ZFIN

ZFIN ID: ZDB-GENE-030131-3133

ZFIN ID: ZDB-GENE-030131-3133

CITATIONS (53 total)

Gene Name:	basic helix-loop-helix family, member e40
Gene Symbol:	bhlhe40

Chaigne, C., Sapède, D., Cousin, X., Sanchou, L., Blader, P., Cau, E. (2024) Contribution of the eye and of opn4xa function to circadian photoentrainment in the diurnal zebrafish. PLoS Genetics. 20:e1011172e1011172

Letelier, J., Buono, L., Almuedo-Castillo, M., Zang, J., Mounieres, C., González-Díaz, S., Polvillo, R., Sanabria-Reinoso, E., Corbacho, J., Sousa-Ortega, A., Diez Del Corral, R., Neuhauss, S.C.F., Martínez-Morales, J.R. (2023) Mutation of vsx genes in zebrafish highlights the robustness of the retinal specification network. eLIFE. 12:

Nurcombe, Z.W., Hehr, C.L., McFarlane, S. (2023) Plexina4 and cell survival in the developing zebrafish hindbrain. Developmental Dynamics : an official publication of the American Association of Anatomists. 252(11):1323-1337

Kinuhata, T., Sato, K., Bando, T., Mito, T., Miyaishi, S., Nohno, T., Ohuchi, H. (2022) Involvement of a Basic Helix-Loop-Helix Gene BHLHE40 in Specification of Chicken Retinal Pigment Epithelium. Journal of developmental biology. 10(4):

Cechmanek, P.B., Hehr, C.L., McFarlane, S. (2021) Retinal Pigment Epithelium and Neural Retinal Progenitors Interact Via Semaphorin 6D to Facilitate Optic Cup Morphogenesis. eNeuro. 8(3):

Moreno-Mármol, T., Ledesma-Terrón, M., Tabanera, N., Martin-Bermejo, M.J., Cardozo, M.J., Cavodeassi, F., Bovolenta, P. (2021) Stretching of the retinal pigment epithelium contributes to zebrafish optic cup morphogenesis. eLIFE. 10:

Zheng, X., Zhang, K., Zhao, Y., Fent, K. (2021) Environmental chemicals affect circadian rhythms: An underexplored effect influencing health and fitness in animals and humans. Environment International. 149:106159

Xu, B., Tang, X., Jin, M., Zhang, H., Du, L., Yu, S., He, J. (2020) Unifying Developmental Programs for Embryonic and Post-Embryonic Neurogenesis in the Zebrafish Retina. Development (Cambridge, England). 147(12):

Park, J., Belden, W.J. (2018) Long non-coding RNAs have age-dependent diurnal expression that coincides with age-related changes in genome-wide facultative heterochromatin. BMC Genomics. 19:777

Porseryd, T., Reyhanian Caspillo, N., Volkova, K., Elabbas, L., Källman, T., Dinnétz, P., Olsson, P.E., Porsch-Hällström, I. (2018) Testis transcriptome alterations in zebrafish (Danio rerio) with reduced fertility due to developmental exposure to 17α-ethinyl estradiol. General and comparative endocrinology. 262:44-58

Cechmanek, P.B., McFarlane, S. (2017) Retinal pigment epithelium expansion around the neural retina occurs in two separate phases with distinct mechanisms. Developmental Dynamics : an official publication of the American Association of Anatomists. 246(8):598-609

Manesia, J.K., Franch, M., Tabas-Madrid, D., Nogales-Cadenas, R., Vanwelden, T., Van Den Bosch, E., Xu, Z., Pascual-Montano, A., Khurana, S., Verfaillie, C. (2017) Distinct molecular signature of murine fetal liver and adult hematopoietic stem cells identifies novel regulators of hematopoietic stem cell function. Stem cells and development. 26(8):573-584

