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ZFIN ID:
ZDB-GENE-060322-5
CITATIONS
(42 total)
Gene Name:
SRY-box transcription factor 1b
Gene Symbol:
sox1b
Andrzejczuk, L.A., Banerjee, S., England, S.J., Voufo, C., Kamara, K., Lewis, K.E. (2018) Tal1, Gata2a, and Gata3 Have Distinct Functions in the Development of V2b and Cerebrospinal Fluid-Contacting KA Spinal Neurons. Frontiers in neuroscience. 12:170
Dicipulo, R., Selland, L.G., Carpenter, R.G., Waskiewicz, A.J. (2025) Functional role for Taz during hindbrain ventricle morphogenesis. PLoS One. 20:e0313262
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
Farnsworth, D., Posner, M., Miller, A. (2021) Single cell transcriptomics of the developing zebrafish lens and identification of putative controllers of lens development. Experimental Eye Research. 206:108535
Farnsworth, D.R., Saunders, L.M., Miller, A.C. (2020) A single-cell transcriptome atlas for zebrafish development. Developmental Biology. 459(2):100-108
Feng, G., Sun, Y. (2022) The Polycomb group gene
rnf2
is essential for central and enteric neural system development in zebrafish. Frontiers in neuroscience. 16:960149
Gerber, V., Yang, L., Takamiya, M., Ribes, V., Gourain, V., Peravali, R., Stegmaier, J., Mikut, R., Reischl, M., Ferg, M., Rastegar, S., Strähle, U. (2019) The HMG box transcription factors Sox1a and b specify a new class of glycinergic interneurons in the spinal cord of zebrafish embryos. Development (Cambridge, England). 146(4):
Hawkey-Noble, A., Umali, J., Fowler, G., French, C.R. (2020) Expression of three P4- phospholipid Flippases-atp11a, atp11b, and atp11c in zebrafish (Danio rerio). Gene expression patterns : GEP. 36:119115
Huang, X., Wu, C., Gong, K., Chen, Q., Gu, Q., Qin, H., Zhao, C., Yu, T., Yang, L., Fu, W., Wang, Y., Qin, Q., Liu, S. (2020)
Sox
Gene Family Revealed Genetic Variations in Autotetraploid
Carassius auratus
. Frontiers in genetics. 11:804
Lagadec, R., Lanoizelet, M., Sánchez-Farías, N., Hérard, F., Menuet, A., Mayeur, H., Billoud, B., Rodriguez-Moldes, I., Candal, E., Mazan, S. (2018) Neurogenetic asymmetries in the catshark developing habenulae: mechanistic and evolutionary implications. Scientific Reports. 8:4616
Lescat, L., Véron, V., Mourot, B., Péron, S., Chenais, N., Dias, K., Riera, N., Beaumatin, F., Pinel, K., Priault, M., Panserat, S., Salin, B., Guiguen, Y., Bobe, J., Herpin, A., Seiliez, I. (2020) Chaperone-Mediated Autophagy in the light of evolution: insight from fish. Molecular Biology and Evolution. 37(10):2887-2899
Michel, L., Palma, K., Cerda, M., Lagadec, R., Mayeur, H., Fuentès, M., Besseau, L., Martin, P., Magnanou, E., Blader, P., Concha, M.L., Mazan, S. (2022) Diversification of habenular organization and asymmetries in teleosts: Insights from the Atlantic salmon and European eel. Frontiers in cell and developmental biology. 10:1015074
Mukaigasa, K., Sakuma, C., Yaginuma, H. (2021) The developmental hourglass model is applicable to the spinal cord based on single-cell transcriptomes and non-conserved cis-regulatory elements. Development, growth & differentiation. 63(7):372-391
Ogita, Y., Tamura, K., Mawaribuchi, S., Takamatsu, N., Ito, M. (2021) Independent pseudogenizations and losses of sox15 during amniote diversification following asymmetric ohnolog evolution. BMC ecology and evolution. 21:134
Okada, K., Aoki, K., Tabei, T., Sugio, K., Imai, K., Bonkohara, Y., Kamachi, Y. (2022) Key sequence features of CRISPR RNA for dual-guide CRISPR-Cas9 ribonucleoprotein complexes assembled with wild-type or HiFi Cas9. Nucleic acids research. 50(5):2854-2871
Okuda, Y., Ogura, E., Kondoh, H., and Kamachi, Y. (2010) B1 SOX coordinate cell specification with patterning and morphogenesis in the early zebrafish embryo. PLoS Genetics. 6:e1000936
