, A., “Profiling subcellular localization of nuclear-encoded mitochondrial gene products in zebrafish.”, Life Sci Alliance, vol. 6, no. 1, 2023.
B. Uszczynska-Ratajczak, Sugunan, S., Kwiatkowska, M., Migdal, M., Carbonell-Sala, S., Sokol, A., Winata, C. L., and Chacinska, A., “Profiling subcellular localization of nuclear-encoded mitochondrial gene products in zebrafish.”, Life Sci Alliance, vol. 6, no. 1, 2023.
M. Migdał, Arakawa, T., Takizawa, S., Furuno, M., Suzuki, H., Arner, E., Winata, C. Lanny, and Kaczkowski, B., “xcore: an R package for inference of gene expression regulators.”, BMC Bioinformatics, vol. 24, no. 1, p. 14, 2023.
2022
K. Niescierowicz, Pryszcz, L., Navarrete, C., Tralle, E., Sulej, A., Nahia, K. Abu, Kasprzyk, M. Elżbieta, Misztal, K., Pateria, A., Pakuła, A., Bochtler, M., and Winata, C., “Adar-mediated A-to-I editing is required for embryonic patterning and innate immune response regulation in zebrafish.”, Nat Commun, vol. 13, no. 1, p. 5520, 2022.
D. Baranasic, Hörtenhuber, M., Balwierz, P. J., Zehnder, T., Mukarram, A. Kadir, 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. Allen, Burgess, S. M., Winata, C., van Eeden, F., Vaquerizas, J. M., Gómez-Skarmeta, J. Luis, Onichtchouk, D., Brown, B. James, Bogdanovic, O., van Nimwegen, E., Westerfield, M., Wardle, F. C., Daub, C. O., Lenhard, B., and Müller, F., “Multiomic atlas with functional stratification and developmental dynamics of zebrafish cis-regulatory elements.”, Nat Genet, vol. 54, no. 7, pp. 1037-1050, 2022.
D. Baranasic, Hörtenhuber, M., Balwierz, P. J., Zehnder, T., Mukarram, A. Kadir, 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. Allen, Burgess, S. M., Winata, C., van Eeden, F., Vaquerizas, J. M., Gómez-Skarmeta, J. Luis, Onichtchouk, D., Brown, B. James, Bogdanovic, O., van Nimwegen, E., Westerfield, M., Wardle, F. C., Daub, C. O., Lenhard, B., and Müller, F., “Multiomic atlas with functional stratification and developmental dynamics of zebrafish cis-regulatory elements.”, Nat Genet, vol. 54, no. 7, pp. 1037-1050, 2022.
D. Baranasic, Hörtenhuber, M., Balwierz, P. J., Zehnder, T., Mukarram, A. Kadir, 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. Allen, Burgess, S. M., Winata, C., van Eeden, F., Vaquerizas, J. M., Gómez-Skarmeta, J. Luis, Onichtchouk, D., Brown, B. James, Bogdanovic, O., van Nimwegen, E., Westerfield, M., Wardle, F. C., Daub, C. O., Lenhard, B., and Müller, F., “Multiomic atlas with functional stratification and developmental dynamics of zebrafish cis-regulatory elements.”, Nat Genet, vol. 54, no. 7, pp. 1037-1050, 2022.
2021
V. 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., “Cardiac-specific β-catenin deletion dysregulates energetic metabolism and mitochondrial function in perinatal cardiomyocytes.”, Mitochondrion, vol. 60, pp. 59-69, 2021.
V. 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., “Cardiac-specific β-catenin deletion dysregulates energetic metabolism and mitochondrial function in perinatal cardiomyocytes.”, Mitochondrion, vol. 60, pp. 59-69, 2021.
C. Lanny Winata, Łapiński, M., Ismail, H., Mathavan, S., and Sampath, P., “Exploring Translational Control of Maternal mRNAs in Zebrafish.”, Methods Mol Biol, vol. 2218, pp. 367-380, 2021.