Ben-Moshe Livne, Z., Alon, S., Vallone, D., Bayleyen, Y., Tovin, A., Shainer, I., Nisembaum, L.G., Aviram, I., Smadja-Storz, S., Fuentes, M., Falcón, J., Eisenberg, E., Klein, D.C., Burgess, H.A., Foulkes, N.S., Gothilf, Y. (2016) Genetically Blocking the Zebrafish Pineal Clock Affects Circadian Behavior. PLoS Genetics. 12:e1006445

Braasch, I., Gehrke, A.R., Smith, J.J., Kawasaki, K., Manousaki, T., Pasquier, J., Amores, A., Desvignes, T., Batzel, P., Catchen, J., Berlin, A.M., Campbell, M.S., Barrell, D., Martin, K.J., Mulley, J.F., Ravi, V., Lee, A.P., Nakamura, T., Chalopin, D., Fan, S., Wcisel, D., Cañestro, C., Sydes, J., Beaudry, F.E., Sun, Y., Hertel, J., Beam, M.J., Fasold, M., Ishiyama, M., Johnson, J., Kehr, S., Lara, M., Letaw, J.H., Litman, G.W., Litman, R.T., Mikami, M., Ota, T., Saha, N.R., Williams, L., Stadler, P.F., Wang, H., Taylor, J.S., Fontenot, Q., Ferrara, A., Searle, S.M., Aken, B., Yandell, M., Schneider, I., Yoder, J.A., Volff, J.N., Meyer, A., Amemiya, C.T., Venkatesh, B., Holland, P.W., Guiguen, Y., Bobe, J., Shubin, N.H., Di Palma, F., Alföldi, J., Lindblad-Toh, K., Postlethwait, J.H. (2016) The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons. Nature Genetics. 48(4):427-37

Zhao, Y., Fent, K. (2016) Progestins alter photo-transduction cascade and circadian rhythm network in eyes of zebrafish (Danio rerio). Scientific Reports. 6:21559

Diotel, N., Viales, R.R., Armant, O., März, M., Ferg, M., Rastegar, S., Strähle, U. (2015) Comprehensive expression map of transcription regulators in the adult zebrafish telencephalon reveals distinct neurogenic niches. The Journal of comparative neurology. 523(8):1202-21

Elkon, R., Milon, B., Morrison, L., Shah, M., Vijayakumar, S., Racherla, M., Leitch, C.C., Silipino, L., Hadi, S., Weiss-Gayet, M., Barras, E., Schmid, C.D., Ait-Lounis, A., Barnes, A., Song, Y., Eisenman, D.J., Eliyahu, E., Frolenkov, G.I., Strome, S.E., Durand, B., Zaghloul, N.A., Jones, S.M., Reith, W., Hertzano, R. (2015) RFX transcription factors are essential for hearing in mice. Nature communications. 6:8549

Liu, J., Merkle, F.T., Gandhi, A.V., Gagnon, J.A., Woods, I.G., Chiu, C.N., Shimogori, T., Schier, A.F., Prober, D.A. (2015) Evolutionarily conserved regulation of hypocretin neuron specification by Lhx9. Development (Cambridge, England). 142(6):1113-24

Zhao, Y., Castiglioni, S., Fent, K. (2015) Environmental progestins progesterone and drospirenone alter the circadian rhythm network in zebrafish (Danio rerio). Environmental science & technology. 49(16):10155-64

Ben-Moshe, Z., Alon, S., Mracek, P., Faigenbloom, L., Tovin, A., Vatine, G.D., Eisenberg, E., Foulkes, N.S., and Gothilf, Y. (2014) The light-induced transcriptome of the zebrafish pineal gland reveals complex regulation of the circadian clockwork by light. Nucleic acids research. 42(6):3750-67

Fiaz, A. W., Léon-Kloosterziel, K. M., van Leeuwen, J. L., Kranenbarg, S. (2014) Exploring the effect of exercise on the transcriptome of zebrafish larvae (Danio rerio). Zeitschrift fur angewandte Ichthyologie = Journal of applied ichthyology. 30(4):728-739

