Download starBase v2.0 Tutorial

Note:
  1. If you make use of the data and web-server presented here,
    please cite our starBase paper (Li et al. Nucleic Acids Res. 2014. & Yang et al. Nucleic Acids Res. 2011) in addition to the primary data sources.

  2. Analysis results from starBase can be downloaded at each web page use
    button
  3. CLIP-Seq Data generated by starBase v2.0 or publications for Human(hg19), Mouse(mm9) and C.elegans(ce6) can be downloaded as follows:

Study RBP Species Accession Experiment CellLine Treatment Download
Zisoulis DG, et al. Nat Struct Mol Biol 2010ALG-1C.elegansSupplementaryDataHITS-CLIPL4-stage wormsDownload
Jungkamp AC, et al. Mol Cell 2011GLD1C.elegansGSE33569iPAR-CLIPBS10804SU or 6SGDownload
Lipchina I, et al. Genes Dev 2011AGO2HumanSupplementaryDataPAR-CLIPhESCs (WA-09)4-thiouridine, RNase T1Download
Kishore S, et al. Nat Methods 2011AGO2HumanGSE28865HITS-CLIPHEK293completeT1, repADownload
Kishore S, et al. Nat Methods 2011AGO2HumanGSE28865HITS-CLIPHEK293completeT1, repBDownload
Kishore S, et al. Nat Methods 2011AGO2HumanGSE28865PAR-CLIPHEK293completeT1, repADownload
Kishore S, et al. Nat Methods 2011AGO2HumanGSE28865PAR-CLIPHEK293completeT1, repBDownload
Kishore S, et al. Nat Methods 2011AGO2HumanGSE28865PAR-CLIPHEK293mildMNase, repADownload
Kishore S, et al. Nat Methods 2011AGO2HumanGSE28865PAR-CLIPHEK293mildMNase, repBDownload
Memczak S, et al. Nature 2013AGO1HumanGSE43573PAR-CLIPHEK2934-thiouridine, ML_MM_6Download
Memczak S, et al. Nature 2013AGO1HumanGSE43573PAR-CLIPHEK2934-thiouridine, ML_MM_7Download
Memczak S, et al. Nature 2013AGO1HumanGSE43573PAR-CLIPHEK2934-thiouridine, ML_MM_8Download
Memczak S, et al. Nature 2013AGO2HumanGSE43573PAR-CLIPHEK2934-thiouridine, 3_ML_LGDownload
Skalsky RL, et al. PLoS Pathog 2012AGO2HumanGSE41437PAR-CLIPEF3D-AGO2EBV B95-8-infected, 4-thiouridine, RNase T1Download
Skalsky RL, et al. PLoS Pathog 2012AGO2HumanGSE41437PAR-CLIPLCL35EBV B95-8-infected, 4-thiouridine, RNase T1Download
Skalsky RL, et al. PLoS Pathog 2012AGO2HumanGSE41437PAR-CLIPLCL-BACEBV B95-8-infected, 4-thiouridine, RNase T1Download
Skalsky RL, et al. PLoS Pathog 2012AGO2HumanGSE41437PAR-CLIPLCL-BACD1EBV B95-8-infected, 4-thiouridine, RNase T1Download
Skalsky RL, et al. PLoS Pathog 2012AGO2HumanGSE41437PAR-CLIPLCL-BACD3EBV B95-8-infected, 4-thiouridine, RNase T1Download
Hafner M, et al. Cell 2010AGO1HumanGSE21918PAR-CLIPHEK2934-thiouridine, RNase T1Download
Hafner M, et al. Cell 2010AGO2HumanGSE21918PAR-CLIPHEK2934-thiouridine, RNase T1Download
Hafner M, et al. Cell 2010AGO3HumanGSE21918PAR-CLIPHEK2934-thiouridine, RNase T1Download
Hafner M, et al. Cell 2010AGO4HumanGSE21918PAR-CLIPHEK2934-thiouridine, RNase T1Download
Hafner M, et al. Cell 2010AGO2HumanGSE21918PAR-CLIPHEK293miR-124 transfected, 4-thiouridine, RNase T1Download
Hafner M, et al. Cell 2010AGO2HumanGSE21918PAR-CLIPHEK293miR-7 transfected, 4-thiouridine, RNase T1Download
Xue Y, et al. Cell 2013AGO2HumanGSE42701HITS-CLIPHelacontrol shRNADownload
Xue Y, et al. Cell 2013AGO2HumanGSE42701HITS-CLIPHelaPTB specific shRNADownload
Karginov FV, et al. Genes Dev 2013AGO2HumanGSE44404HITS-CLIP293SarseniteDownload