K. Abu Nahia, Migdał, M., T Quinn, 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., and Winata, C., “Genomic and physiological analyses of the zebrafish atrioventricular canal reveal molecular building blocks of the secondary pacemaker region.”, Cell Mol Life Sci, vol. 78, no. 19-20, pp. 6669-6687, 2021.
R. Minhas, Loeffler-Wirth, H., Siddiqui, Y. H., Obrębski, T., Vashisht, S., Nahia, K. Abu, Paterek, A., Brzozowska, A., Bugajski, L., Piwocka, K., Korzh, V., Binder, H., and Winata, C. Lanny, “Transcriptome profile of the sinoatrial ring reveals conserved and novel genetic programs of the zebrafish pacemaker.”, BMC Genomics, vol. 22, no. 1, p. 715, 2021.
2020
T. Fricke, Smalakyte, D., Lapinski, M., Pateria, A., Weige, C., Pastor, M., Kolano, A., Winata, C., Siksnys, V., Tamulaitis, G., and Bochtler, M., “Targeted RNA Knockdown by a Type III CRISPR-Cas Complex in Zebrafish.”, CRISPR J, vol. 3, no. 4, pp. 299-313, 2020.
T. Fricke, Smalakyte, D., Lapinski, M., Pateria, A., Weige, C., Pastor, M., Kolano, A., Winata, C., Siksnys, V., Tamulaitis, G., and Bochtler, M., “Targeted RNA Knockdown by a Type III CRISPR-Cas Complex in Zebrafish.”, CRISPR J, vol. 3, no. 4, pp. 299-313, 2020.
2018
C. L. Winata, 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., “Cytoplasmic polyadenylation-mediated translational control of maternal mRNAs directs maternal-to-zygotic transition”, Development, vol. 145, 2018.
2014
K. Hana Utami, 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., “Impaired development of neural-crest cell-derived organs and intellectual disability caused by MED13L haploinsufficiency.”, Hum Mutat, vol. 35, no. 11, pp. 1311-20, 2014.
2013
C. L. Winata, Kondrychyn, I., Kumar, V., Srinivasan, K. G., Orlov, Y., Ravishankar, A., Prabhakar, S., Stanton, L. W., Korzh, V., and Mathavan, S., “Genome wide analysis reveals Zic3 interaction with distal regulatory elements of stage specific developmental genes in zebrafish.”, PLoS Genet, vol. 9, no. 10, p. e1003852, 2013.
C. L. Winata, Kondrychyn, I., Kumar, V., Srinivasan, K. G., Orlov, Y., Ravishankar, A., Prabhakar, S., Stanton, L. W., Korzh, V., and Mathavan, S., “Genome wide analysis reveals Zic3 interaction with distal regulatory elements of stage specific developmental genes in zebrafish.”, PLoS Genet, vol. 9, no. 10, p. e1003852, 2013.
2011
H. Aanes, Winata, C. L., Lin, C. Ho, Chen, J. P., Srinivasan, K. G., Lee, S. G. P., Lim, A. Y. M., Hajan, H. Shreen, Collas, P., Bourque, G., Gong, Z., Korzh, V., Aleström, P., and Mathavan, S., “Zebrafish mRNA sequencing deciphers novelties in transcriptome dynamics during maternal to zygotic transition.”, Genome Res, vol. 21, no. 8, pp. 1328-38, 2011.
2006
S. Hong Lam, Winata, C. L., Tong, Y., Korzh, S., San Lim, W., Korzh, V., Spitsbergen, J., Mathavan, S., Miller, L. D., Liu, E. T., and Gong, Z., “Transcriptome kinetics of arsenic-induced adaptive response in zebrafish liver.”, Physiol Genomics, vol. 27, no. 3, pp. 351-61, 2006.
S. Hong Lam, Winata, C. L., Tong, Y., Korzh, S., San Lim, W., Korzh, V., Spitsbergen, J., Mathavan, S., Miller, L. D., Liu, E. T., and Gong, Z., “Transcriptome kinetics of arsenic-induced adaptive response in zebrafish liver.”, Physiol Genomics, vol. 27, no. 3, pp. 351-61, 2006.