Li, Y., Li, G., Wang, H., Du, J., and Yan, J. (2013) Analysis of a gene regulatory cascade mediating circadian rhythm in zebrafish. PLoS Computational Biology. 9(2):e1002940

Tovin, A., Alon, S., Ben-Moshe, Z., Mracek, P., Vatine, G., Foulkes, N.S., Jacob-Hirsch, J., Rechavi, G., Toyama, R., Coon, S.L., Klein, D.C., Eisenberg, E., and Gothilf, Y. (2012) Systematic Identification of Rhythmic Genes Reveals camk1gb as a New Element in the Circadian Clockwork. PLoS Genetics. 8(12):e1003116

Zhou, M., Yan, J., Ma, Z., Zhou, Y., Abbood, N.N., Liu, J., Su, L., Jia, H., and Guo, A.Y. (2012) Comparative and Evolutionary Analysis of the HES/HEY Gene Family Reveal Exon/Intron Loss and Teleost Specific Duplication Events. PLoS One. 7(7):e40649

Chung, A.Y., Kim, S., Kim, H., Bae, Y.K., and Park, H.C. (2011) Microarray Screening for Genes Involved in Oligodendrocyte Differentiation in the Zebrafish CNS. Experimental Neurobiology. 20(2):85-91

Chen, L., Zhou, J., Xu, H., Xu, G., and Xue, J. (2010) Identification and developmental expression of Dec2 in zebrafish. Fish physiology and biochemistry. 36(3):667-675

Wang, L., Zhou, J.Y., Yao, J.H., Lu, D.R., Qiao, X.J., and Jia, W. (2010) U6 promoter-driven siRNA injection has nonspecific effects in zebrafish. Biochemical and Biophysical Research Communications. 391(3):1363-1368

Wang, Y., Chen, K., Yao, Q., Zheng, X., and Yang, Z. (2009) Phylogenetic Analysis of Zebrafish Basic Helix-Loop-Helix Transcription Factors. Journal of molecular evolution. 68(6):629-640

Veldman, M.B., Bemben, M.A., Thompson, R.C., and Goldman, D. (2007) Gene expression analysis of zebrafish retinal ganglion cells during optic nerve regeneration identifies KLF6a and KLF7a as important regulators of axon regeneration. Developmental Biology. 312(2):596-612

Abe, T., Ishikawa, T., Masuda, T., Mizusawa, K., Tsukamoto, T., Mitani, H., Yanagisawa, T., Todo, T., and Iigo, M. (2006) Molecular analysis of Dec1 and Dec2 in the peripheral circadian clock of zebrafish photosensitive cells. Biochemical and Biophysical Research Communications. 351(4):1072-1077

Yao, J., Wang, L., Chen, L., Zhang, S., Zhao, Q., Jia, W., and Xue, J. (2006) Cloning and developmental expression of the DEC1 ortholog gene in zebrafish. Gene expression patterns : GEP. 6(8):919-927

Woods, I.G., Wilson, C., Friedlander, B., Chang, P., Reyes, D.K., Nix, R., Kelly, P.D., Chu, F., Postlethwait, J.H., and Talbot, W.S. (2005) The zebrafish gene map defines ancestral vertebrate chromosomes. Genome research. 15(9):1307-1314

