ZFIN

ZFIN ID: ZDB-GENE-980526-125

ZFIN ID: ZDB-GENE-980526-125

CITATIONS (195 total)

Gene Name:	hairy-related 1
Gene Symbol:	her1

Bruton, F.A., Kaveh, A., Ross-Stewart, K.M., Matrone, G., Oremek, M.E.M., Solomonidis, E.G., Tucker, C.S., Mullins, J.J., Lucas, C.D., Brittan, M., Taylor, J.M., Rossi, A.G., Denvir, M.A. (2022) Macrophages trigger cardiomyocyte proliferation by increasing epicardial vegfaa expression during larval zebrafish heart regeneration. Developmental Cell. 57(12):1512-1528.e5

Li, Y., Tang, C., Liu, F., Zhu, C., Liu, F., Zhu, P., Wang, L. (2022) DNA methylation safeguards the generation of hematopoietic stem and progenitor cells by repression of Notch signaling. Development (Cambridge, England). 149(10):

Naganathan, S.R., Popović, M., Oates, A.C. (2022) Left-right symmetry of zebrafish embryos requires somite surface tension. Nature. 605(7910):516-521

Zhang, W., Scerbo, P., Delagrange, M., Candat, V., Mayr, V., Vriz, S., Distel, M., Ducos, B., Bensimon, D. (2022) Fgf8 dynamics and critical slowing down may account for the temperature independence of somitogenesis. Communications biology. 5:113

Zinani, O.Q.H., Keseroğlu, K., Dey, S., Ay, A., Singh, A., Özbudak, E.M. (2022) Gene copy number and negative feedback differentially regulate transcriptional variability of segmentation clock genes. iScience. 25:104579

Özelçi, E., Mailand, E., Rüegg, M., Oates, A.C., Sakar, M.S. (2022) Deconstructing body axis morphogenesis in zebrafish embryos using robot-assisted tissue micromanipulation. Nature communications. 13:79347934

Kaveh, A., Bruton, F.A., Oremek, M.E.M., Tucker, C.S., Taylor, J.M., Mullins, J.J., Rossi, A.G., Denvir, M.A. (2021) Selective CDK9 inhibition resolves neutrophilic inflammation and enhances cardiac regeneration in larval zebrafish. Development (Cambridge, England). 149(8):

Kuretani, A., Yamamoto, T., Taira, M., Michiue, T. (2021) Evolution of hes gene family in vertebrates: the hes5 cluster genes have specifically increased in frogs. BMC ecology and evolution. 21:147

Lu, S., Lyu, Z., Wang, Z., Kou, Y., Liu, C., Li, S., Hu, M., Zhu, H., Wang, W., Zhang, C., Kuan, Y.S., Liu, Y.W., Chen, J., Tian, J. (2021) Lipin 1 deficiency causes adult-onset myasthenia with motor neuron dysfunction in humans and neuromuscular junction defects in zebrafish. Theranostics. 11:2788-2805

Guo, Y., Cheng, B.Y.L., Wang, D., Ma, A.C.H., He, B.L., Man, T.K., Cheung, M.P.L., Shi, X., Ng, N.K.L., Leung, A.Y.H. (2020) Function of Arl4aa in the Initiation of Hematopoiesis in Zebrafish by Maintaining Golgi Complex Integrity in Hemogenic Endothelium. Stem Cell Reports. 14(4):575-589

Kaveh, A., Bruton, F.A., Buckley, C., Oremek, M.E.M., Tucker, C.S., Mullins, J.J., Taylor, J.M., Rossi, A.G., Denvir, M.A. (2020) Live Imaging of Heart Injury in Larval Zebrafish Reveals a Multi-Stage Model of Neutrophil and Macrophage Migration. Frontiers in cell and developmental biology. 8:579943

Lleras-Forero, L., Newham, E., Teufel, S., Kawakami, K., Hartmann, C., Hammond, C.L., Knight, R.D., Schulte-Merker, S. (2020) Muscle defects due to perturbed somite segmentation contribute to late adult scoliosis. Aging. 12(18):18603-18621

Prajapati, R.S., Mitter, R., Vezzaro, A., Ish-Horowicz, D. (2020) Greb1 is required for axial elongation and segmentation in vertebrate embryos. Biology Open. 9(2):

Tietz, K.T., Gallagher, T.L., Mannings, M.C., Morrow, Z.T., Derr, N.L., Amacher, S.L. (2020) Pumilio response and AU-rich elements drive rapid decay of Pnrc2-regulated cyclic gene transcripts. Developmental Biology. 462:129-140

Zinani, O.Q.H., Keseroğlu, K., Ay, A., Özbudak, E.M. (2020) Pairing of segmentation clock genes drives robust pattern formation. Nature. 589(7842):431-436

An, S., Ma, L., Wan, L. (2019) TSEE: an elastic embedding method to visualize the dynamic gene expression patterns of time series single-cell RNA sequencing data. BMC Genomics. 20:224

Ban, H., Yokota, D., Otosaka, S., Kikuchi, M., Kinoshita, H., Fujino, Y., Yabe, T., Ovara, H., Izuka, A., Akama, K., Yamasu, K., Takada, S., Kawamura, A. (2019) Transcriptional autoregulation of zebrafish tbx6 is required for somite segmentation. Development (Cambridge, England). 146(18):

Keskin, S., Simsek, M.F., Vu, H.T., Yang, C., Devoto, S.H., Ay, A., Özbudak, E.M. (2019) Regulatory Network of the Scoliosis-Associated Genes Establishes Rostrocaudal Patterning of Somites in Zebrafish. iScience. 12:247-259

Liu, Z., Tu, H., Kang, Y., Xue, Y., Ma, D., Zhao, C., Li, H., Wang, L., Liu, F. (2019) Primary cilia regulate hematopoietic stem and progenitor cell specification through Notch signaling in zebrafish. Nature communications. 10:1839