Okuda, Y., Yoda, H., Uchikawa, M., Furutani-Seiki, M., Takeda, H., Kondoh, H., Kamachi, Y. (2006) Comparative genomic and expression analysis of group B1 sox genes in zebrafish indicates their diversification during vertebrate evolution. Developmental Dynamics : an official publication of the American Association of Anatomists. 235(3):811-825
Pandey, S., Shekhar, K., Regev, A., Schier, A.F. (2018) Comprehensive Identification and Spatial Mapping of Habenular Neuronal Types Using Single-Cell RNA-Seq. Current biology : CB. 28(7):1052-1065.e7
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
Sun, Y., Zhang, B., Luo, L., Shi, D.L., Wang, H., Cui, Z., Huang, H., Cao, Y., Shu, X., Zhang, W., Zhou, J., Li, Y., Du, J., Zhao, Q., Chen, J., Zhong, H., Zhong, T.P., Li, L., Xiong, J.W., Peng, J., Xiao, W., Zhang, J., Yao, J., Yin, Z., Mo, X., Peng, G., Zhu, J., Chen, Y., Zhou, Y., Liu, D., Pan, W., Zhang, Y., Ruan, H., Liu, F., Zhu, Z., Meng, A., ZAKOC Consortium (2019) Systematic genome editing of the genes on zebrafish Chromosome 1 by CRISPR/Cas9. Genome research. 30(1):118-26
Talbot, J.C., Teets, E.M., Ratnayake, D., Duy, P.Q., Currie, P.D., Amacher, S.L. (2019) Muscle precursor cell movements in zebrafish are dynamic and require
six-
family genes. Development (Cambridge, England). 146(10):
Wang, Y., Lu, Y., Zhang, Y., Ning, Z., Li, Y., Zhao, Q., Lu, H., Huang, R., Xia, X., Feng, Q., Liang, X., Liu, K., Zhang, L., Lu, T., Huang, T., Fan, D., Weng, Q., Zhu, C., Lu, Y., Li, W., Wen, Z., Zhou, C., Tian, Q., Kang, X., Shi, M., Zhang, W., Jang, S., Du, F., He, S., Liao, L., Li, Y., Gui, B., He, H., Ning, Z., Yang, C., He, L., Luo, L., Yang, R., Luo, Q., Liu, X., Li, S., Huang, W., Xiao, L., Lin, H., Han, B., Zhu, Z. (2015) The draft genome of the grass carp (Ctenopharyngodon idellus) provides insights into its evolution and vegetarian adaptation. Nature Genetics. 47(6):625-31
Woolfe, A., and Elgar, G. (2007) Comparative genomics using Fugu reveals insights into regulatory subfunctionalization. Genome biology. 8(4):R53
Zafar, I., Iftikhar, R., Ahmad, S.U., Rather, M.A. (2021) Genome wide identification, phylogeny, and synteny analysis of
sox gene
family in common carp (
Cyprinus carpio
). Biotechnology reports (Amsterdam, Netherlands). 30:e00607
Zhang, Q., Xu, H., Zhao, W., Zheng, J., Sun, L., Luo, C. (2020) Zygotic Vsx1 Plays a Key Role in Defining V2a Interneuron Sub-Lineage by Directly Repressing
tal1
Transcription in Zebrafish. International Journal of Molecular Sciences. 21(10):
Zhong, L., Yu, X., and Tong, J. (2006) Sox genes in grass carp (Ctenopharyngodon idella) with their implications for genome duplication and evolution. Genetics, selection, evolution : GSE. 38(6):673-687
Dicipulo, R., Selland, L.G., Carpenter, R.G., Waskiewicz, A.J. (2025) Functional role for Taz during hindbrain ventricle morphogenesis. PLoS One. 20:e0313262
Feng, G., Sun, Y. (2022) The Polycomb group gene
rnf2
is essential for central and enteric neural system development in zebrafish. Frontiers in neuroscience. 16:960149
Michel, L., Palma, K., Cerda, M., Lagadec, R., Mayeur, H., Fuentès, M., Besseau, L., Martin, P., Magnanou, E., Blader, P., Concha, M.L., Mazan, S. (2022) Diversification of habenular organization and asymmetries in teleosts: Insights from the Atlantic salmon and European eel. Frontiers in cell and developmental biology. 10:1015074
Okada, K., Aoki, K., Tabei, T., Sugio, K., Imai, K., Bonkohara, Y., Kamachi, Y. (2022) Key sequence features of CRISPR RNA for dual-guide CRISPR-Cas9 ribonucleoprotein complexes assembled with wild-type or HiFi Cas9. Nucleic acids research. 50(5):2854-2871
Farnsworth, D., Posner, M., Miller, A. (2021) Single cell transcriptomics of the developing zebrafish lens and identification of putative controllers of lens development. Experimental Eye Research. 206:108535
Mukaigasa, K., Sakuma, C., Yaginuma, H. (2021) The developmental hourglass model is applicable to the spinal cord based on single-cell transcriptomes and non-conserved cis-regulatory elements. Development, growth & differentiation. 63(7):372-391