Strausberg,R.L., Feingold,E.A., Grouse,L.H., Derge,J.G., Klausner,R.D., Collins,F.S., Wagner,L., Shenmen,C.M., Schuler,G.D., Altschul,S.F., Zeeberg,B., Buetow,K.H., Schaefer,C.F., Bhat,N.K., Hopkins,R.F., Jordan,H., Moore,T., Max,S.I., Wang,J., Hsieh,F., Diatchenko,L., Marusina,K., Farmer,A.A., Rubin,G.M., Hong,L., Stapleton,M., Soares,M.B., Bonaldo,M.F., Casavant,T.L., Scheetz,T.E., Brownstein,M.J., Usdin,T.B., Toshiyuki,S., Carninci,P., Prange,C., Raha,S.S., Loquellano,N.A., Peters,G.J., Abramson,R.D., Mullahy,S.J., Bosak,S.A., McEwan,P.J., McKernan,K.J., Malek,J.A., Gunaratne,P.H., Richards,S., Worley,K.C., Hale,S., Garcia,A.M., Gay,L.J., Hulyk,S.W., Villalon,D.K., Muzny,D.M., Sodergren,E.J., Lu,X., Gibbs,R.A., Fahey,J., Helton,E., Ketteman,M., Madan,A., Rodrigues,S., Sanchez,A., Whiting,M., Madan,A., Young,A.C., Shevchenko,Y., Bouffard,G.G., Blakesley,R.W., Touchman,J.W., Green,E.D., Dickson,M.C., Rodriguez,A.C., Grimwood,J., Schmutz,J., Myers,R.M., Butterfield,Y.S., Krzywinski,M.I., Skalska,U., Smailus,D.E., Schnerch,A., Schein,J.E., Jones,S.J., and Marra,M.A. (2002) Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Proceedings of the National Academy of Sciences of the United States of America. 99(26):16899-903

Additional Citations (20):

ZFIN Staff (2023) Automated Curation of UniProt Database Links. Automated Data Submission.

ZFIN Staff (2020) Addition of links from ZFIN to Expression Atlas. Semi-automated Curation.

ZFIN Staff (2017) Curation of PANTHER Gene IDs. Automated Data Submission.

ZFIN Staff (2017) Curation of Alliance of Genome Resources Database Links. Automated Data Submission.

UniProt curators (2015) Electronic Gene Ontology annotations created by transferring manual GO annotations between related proteins based on shared sequence features.. Automated Data Submission.

Busch-Nentwich, E., Kettleborough, R., Dooley, C. M., Scahill, C., Sealy, I., White, R., Herd, C., Mehroke, S., Wali, N., Carruthers, S., Hall, A., Collins, J., Gibbons, R., Pusztai, Z., Clark, R., and Stemple, D.L. (2013) Sanger Institute Zebrafish Mutation Project mutant data submission. ZFIN Direct Data Submission.

ZFIN Staff (2013) Semi-automated association of ENSDARG identifiers with ZFIN genes for the ZMP project. Semi-automated Curation.

UniProt-GOA (2011) Gene Ontology annotation based on the automatic assignment of UniProtKB Subcellular Location terms in UniProtKB/TrEMBL entries. Manually curated data.

Gaudet, P., Livstone, M., Thomas, P., The Reference Genome Project (2010) Annotation inferences using phylogenetic trees. Automated Data Submission.

ZFIN Staff (2007) Microarray Expression to Gene Association in ZFIN. Semi-automated Curation.

Ensembl curators, GOA curators (2006) Automatic transfer of experimentally verified manual GO annotation data to orthologs using Ensembl Compara. Manually curated data.

ZFIN Staff (2006) Curation of Ensembl Database Links. Automated Data Submission.

Thisse, B., Thisse, C. (2004) Fast Release Clones: A High Throughput Expression Analysis. ZFIN Direct Data Submission.

ZFIN Staff (2004) ZGC Data Curation and Association in ZFIN by ZFIN Staff. Semi-automated Curation.

ZFIN Staff (2003) Curation of VEGA Database Links. Automated Data Submission.

ZFIN Staff (2003) Curation of orthology data. Manually curated data.

ZFIN Staff (2002) Gene Ontology Annotation Through Association of UniProt Keywords with GO Terms. Automated Data Submission.

ZFIN Staff (2002) Curation of NCBI Gene Data Via Shared RNA Sequence IDs. Automated Data Submission.

ZFIN Staff (2002) Scientific Curation. Manually curated data.

ZFIN Staff (2002) Gene Ontology Annotation Through Association of InterPro Records with GO Terms. Automated Data Submission.