Monestime, C.M., Taibi, A., Gates, K.P., Jiang, K., Sirotkin, H.I. (2019) CoRest1 regulates neurogenesis in a stage-dependent manner. Developmental Dynamics : an official publication of the American Association of Anatomists. 248(10):918-930

Naoki, H., Akiyama, R., Sari, D.W.K., Ishii, S., Bessho, Y., Matsui, T. (2019) Noise-resistant developmental reproducibility in vertebrate somite formation. PLoS Computational Biology. 15:e1006579

Nittoli, V., Fortunato, A.E., Fasano, G., Coppola, U., Gentile, A., Maiella, S., Langellotto, F., Porreca, I., De Paolo, R., Marino, R., Fiengo, M., Donizetti, A., Aniello, F., Kondo, T., Ristoratore, F., Canzoniero, L.M.T., Duboule, D., Wilson, S.W., Sordino, P. (2019) Characterization of paralogous uncx transcription factor encoding genes in zebrafish. Gene X. 2:100011

Taylor, J.M., Nelson, C.J., Bruton, F.A., Baghbadrani, A.K., Buckley, C., Tucker, C.S., Rossi, A.G., Mullins, J.J., Denvir, M.A. (2019) Adaptive prospective optical gating enables day-long 3D time-lapse imaging of the beating embryonic zebrafish heart. Nature communications. 10:5173

Fujino, Y., Yamada, K., Sugaya, C., Ooka, Y., Ovara, H., Ban, H., Akama, K., Otosaka, S., Kinoshita, H., Yamasu, K., Mishima, Y., Kawamura, A. (2018) Deadenylation by the CCR4-NOT complex contributes to the turnover of hairy-related mRNAs in the zebrafish segmentation clock. FEBS letters. 592(20):3388-3398

Ishimatsu, K., Hiscock, T.W., Collins, Z.M., Sari, D.W.K., Lischer, K., Richmond, D.L., Bessho, Y., Matsui, T., Megason, S.G. (2018) Size-reduced embryos reveal a gradient scaling based mechanism for zebrafish somite formation. Development (Cambridge, England). 145(11)

Keskin, S., Devakanmalai, G.S., Kwon, S.B., Vu, H.T., Hong, Q., Lee, Y.Y., Soltani, M., Singh, A., Ay, A., Özbudak, E.M. (2018) Noise in the Vertebrate Segmentation Clock Is Boosted by Time Delays but Tamed by Notch Signaling. Cell Reports. 23:2175-2185.e4

Kinoshita, H., Ohgane, N., Fujino, Y., Yabe, T., Ovara, H., Yokota, D., Izuka, A., Kage, D., Yamasu, K., Takada, S., Kawamura, A. (2018) Functional roles of the Ripply-mediated suppression of segmentation gene expression at the anterior presomitic mesoderm in zebrafish. Mechanisms of Development. 152:21-31

LLeras Forero, L., Narayanan, R., Huitema, L.F.A., VanBergen, M., Apschner, A., Peterson-Maduro, J., Logister, I., Valentin, G., Morelli, L.G., Oates, A., Schulte-Merker, S. (2018) Segmentation of the zebrafish axial skeleton relies on notochord sheath cells and not on the segmentation clock. eLIFE. 7

Pinto, R.A., Almeida-Santos, J., Lourenço, R., Saúde, L. (2018) Identification of Dmrt2a downstream genes during zebrafish early development using a timely controlled approach. BMC Developmental Biology. 18:14

Sari, D.W.K., Akiyama, R., Naoki, H., Ishijima, H., Bessho, Y., Matsui, T. (2018) Time-lapse observation of stepwise regression of Erk activity in zebrafish presomitic mesoderm. Scientific Reports. 8:4335

Tian, J., Shao, J., Liu, C., Hou, H.Y., Chou, C.W., Shboul, M., Li, G.Q., El-Khateeb, M., Samarah, O.Q., Kou, Y., Chen, Y.H., Chen, M.J., Lyu, Z., Chen, W.L., Chen, Y.F., Sun, Y.H., Liu, Y.W. (2018) Deficiency of lrp4 in zebrafish and human LRP4 mutation induce aberrant activation of Jagged-Notch signaling in fin and limb development. Cellular and molecular life sciences : CMLS. 76(1):163-178

Tomka, T., Iber, D., Boareto, M. (2018) Travelling waves in somitogenesis: Collective cellular properties emerge from time-delayed juxtacrine oscillation coupling. Progress in Biophysics and Molecular Biology. 137:76-87

Trivedi, V., Choi, H.M.T., Fraser, S.E., Pierce, N.A. (2018) Multidimensional quantitative analysis of mRNA expression within intact vertebrate embryos. Development (Cambridge, England). 145(1)

Wopat, S., Bagwell, J., Sumigray, K.D., Dickson, A.L., Huitema, L.F.A., Poss, K.D., Schulte-Merker, S., Bagnat, M. (2018) Spine Patterning Is Guided by Segmentation of the Notochord Sheath. Cell Reports. 22:2026-2038

Yang, Z., Chen, S., Xue, S., Li, X., Sun, Z., Yang, Y., Hu, X., Geng, T., Cui, H. (2018) Generation of Cas9 transgenic zebrafish and their application in establishing an ERV-deficient animal model. Biotechnology Letters. 40(11-12):1507-1518

Chen, K.W., Liao, K.L., Shih, C.W. (2017) The kinetics in mathematical models on segmentation clock genes in zebrafish. Journal of mathematical biology. 76(1-2):97-150

Gallagher, T.L., Tietz, K.T., Morrow, Z.T., McCammon, J.M., Goldrich, M.L., Derr, N.L., Amacher, S.L. (2017) Pnrc2 regulates 3'UTR-mediated decay of segmentation clock-associated transcripts during zebrafish segmentation. Developmental Biology. 429(1):225-239

Lin, C.Y., He, J.Y., Zeng, C.W., Loo, M.R., Chang, W.Y., Zhang, P.H., Tsai, H.J. (2017) microRNA-206 modulates an Rtn4a/Cxcr4a/Thbs3a axis in newly forming somites to maintain and stabilize the somite boundary formation of zebrafish embryos.. Open Biology. 7(7)