Ogita, Y., Tamura, K., Mawaribuchi, S., Takamatsu, N., Ito, M. (2021) Independent pseudogenizations and losses of sox15 during amniote diversification following asymmetric ohnolog evolution. BMC ecology and evolution. 21:134
Zafar, I., Iftikhar, R., Ahmad, S.U., Rather, M.A. (2021) Genome wide identification, phylogeny, and synteny analysis of
sox gene
family in common carp (
Cyprinus carpio
). Biotechnology reports (Amsterdam, Netherlands). 30:e00607
Farnsworth, D.R., Saunders, L.M., Miller, A.C. (2020) A single-cell transcriptome atlas for zebrafish development. Developmental Biology. 459(2):100-108
Hawkey-Noble, A., Umali, J., Fowler, G., French, C.R. (2020) Expression of three P4- phospholipid Flippases-atp11a, atp11b, and atp11c in zebrafish (Danio rerio). Gene expression patterns : GEP. 36:119115
Huang, X., Wu, C., Gong, K., Chen, Q., Gu, Q., Qin, H., Zhao, C., Yu, T., Yang, L., Fu, W., Wang, Y., Qin, Q., Liu, S. (2020)
Sox
Gene Family Revealed Genetic Variations in Autotetraploid
Carassius auratus
. Frontiers in genetics. 11:804
Lescat, L., Véron, V., Mourot, B., Péron, S., Chenais, N., Dias, K., Riera, N., Beaumatin, F., Pinel, K., Priault, M., Panserat, S., Salin, B., Guiguen, Y., Bobe, J., Herpin, A., Seiliez, I. (2020) Chaperone-Mediated Autophagy in the light of evolution: insight from fish. Molecular Biology and Evolution. 37(10):2887-2899
Zhang, Q., Xu, H., Zhao, W., Zheng, J., Sun, L., Luo, C. (2020) Zygotic Vsx1 Plays a Key Role in Defining V2a Interneuron Sub-Lineage by Directly Repressing
tal1
Transcription in Zebrafish. International Journal of Molecular Sciences. 21(10):
Gerber, V., Yang, L., Takamiya, M., Ribes, V., Gourain, V., Peravali, R., Stegmaier, J., Mikut, R., Reischl, M., Ferg, M., Rastegar, S., Strähle, U. (2019) The HMG box transcription factors Sox1a and b specify a new class of glycinergic interneurons in the spinal cord of zebrafish embryos. Development (Cambridge, England). 146(4):
Sun, Y., Zhang, B., Luo, L., Shi, D.L., Wang, H., Cui, Z., Huang, H., Cao, Y., Shu, X., Zhang, W., Zhou, J., Li, Y., Du, J., Zhao, Q., Chen, J., Zhong, H., Zhong, T.P., Li, L., Xiong, J.W., Peng, J., Xiao, W., Zhang, J., Yao, J., Yin, Z., Mo, X., Peng, G., Zhu, J., Chen, Y., Zhou, Y., Liu, D., Pan, W., Zhang, Y., Ruan, H., Liu, F., Zhu, Z., Meng, A., ZAKOC Consortium (2019) Systematic genome editing of the genes on zebrafish Chromosome 1 by CRISPR/Cas9. Genome research. 30(1):118-26
Talbot, J.C., Teets, E.M., Ratnayake, D., Duy, P.Q., Currie, P.D., Amacher, S.L. (2019) Muscle precursor cell movements in zebrafish are dynamic and require
six-
family genes. Development (Cambridge, England). 146(10):
Andrzejczuk, L.A., Banerjee, S., England, S.J., Voufo, C., Kamara, K., Lewis, K.E. (2018) Tal1, Gata2a, and Gata3 Have Distinct Functions in the Development of V2b and Cerebrospinal Fluid-Contacting KA Spinal Neurons. Frontiers in neuroscience. 12:170
Lagadec, R., Lanoizelet, M., Sánchez-Farías, N., Hérard, F., Menuet, A., Mayeur, H., Billoud, B., Rodriguez-Moldes, I., Candal, E., Mazan, S. (2018) Neurogenetic asymmetries in the catshark developing habenulae: mechanistic and evolutionary implications. Scientific Reports. 8:4616
Pandey, S., Shekhar, K., Regev, A., Schier, A.F. (2018) Comprehensive Identification and Spatial Mapping of Habenular Neuronal Types Using Single-Cell RNA-Seq. Current biology : CB. 28(7):1052-1065.e7
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
Wang, Y., Lu, Y., Zhang, Y., Ning, Z., Li, Y., Zhao, Q., Lu, H., Huang, R., Xia, X., Feng, Q., Liang, X., Liu, K., Zhang, L., Lu, T., Huang, T., Fan, D., Weng, Q., Zhu, C., Lu, Y., Li, W., Wen, Z., Zhou, C., Tian, Q., Kang, X., Shi, M., Zhang, W., Jang, S., Du, F., He, S., Liao, L., Li, Y., Gui, B., He, H., Ning, Z., Yang, C., He, L., Luo, L., Yang, R., Luo, Q., Liu, X., Li, S., Huang, W., Xiao, L., Lin, H., Han, B., Zhu, Z. (2015) The draft genome of the grass carp (Ctenopharyngodon idellus) provides insights into its evolution and vegetarian adaptation. Nature Genetics. 47(6):625-31