Richter, S., Schulze, U., Tomançak, P., Oates, A.C. (2017) Small molecule screen in embryonic zebrafish using modular variations to target segmentation. Nature communications. 8:1901

Sawamiphak, S., Kontarakis, Z., Filosa, A., Reischauer, S., Stainier, D.Y.R. (2017) Transient cardiomyocyte fusion regulates cardiac development in zebrafish. Nature communications. 8:1525

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

Fongang, B., Kudlicki, A. (2016) Comparison between Timelines of Transcriptional Regulation in Mammals, Birds, and Teleost Fish Somitogenesis. PLoS One. 11:e0155802

Liao, B.K., Jörg, D.J., Oates, A.C. (2016) Faster embryonic segmentation through elevated Delta-Notch signalling. Nature communications. 7:11861

Perez-Camps, M., Tian, J., Chng, S.C., Sem, K.P., Sudhaharan, T., Teh, C., Wachsmuth, M., Korzh, V., Ahmed, S., Reversade, B. (2016) Quantitative imaging reveals real-time Pou5f3-Nanog complexes driving dorsoventral mesendoderm patterning in zebrafish. eLIFE. 5

Xu, T., Zhao, J., Xu, Z., Pan, R., Yin, D. (2016) The developmental effects of pentachlorophenol on zebrafish embryos during segmentation: A systematic view. Scientific Reports. 6:25929

Bouldin, C.M., Manning, A.J., Peng, Y.H., Farr, G.H., Hung, K.L., Dong, A., Kimelman, D. (2015) Wnt signaling and tbx16 form a bistable switch to commit bipotential progenitors to mesoderm. Development (Cambridge, England). 142:2499-507

Hsu, C.H., Lin, J.S., Lai, K.P., Li, J.W., Chan, T.F., You, M.S., Tse, W.K., Jiang, Y.J. (2015) A new mib allele with a chromosomal deletion covering foxc1a exhibits anterior somite specification defect.. Scientific Reports. 5:10673

Jenkins, R.P., Hanisch, A., Soza-Ried, C., Sahai, E., Lewis, J. (2015) Stochastic Regulation of her1/7 Gene Expression Is the Source of Noise in the Zebrafish Somite Clock Counteracted by Notch Signalling. PLoS Computational Biology. 11:e1004459

Li, J., Yue, Y., Dong, X., Jia, W., Li, K., Liang, D., Dong, Z., Wang, X., Nan, X., Zhang, Q., Zhao, Q. (2015) Zebrafish foxc1a plays a crucial role in early somitogenesis by restricting the expression of aldh1a2 directly. The Journal of biological chemistry. 290(16):10216-28

Noce, I.D., Carra, S., Brusegan, C., Critelli, R., Frassine, A., De Lorenzo, C., Giordano, A., Bellipanni, G., Villa, E., Cotelli, F., Pistocchi, A., Schepis, F. (2015) The Coiled-Coil Domain Containing 80 (ccdc80) Gene Regulates gadd45β2 Expression in the Developing Somites of Zebrafish as a New Player of the Hedgehog Pathway. Journal of Cellular Physiology. 230(4):821-30

Satija, R., Farrell, J.A., Gennert, D., Schier, A.F., Regev, A. (2015) Spatial reconstruction of single-cell gene expression data. Nat. Biotechnol.. 33(5):495-502

Shi, X., He, B.L., Ma, A.C., Guo, Y., Chi, Y., Man, C.H., Zhang, W., Zhang, Y., Wen, Z., Cheng, T., Leung, A.Y. (2015) Functions of idh1 and its mutation in the regulation of developmental hematopoiesis in zebrafish. Blood. 125(19):2974-84

Shih, N.P., François, P., Delaune, E.A., Amacher, S.L. (2015) Dynamics of the slowing segmentation clock reveal alternating two-segment periodicity. Development (Cambridge, England). 142:1785-93

Akiyama, R., Masuda, M., Tsuge, S., Bessho, Y., and Matsui, T. (2014) An anterior limit of FGF/Erk signal activity marks the earliest future somite boundary in zebrafish. Development (Cambridge, England). 141(5):1104-1109

Ay, A., Holland, J., Sperlea, A., Devakanmalai, G.S., Knierer, S., Sangervasi, S., Stevenson, A., Ozbudak, E.M. (2014) Spatial gradients of protein-level time delays set the pace of the traveling segmentation clock waves. Development (Cambridge, England). 141:4158-67

Bajard, L., Morelli, L.G., Ares, S., Pécréaux, J., Jülicher, F., Oates, A.C. (2014) Wnt-regulated dynamics of positional information in zebrafish somitogenesis. Development (Cambridge, England). 141:1381-91

Kotkamp, K., Mössner, R., Allen, A., Onichtchouk, D., and Driever, W. (2014) A Pou5f1/Oct4 dependent Klf2a, Klf2b, and Klf17 regulatory sub-network contributes to EVL and ectoderm development during zebrafish embryogenesis. Developmental Biology. 385(2):433-47

Maragh, S., Miller, R.A., Bessling, S.L., Wang, G., Hook, P.W., McCallion, A.S. (2014) Rbm24a and Rbm24b Are Required for Normal Somitogenesis. PLoS One. 9:e105460

Retnoaji, B., Akiyama, R., Matta, T., Bessho, Y., and Matsui, T. (2014) Retinoic acid controls proper head-to-trunk linkage in zebrafish by regulating an anteroposterior somitogenetic rate difference. Development (Cambridge, England). 141(1):158-165

Schwendinger-Schreck, J., Kang, Y., Holley, S.A. (2014) Modeling the Zebrafish Segmentation Clock's Gene Regulatory Network Constrained by Expression Data Suggests Evolutionary Transitions Between Oscillating and Non-Oscillating Transcription. Genetics. 197(2):725-38

Soroldoni, D., Jörg, D.J., Morelli, L.G., Richmond, D.L., Schindelin, J., Jülicher, F., Oates, A.C. (2014) Genetic oscillations. A Doppler effect in embryonic pattern formation. Science (New York, N.Y.). 345:222-5

Soza-Ried, C., Oztürk, E., Ish-Horowicz, D., Lewis, J. (2014) Pulses of Notch activation synchronise oscillating somite cells and entrain the zebrafish segmentation clock. Development (Cambridge, England). 141:1780-8

Wanglar, C., Takahashi, J., Yabe, T., Takada, S. (2014) Tbx Protein Level Critical for Clock-Mediated Somite Positioning Is Regulated through Interaction between Tbx and Ripply. PLoS One. 9:e107928

Ay, A., Knierer, S., Sperlea, A., Holland, J., and Ozbudak, E.M. (2013) Short-lived Her proteins drive robust synchronized oscillations in the zebrafish segmentation clock. Development (Cambridge, England). 140(15):3244-3253

Dray, N., Lawton, A., Nandi, A., Jülich, D., Emonet, T., and Holley, S.A. (2013) Cell-Fibronectin Interactions Propel Vertebrate Trunk Elongation via Tissue Mechanics. Current biology : CB. 23(14):1335-41

Hanisch, A., Holder, M.V., Choorapoikayil, S., Gajewski, M., Ozbudak, E.M., and Lewis, J. (2013) The elongation rate of RNA polymerase II in zebrafish and its significance in the somite segmentation clock. Development (Cambridge, England). 140(2):444-453

Hoyle, N.P., and Ish-Horowicz, D. (2013) Transcript processing and export kinetics are rate-limiting steps in expressing vertebrate segmentation clock genes. Proceedings of the National Academy of Sciences of the United States of America. 110(46):E4316-4324

Lackner, S., Schwendinger-Schreck, J., Jülich, D., and Holley, S.A. (2013) Segmental assembly of fibronectin matrix requires rap1b and integrin alpha5. Developmental Dynamics : an official publication of the American Association of Anatomists. 242(2):122-131

Lawton, A.K., Nandi, A., Stulberg, M.J., Dray, N., Sneddon, M.W., Pontius, W., Emonet, T., and Holley, S.A. (2013) Regulated tissue fluidity steers zebrafish body elongation. Development (Cambridge, England). 140(3):573-582

Leichsenring, M., Maes, J., Mössner, R., Driever, W., and Onichtchouk, D. (2013) Pou5f1 transcription factor controls zygotic gene activation in vertebrates. Science (New York, N.Y.). 341(6149):1005-1009

Lin, C.Y., Lee, H.C., Chen, H.C., Hsieh, C.C., and Tsai, H.J. (2013) Normal Function of Myf5 During Gastrulation Is Required for Pharyngeal Arch Cartilage Development in Zebrafish Embryos. Zebrafish. 10(4):486-99

Choorapoikayil, S., Willems, B., Ströhle, P., and Gajewski, M. (2012) Analysis of her1 and her7 Mutants Reveals a Spatio Temporal Separation of the Somite Clock Module. PLoS One. 7(6):e39073

Delaune, E.A., François, P., Shih, N.P., and Amacher, S.L. (2012) Single-cell-resolution imaging of the impact of notch signaling and mitosis on segmentation clock dynamics. Developmental Cell. 23(5):995-1005

Dias, T.B., Yang, Y.J., Ogai, K., Becker, T., and Becker, C.G. (2012) Notch signaling controls generation of motor neurons in the lesioned spinal cord of adult zebrafish. The Journal of neuroscience : the official journal of the Society for Neuroscience. 32(9):3245-3252

Jahangiri, L., Nelson, A.C., Wardle, F.C. (2012) A cis-regulatory module upstream of deltaC regulated by Ntla and Tbx16 drives expression in the tailbud, presomitic mesoderm and somites. Developmental Biology. 371:110-120

Matsui, T., Sasaki, A., Akazawa, N., Otani, H., and Bessho, Y. (2012) Celf1 regulation of dmrt2a is required for somite symmetry and left-right patterning during zebrafish development. Development (Cambridge, England). 139(19):3553-3560

Ramachandran, R., Zhao, X.F., and Goldman, D. (2012) Insm1a-mediated gene repression is essential for the formation and differentiation of Müller glia-derived progenitors in the injured retina. Nature cell biology. 14(10):1013-1023

Schröter, C., Ares, S., Morelli, L.G., Isakova, A., Hens, K., Soroldoni, D., Gajewski, M., Jülicher, F., Maerkl, S.J., Deplancke, B., and Oates, A.C. (2012) Topology and dynamics of the zebrafish segmentation clock core circuit. PLoS Biology. 10(7):e1001364

Shestopalov, I.A., Pitt, C.L., and Chen, J.K. (2012) Spatiotemporal resolution of the Ntla transcriptome in axial mesoderm development. Nature Chemical Biology. 8(3):270-276

Stulberg, M.J., Lin, A., Zhao, H., and Holley, S.A. (2012) Crosstalk between Fgf and Wnt signaling in the zebrafish tailbud. Developmental Biology. 369(2):298-307

Trofka, A., Schwendinger-Schreck, J., Brend, T., Pontius, W., Emonet, T., and Holley, S.A. (2012) The Her7 node modulates the network topology of the zebrafish segmentation clock via sequestration of the Hes6 hub. Development (Cambridge, England). 139(5):940-947

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

Chapouton, P., Webb, K.J., Stigloher, C., Alunni, A., Adolf, B., Hesl, B., Topp, S., Kremmer, E., and Bally-Cuif, L. (2011) Expression of Hairy/enhancer of split genes in neural progenitors and neurogenesis domains of the adult zebrafish brain. The Journal of comparative neurology. 519(9):1748-1769

Chung, P.C., Lin, W.S., Scotting, P.J., Hsieh, F.Y., Wu, H.L., and Cheng, Y.C. (2011) Zebrafish her8a is activated by Su(H)-dependent Notch signaling and is essential for the inhibition of neurogenesis. PLoS One. 6(4):e19394