Okuda, Y., Ogura, E., Kondoh, H., and Kamachi, Y. (2010) B1 SOX coordinate cell specification with patterning and morphogenesis in the early zebrafish embryo. PLoS Genetics. 6:e1000936
Woolfe, A., and Elgar, G. (2007) Comparative genomics using Fugu reveals insights into regulatory subfunctionalization. Genome biology. 8(4):R53
Okuda, Y., Yoda, H., Uchikawa, M., Furutani-Seiki, M., Takeda, H., Kondoh, H., Kamachi, Y. (2006) Comparative genomic and expression analysis of group B1 sox genes in zebrafish indicates their diversification during vertebrate evolution. Developmental Dynamics : an official publication of the American Association of Anatomists. 235(3):811-825
Zhong, L., Yu, X., and Tong, J. (2006) Sox genes in grass carp (Ctenopharyngodon idella) with their implications for genome duplication and evolution. Genetics, selection, evolution : GSE. 38(6):673-687
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 (16):
China Zebrafish Resource Center (CZRC) (2017) CZRC Zebrafish Chromosome 1 All-gene Knockout Project (ZKO project) mutant data submission. ZFIN Direct Data Submission.
Gaudet, P., Livstone, M.S., Lewis, S.E., Thomas, P.D. (2010) Annotation inferences using phylogenetic trees. Automated Data Submission. 12:449-62
GOA curators, UniProt curators (2007) Gene Ontology annotation based on Swiss-Prot Subcellular Location vocabulary mapping. 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.
UniProt-GOA (2011) Gene Ontology annotation based on the manual assignment of UniProtKB Subcellular Location terms in UniProtKB/Swiss-Prot entries. Manually curated data.
ZFIN Staff (2013) Semi-automated association of ENSDARG identifiers with ZFIN genes for the ZMP project. Semi-automated Curation.
ZFIN Staff (2006) Curation of Ensembl Database Links. Automated Data Submission.
ZFIN Staff (2002) Curation of NCBI Gene Data Via Shared RNA Sequence IDs. Automated Data Submission.
ZFIN Staff (2002) Gene Ontology Annotation Through Association of InterPro Records with GO Terms. Automated Data Submission.
ZFIN Staff (2002) Gene Ontology Annotation Through Association of UniProt Keywords with GO Terms. Automated Data Submission.
ZFIN Staff (2017) Curation of Alliance of Genome Resources Database Links. Automated Data Submission.
ZFIN Staff (2023) Automated Curation of UniProt Database Links. Automated Data Submission.
ZFIN Staff (2017) Curation of PANTHER Gene IDs. Automated Data Submission.
ZFIN Staff (2020) Addition of links from ZFIN to Expression Atlas. Semi-automated Curation.
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 (2023) Automated Curation of UniProt Database Links. Automated Data Submission.
ZFIN Staff (2020) Addition of links from ZFIN to Expression Atlas. Semi-automated Curation.
China Zebrafish Resource Center (CZRC) (2017) CZRC Zebrafish Chromosome 1 All-gene Knockout Project (ZKO project) mutant data submission. ZFIN Direct Data Submission.
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.
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 manual assignment of UniProtKB Subcellular Location terms in UniProtKB/Swiss-Prot entries. 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.S., Lewis, S.E., Thomas, P.D. (2010) Annotation inferences using phylogenetic trees. Automated Data Submission. 12:449-62
GOA curators, UniProt curators (2007) Gene Ontology annotation based on Swiss-Prot Subcellular Location vocabulary mapping. Manually curated data.
ZFIN Staff (2006) Curation of Ensembl Database Links. Automated 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 (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) Gene Ontology Annotation Through Association of InterPro Records with GO Terms. Automated Data Submission.
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