Gallagher, T.L., Arribere, J.A., Geurts, P.A., Exner, C.R., McDonald, K.L., Dill, K.K., Marr, H.L., Adkar, S.S., Garnett, A.T., Amacher, S.L., and Conboy, J.G. (2011) Rbfox-regulated alternative splicing is critical for zebrafish cardiac and skeletal muscle functions. Developmental Biology. 359(2):251-61

Webb, K.J., Coolen, M., Gloeckner, C.J., Stigloher, C., Bahn, B., Topp, S., Ueffing, M., and Bally-Cuif, L. (2011) The Enhancer of split transcription factor Her8a is a novel dimerisation partner for Her3 that controls anterior hindbrain neurogenesis in zebrafish. BMC Developmental Biology. 11(1):27

Goody, M.F., Kelly, M.W., Lessard, K.N., Khalil, A., and Henry, C.A. (2010) Nrk2b-mediated NAD+ production regulates cell adhesion and is required for muscle morphogenesis in vivo: Nrk2b and NAD+ in muscle morphogenesis. Developmental Biology. 344(2):809-826

Ishimatsu, K., Takamatsu, A., and Takeda, H. (2010) Emergence of traveling waves in the zebrafish segmentation clock. Development (Cambridge, England). 137(10):1595-1599

Kok, F.O., Shepherd, I.T., and Sirotkin, H.I. (2010) Churchill and Sip1a repress fibroblast growth factor signaling during zebrafish somitogenesis. Developmental Dynamics : an official publication of the American Association of Anatomists. 239(2):548-558

Sartori da Silva, M.A., Tee, J.M., Paridaen, J., Brouwers, A., Runtuwene, V., Zivkovic, D., Diks, S.H., Guardavaccaro, D., and Peppelenbosch, M.P. (2010) Essential Role for the d-Asb11 cul5 Box Domain for Proper Notch Signaling and Neural Cell Fate Decisions In Vivo. PLoS One. 5(11):e14023

Schröter, C., and Oates, A.C. (2010) Segment Number and Axial Identity in a Segmentation Clock Period Mutant. Current biology : CB. 20(14):1254-1258

Brend, T., and Holley, S.A. (2009) Zebrafish whole mount high-resolution double fluorescent in situ hybridization. Journal of visualized experiments : JoVE. (25)

Brend, T., and Holley, S.A. (2009) Expression of the oscillating gene her1 is directly regulated by hairy/enhancer of split, T-box, and suppressor of hairless proteins in the zebrafish segmentation clock. Developmental Dynamics : an official publication of the American Association of Anatomists. 238(11):2745-2759

Garnett, A.T., Han, T.M., Gilchrist, M.J., Smith, J.C., Eisen, M.B., Wardle, F.C., and Amacher, S.L. (2009) Identification of direct T-box target genes in the developing zebrafish mesoderm. Development (Cambridge, England). 136(5):749-760

Lee, H.C., Tseng, W.A., Lo, F.Y., Liu, T.M., and Tsai, H.J. (2009) FoxD5 mediates anterior-posterior polarity through upstream modulator Fgf signaling during zebrafish somitogenesis. Developmental Biology. 336(2):232-245

Morley, R.H., Lachani, K., Keefe, D., Gilchrist, M.J., Flicek, P., Smith, J.C., and Wardle, F.C. (2009) A gene regulatory network directed by zebrafish No tail accounts for its roles in mesoderm formation. Proceedings of the National Academy of Sciences of the United States of America. 106(10):3829-3834

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

Wright, D., Ferjentsik, Z., Chong, S.W., Qiu, X., Jiang, Y.J., Malapert, P., Pourquié, O., Van Hateren, N., Wilson, S.A., Franco, C., Gerhardt, H., Dale, J.K., and Maroto, M. (2009) Cyclic Nrarp mRNA expression is regulated by the somitic oscillator but Nrarp protein levels do not oscillate. Developmental Dynamics : an official publication of the American Association of Anatomists. 238(12):3043-3055

Liedtke, D., and Winkler, C. (2008) Midkine-b regulates cell specification at the neural plate border in zebrafish. Developmental Dynamics : an official publication of the American Association of Anatomists. 237(1):62-74

Mazzitello, K.I., Arizmendi, C.M., Hentschel, H.G. (2008) Converting genetic network oscillations into somite spatial patterns. Physical review. E, Statistical, nonlinear, and soft matter physics. 78(2 Pt 1):021906

Ozbudak, E.M., and Lewis, J. (2008) Notch Signalling Synchronizes the Zebrafish Segmentation Clock but Is Not Needed To Create Somite Boundaries. PLoS Genetics. 4(2):e15

Zhang, L., Kendrick, C., Jülich, D., and Holley, S.A. (2008) Cell cycle progression is required for zebrafish somite morphogenesis but not segmentation clock function. Development (Cambridge, England). 135(12):2065-2070

Akanuma, T., Koshida, S., Kawamura, A., Kishimoto, Y., and Takada, S. (2007) Paf1 complex homologues are required for Notch-regulated transcription during somite segmentation. EMBO reports. 8(9):858-863

Chen, J., Jette, C., Kanki, J.P., Aster, J.C., Look, A.T., and Griffin, J.D. (2007) NOTCH1-induced T-cell leukemia in transgenic zebrafish. Leukemia. 21(3):462-471

Cinquin, O. (2007) Repressor Dimerization in the Zebrafish Somitogenesis Clock. PLoS Computational Biology. 3(2):e32

Echeverri, K., and Oates, A.C. (2007) Coordination of symmetric cyclic gene expression during somitogenesis by Suppressor of Hairless involves regulation of retinoic acid catabolism. Developmental Biology. 301(2):388-403

Giudicelli, F., Ozbudak, E.M., Wright, G.J., and Lewis, J. (2007) Setting the Tempo in Development: An Investigation of the Zebrafish Somite Clock Mechanism. PLoS Biology. 5(6):e150

Ishimatsu, K., Horikawa, K., and Takeda, H. (2007) Coupling cellular oscillators: A mechanism that maintains synchrony against developmental noise in the segmentation clock. Developmental Dynamics : an official publication of the American Association of Anatomists. 236(6):1416-1421

Kok, F.O., Oster, E., Mentzer, L., Hsieh, J.C., Henry, C.A., and Sirotkin, H.I. (2007) The role of the SPT6 chromatin remodeling factor in zebrafish embryogenesis. Developmental Biology. 307(2):214-226

Mara, A., Schroeder, J., Chalouni, C., and Holley, S.A. (2007) Priming, initiation and synchronization of the segmentation clock by deltaD and deltaC. Nature cell biology. 9(5):523-530

Riedel-Kruse, I.H., Müller, C., and Oates, A.C. (2007) Synchrony Dynamics During Initiation, Failure, and Rescue of the Segmentation Clock. Science (New York, N.Y.). 317(5846):1911-1915

Shankaran, S.S., Sieger, D., Schroter, C., Czepe, C., Pauly, M.C., Laplante, M.A., Becker, T.S., Oates, A.C., and Gajewski, M. (2007) Completing the set of h/E(spl) cyclic genes in zebrafish: her12 and her15 reveal novel modes of expression and contribute to the segmentation clock. Developmental Biology. 304(2):615-632

Tucker, B., Hepperle, C., Kortschak, D., Rainbird, B., Wells, S., Oates, A.C., and Lardelli, M. (2007) Zebrafish Angiotensin II Receptor-like 1a (agtrl1a) is expressed in migrating hypoblast, vasculature, and in multiple embryonic epithelia. Gene expression patterns : GEP. 7(3):258-265

Zhang, C., Li, Q., Lim, C.H., Qiu, X., and Jiang, Y.J. (2007) The characterization of zebrafish antimorphic mib alleles reveals that Mib and Mind bomb-2 (Mib2) function redundantly. Developmental Biology. 305(1):14-27

Diks, S.H., Bink, R.J., van de Water, S., Joore, J., van Rooijen, C., Verbeek, F.J., den Hertog, J., Peppelenbosch, M.P., and Zivkovic, D. (2006) The novel gene asb11: a regulator of the size of the neural progenitor compartment. The Journal of cell biology. 174(4):581-592

Gajewski, M., Elmasri, H., Girschick, M., Sieger, D., and Winkler, C. (2006) Comparative analysis of her genes during fish somitogenesis suggests a mouse/chick-like mode of oscillation in medaka. Development genes and evolution. 216(6):315-332

Horikawa, K., Ishimatsu, K., Yoshimoto, E., Kondo, S., and Takeda, H. (2006) Noise-resistant and synchronized oscillation of the segmentation clock. Nature. 441(7094):719-723

Machingo, Q.J., Fritz, A., and Shur, B.D. (2006) A beta1,4-galactosyltransferase is required for convergent extension movements in zebrafish. Developmental Biology. 297(2):471-482

Raymond, P.A., Barthel, L.K., Bernardos, R.L., and Perkowski, J.J. (2006) Molecular characterization of retinal stem cells and their niches in adult zebrafish. BMC Developmental Biology. 6:36

Shaw, K.M., Castranova, D.A., Pham, V.N., Kamei, M., Kidd, K.R., Lo, B.D., Torres-Vazquez, J., Ruby, A., and Weinstein, B.M. (2006) fused-somites-like mutants exhibit defects in trunk vessel patterning. Developmental Dynamics : an official publication of the American Association of Anatomists. 235(7):1753-1760

Sieger, D., Ackermann, B., Winkler, C., Tautz, D., and Gajewski, M. (2006) her1 and her13.2 are jointly required for somitic border specification along the entire axis of the fish embryo. Developmental Biology. 293(1):242-251

Chong, S.W., and Jiang, Y.J. (2005) Off limits - Integrins holding boundaries in somitogenesis. Trends in cell biology. 15(9):453-457

Dill, K.K., and Amacher, S.L. (2005) tortuga refines Notch pathway gene expression in the zebrafish presomitic mesoderm at the post-transcriptional level. Developmental Biology. 287(2):225-236

Henry, C.A., McNulty, I.M., Durst, W.A., Munchel, S.E., and Amacher, S.L. (2005) Interactions between muscle fibers and segment boundaries in zebrafish. Developmental Biology. 287(2):346-360

Henry, C.A., Poage, C.T., McCarthy, M.B., Campos-Ortega, J., and Cooper, M.S. (2005) Regionally Autonomous Segmentation Within Zebrafish Presomitic Mesoderm. Zebrafish. 2(1):7-18

Ishitani, T., Matsumoto, K., Chitnis, A.B., and Itoh, M. (2005) Nrarp functions to modulate neural-crest-cell differentiation by regulating LEF1 protein stability. Nature cell biology. 7(11):1106-1112

Julich, D., Hwee, Lim C., Round, J., Nicolaije, C., Schroeder, J., Davies, A., Geisler, R., Lewis, J., Jiang, Y.J., Holley, S.A., Tübingen 2000 Screen Consortium. (2005) beamter/deltaC and the role of Notch ligands in the zebrafish somite segmentation, hindbrain neurogenesis and hypochord differentiation. Developmental Biology. 286(2):391-404

Jülich, D., Geisler, R., Tübingen 2000 Screen Consortium, and Holley, S.A. (2005) Integrinalpha5 and Delta/Notch Signaling Have Complementary Spatiotemporal Requirements during Zebrafish Somitogenesis. Developmental Cell. 8(4):575-586

Kawahara, A., Che, Y.S., Hanaoka, R., Takeda, H., and Dawid, I.B. (2005) Zebrafish GADD45{beta} genes are involved in somite segmentation. Proceedings of the National Academy of Sciences of the United States of America. 102(2):361-366

Kawakami, Y., Raya, A., Raya, R.M., Rodriguez-Esteban, C., and Izpisúa Belmonte, J.C. (2005) Retinoic acid signalling links left-right asymmetric patterning and bilaterally symmetric somitogenesis in the zebrafish embryo. Nature. 435(7039):165-171

Kawamura, A., Koshida, S., Hijikata, H., Ohbayashi, A., Kondoh, H., and Takada, S. (2005) Groucho-associated transcriptional repressor ripply1 is required for proper transition from the presomitic mesoderm to somites. Developmental Cell. 9(6):735-744

Kawamura, A., Koshida, S., Hijikata, H., Sakaguchi, T., Kondoh, H., and Takada, S. (2005) Zebrafish Hairy/Enhancer of split protein links FGF signaling to cyclic gene expression in the periodic segmentation of somites. Genes & Development. 19(10):1156-1161

Koshida, S., Kishimoto, Y., Ustumi, H., Shimizu, T., Furutani-Seiki, M., Kondoh, H., and Takada, S. (2005) Integrinalpha5-Dependent Fibronectin Accumulation for Maintenance of Somite Boundaries in Zebrafish Embryos. Developmental Cell. 8(4):587-598

Ninkovic, J., Tallafuss, A., Leucht, C., Topczewski, J., Tannhäuser, B., Solnica-Krezel, L., and Bally-Cuif, L. (2005) Inhibition of neurogenesis at the zebrafish midbrain-hindbrain boundary by the combined and dose-dependent activity of a new hairy/E(spl) gene pair. Development (Cambridge, England). 132(1):75-88

Oates, A.C., Mueller, C., and Ho, R.K. (2005) Cooperative function of deltaC and her7 in anterior segment formation. Developmental Biology. 280(1):133-149

Saúde, L., Lourenço, R., Gonçalves, A., and Palmeirim, I. (2005) terra is a left-right asymmetry gene required for left-right synchronization of the segmentation clock. Nature cell biology. 7(9):918-920

Shimizu, T., Bae, Y.K., Muraoka, O., and Hibi, M. (2005) Interaction of Wnt and caudal-related genes in zebrafish posterior body formation. Developmental Biology. 279(1):125-141

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

Aerne, B., and Ish-Horowicz, D. (2004) receptor tyrosine phosphatase ψ is required for Delta/Notch signalling and cyclic gene expression in the presomitic mesoderm. Development (Cambridge, England). 131(14):3391-3399

Lewis, K.E., and Eisen, J.S. (2004) Paraxial mesoderm specifies zebrafish primary motoneuron subtype identity. Development (Cambridge, England). 131(4):891-902

Pasini, A., Jiang, Y.J., and Wilkinson, D.G. (2004) Two zebrafish Notch-dependent hairy/Enhancer-of-split-related genes, her6 and her4, are required to maintain the coordination of cyclic gene expression in the presomitic mesoderm. Development (Cambridge, England). 131(7):1529-1541

Rohde, L.A., Oates, A.C., and Ho, R.K. (2004) A Crucial Interaction between Embryonic Red Blood Cell Progenitors and Paraxial Mesoderm Revealed in spadetail Embryos. Developmental Cell. 7(2):251-262

Sieger, D., Tautz, D., and Gajewski, M. (2004) her11 is involved in the somitogenesis clock in zebrafish. Development genes and evolution. 214(8):393-406

Bink, R.J., Habuchi, H., Lele, Z., Dolk, E., Joore, J., Rauch, G.J., Geisler, R., Wilson, S.W., den Hertog, J., Kimata, K., and Zivkovic, D. (2003) Heparan sulfate 6-O-sulfotransferase is essential for muscle development in zebrafish. The Journal of biological chemistry. 278(33):31118-31127

Gajewski, M., Sieger, D., Alt, B., Leve, C., Hans, S., Wolff, C., Rohr, K.B., and Tautz, D. (2003) Anterior and posterior waves of cyclic her1 gene expression are differentially regulated in the presomitic mesoderm of zebrafish. Development (Cambridge, England). 130(18):4269-4278

Lewis, J. (2003) Autoinhibition with transcriptional delay. A simple mechanism for the zebrafish somitogenesis oscillator. Current biology : CB. 13(16):1398-1408

Sieger, D., Tautz, D., and Gajewski, M. (2003) The role of Suppressor of Hairless in Notch mediated signalling during zebrafish somitogenesis. Mechanisms of Development. 120(9):1083-1094

Winkler, C., Elmasri, H., Klamt, B., Volff, J.N., and Gessler, M. (2003) Characterization of hey bHLH genes in teleost fish. Development genes and evolution. 213(11):541-553

Amacher, S.L., Draper, B.W., Summers, B.R., and Kimmel, C.B. (2002) The zebrafish T-box genes no tail and spadetail are required for development of trunk and tail mesoderm and medial floor plate. Development (Cambridge, England). 129(14):3311-3323

Gajewski, M. and Voolstra, C. (2002) Comparative analysis of somitogenesis related genes of the hairy/Enhancer of split class in Fugu and zebrafish. BMC Genomics. 3(1):21

Hans, S. and Campos-Ortega, J.A. (2002) On the organisation of the regulatory region of the zebrafish deltaD gene. Development (Cambridge, England). 129(20):4773-4784

Henry, C.A., Urban, M.K., Dill, K.K., Merlie, J.P., Page, M.F., Kimmel, C.B., and Amacher, S.L. (2002) Two linked hairy/Enhancer of split-related zebrafish genes, her1 and her7, function together to refine alternating somite boundaries. Development (Cambridge, England). 129(15):3693-3704

Holley, S.A. and Takeda, H. (2002) Catching a wave: the oscillator and wavefront that create the zebrafish somite. Seminars in cell & developmental biology. 13(6):481-486

Holley, S.A., Jülich, D., Rauch, G.J., Geisler, R., and Nüsslein-Volhard, C. (2002) her1 and the notch pathway function within the oscillator mechanism that regulates zebrafish somitogenesis. Development (Cambridge, England). 129(5):1175-1183

Nikaido, M., Kawakami, A., Sawada, A., Furutani-Seiki, M., Takeda, H., and Araki, K. (2002) Tbx24, encoding a T-box protein, is mutated in the zebrafish somite-segmentation mutant fused somites. Nature Genetics. 31(2):195-199

Oates, A.C. and Ho, R.K. (2002) Hairy/E(spl)-related (Her) genes are central components of the segmentation oscillator and display redundancy with the Delta/Notch signaling pathway in the formation of anterior segmental boundaries in the zebrafish. Development (Cambridge, England). 129(12):2929-2946

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

Begemann, G., Schilling, T.F., Rauch, G.J., Geisler, R., and Ingham, P.W. (2001) The zebrafish neckless mutation reveals a requirement for raldh2 in mesodermal signals that pattern the hindbrain. Development (Cambridge, England). 128(16):3081-3094

Gray, M., Moens, C.B., Amacher, S.L., Eisen, J.S., and Beattie, C.E. (2001) Zebrafish deadly seven functions in neurogenesis. Developmental Biology. 237(2):306-323

Durbin, L., Sordino, P., Barrios, A., Gering, M., Thisse, C., Thisse, B., Brennan, C., Green, A., Wilson, S., and Holder, N. (2000) Anteroposterior patterning is required within segments for somite boundary formation in developing zebrafish. Development (Cambridge, England). 127(8):1703-1713

Holley, S.A., Geisler, R., and Nüsslein-Volhard, C. (2000) Control of her1 expression during zebrafish somitogenesis by a Delta-dependent oscillator and an independent wave-front activity. Genes & Development. 14(13):1678-1690

Sawada, A., Fritz, A., Jiang, Y., Yamamoto, A., Yamasu, K., Kuroiwa, A., Saga, Y., and Takeda, H. (2000) Zebrafish Mesp family genes, mesp-a and mesp-b are segmentally expressed in the presomitic mesoderm, and Mesp-b confers the anterior identity to the developing somites. Development (Cambridge, England). 127(8):1691-1702

Stickney, H.L., Barresi, M.J.F., and Devoto, S.H. (2000) Somite development in zebrafish. Developmental Dynamics : an official publication of the American Association of Anatomists. 219(3):287-303

Gates, M.A., Kim, L., Egan, E.S., Cardozo, T., Sirotkin, H.I., Dougan, S.T., Lashkari, D., Abagyan, R., Schier, A.F., and Talbot, W.S. (1999) A genetic linkage map for zebrafish: comparative analysis and localization of genes and expressed sequences. Genome research. 9(4):334-347

König, C., Yan, Y.L., Postlethwait, J., Wendler, S., and Campos-Ortega, J.A. (1999) A recessive mutation leading to vertebral ankylosis in zebrafish is associated with amino acid alterations in the homologue of the human membrane-associated guanylate kinase DLG3. Mechanisms of Development. 86(1-2):17-28

Takke, C. and Campos-Ortega, J.A. (1999) her1, a zebrafish pair-rule like gene, acts downstream of notch signalling to control somite development. Development (Cambridge, England). 126(13):3005-3014

Takke, C., Dornseifer, P., von Weizsacker, E., and Campos-Ortega, J.A. (1999) her4, a zebrafish homologue of the Drosophila neurogenic gene E(spl), is a target of notch signalling. Development (Cambridge, England). 126(9):1811-1821

Durbin, L., Brennan, C., Shiomi, K., Cooke, J., Barrios, A., Shanmugalingam, S., Guthrie, B., Lindberg, R., and Holder, N. (1998) Eph signaling is required for segmentation and differentiation of the somites. Genes & Development. 12:3096-3109

Postlethwait, J.H, Yan, Y.-L., Gates, M.A., Horne, S., Amores, A., Brownlie, A., Donovan, A., Egan, E.S., Force, A., Gong, Z., Goutel, C., Fritz, A., Kelsh, R., Knapik, E., Liao, E., Paw, B., Ransom, D., Singer, A., Thomson, M., Abduljabbar, T.S., Yelick, P., Beier, D., Joly, J.-S., Larhammar, D., Rosa, F., Westerfield, M., Zon, L.I., Johnson, S.L., and Talbot, W.S. (1998) Vertebrate genome evolution and the zebrafish gene map. Nature Genetics. 18:345-349

van Eeden, F.J.M., Holley, S.A., Haffter, P., and Nüsslein-Volhard, C. (1998) Zebrafish segmentation and pair-rule patterning. Developmental genetics. 23:65-76

Muller, M., Von, Weizsacker, E., and Campos-Ortega, J.A. (1996) Expression domains of a zebrafish homologue of the Drosophila pair-rule gene hairy correspond to primordia of alternating somites. Development (Cambridge, England). 122:2071-2078

Additional Citations (24):

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.

ZFIN Staff (2015) Data Model Change: Sequence Targeting Reagents Removed from Environment. ZFIN Historical Data.

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.

ZFIN Database Team (2012) Linkage Group (LG) to Chromosome (Chr). Manually curated data.

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.

Phenotype Annotation (1994-2006) (2006) Mutant Data Curated from Older Literature. ZFIN Historical Data.

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

Thisse, C., and Thisse, B. (2005) High Throughput Expression Analysis of ZF-Models Consortium Clones. ZFIN Direct Data Submission.

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

Zebrafish Nomenclature Committee (2003) Nomenclature Data Curation (2003-2010). Nomenclature Committee Submission.

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

ZFIN Staff (2003) Curation of FPC Database Links. 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.

ZFIN Staff (2002) Curation of EMBL records. Automated Data Submission.

Kudoh, T., Tsang, M., Hukriede, N.A., Chen, X., Dedekian, M., Clarke, C.J., Kiang, A., Schultz, S., Epstein, J.A., Toyama, R., and Dawid, I.B. (2001) A gene expression screen in zebrafish embryogenesis. ZFIN Direct Data Submission.