Karginov FV, et al. Genes Dev 2013AGO2HumanGSE44404HITS-CLIP293ShippuristanolDownload
Karginov FV, et al. Genes Dev 2013AGO2HumanGSE44404HITS-CLIP293SemetineDownload
Karginov FV, et al. Genes Dev 2013AGO2HumanGSE44404HITS-CLIP293Sno arseniteDownload
Karginov FV, et al. Genes Dev 2013AGO2HumanGSE44404HITS-CLIP293Sno hippuristanolDownload
Karginov FV, et al. Genes Dev 2013AGO2HumanGSE44404HITS-CLIP293Sno emetineDownload
Haecker I, et al. PLoS Pathog 2012AGO2HumanGSE41357HITS-CLIPBCBL-1KSHV-infected, clusters in 2 of 3 replicatesDownload
Haecker I, et al. PLoS Pathog 2012AGO2HumanGSE41357HITS-CLIPBC-3KSHV-infected, clusters in 2 of 3 replicatesDownload
Riley KJ, et al. EMBO J 2012AGO2HumanSupplementalTable8HITS-CLIPJijoyeEBV-infectedDownload
Gottwein E, et al. Cell Host Microbe 2011AGO2HumanGSE32109PAR-CLIPBC-1KSHV-infected, 4-thiouridineDownload
Gottwein E, et al. Cell Host Microbe 2011AGO2HumanGSE32109PAR-CLIPBC-3KSHV-infected, 4-thiouridineDownload
Helwak A, et al. Cell 2013AGO1HumanSupplementalDataS1_S2_S3CLASHFlp-In T-REx 293-PTH-AGO1CLASH protocolDownload
Kishore S, et al. Nat Methods 2011 HuRHumanGSE28865HITS-CLIPHEK293completeT1Download
Kishore S, et al. Nat Methods 2011 HuRHumanGSE28865PAR-CLIPHEK293completeT1Download
Kishore S, et al. Nat Methods 2011 HuRHumanGSE28865PAR-CLIPHEK293mildMNaseDownload
Xue Y, et al. Cell 2013PTBHumanGSE42701HITS-CLIPHela-Download
Hafner M, et al. Cell 2010IGF2BP1HumanGSE21918PAR-CLIPHEK293doxycycline induced, 4-thiouridine, RNase T1Download
Hafner M, et al. Cell 2010IGF2BP2HumanGSE21918PAR-CLIPHEK293doxycycline induced, 4-thiouridine, RNase T1Download
Hafner M, et al. Cell 2010IGF2BP3HumanGSE21918PAR-CLIPHEK293doxycycline induced, 4-thiouridine, RNase T1Download
Hafner M, et al. Cell 2010PUM2HumanGSE21918PAR-CLIPHEK2934-thiouridine, RNase T1Download
Hafner M, et al. Cell 2010QKIHumanGSE21918PAR-CLIPHEK2934-thiouridine, RNase T1Download
Hafner M, et al. Cell 2010TNRC6HumanGSE21918PAR-CLIPHEK293doxycycline induced, 4-thiouridine, RNase T1Download
Saulre J, et al. Nat Struct Mol Biol 2012eIF4AIIIHumanGSE40778HITS-CLIPHelaRNase T1, replicate 1Download
Saulire J, et al. Nat Struct Mol Biol 2012eIF4AIIIHumanGSE40778HITS-CLIPHelaRNase T1, replicate 2Download
Macias S, et al. Nat Struct Mol Biol 2012DGCR8HumanGSE39086HITS-CLIPHEK293TD8 (endogenous DGCR8), replicate 1Download
Macias S, et al. Nat Struct Mol Biol 2012DGCR8HumanGSE39086HITS-CLIPHEK293TD8 (endogenous DGCR8), replicate 2Download
Macias S, et al. Nat Struct Mol Biol 2012DGCR8HumanGSE39086HITS-CLIPHEK293TT7 (overexpressed DGCR8), replicate 1Download
Macias S, et al. Nat Struct Mol Biol 2012DGCR8HumanGSE39086HITS-CLIPHEK293TT7 (overexpressed DGCR8), replicate 2Download
Ascano M Jr, et al. Nature 2012FMRPHumanGSE39682PAR-CLIPHEK293wildtype FMRP iso1, 4-thiouridine, RNase T1Download
Ascano M Jr, et al. Nature 2012FMRPHumanGSE39682PAR-CLIPHEK293wildtype FMRP iso7, 4-thiouridine, RNase T1Download
Ascano M Jr, et al. Nature 2012FMRPHumanGSE39682PAR-CLIPHEK293I304N mutant FMRP iso1, 4-thiouridine, RNase T1Download
Ascano M Jr, et al. Nature 2012FMRPHumanGSE39682PAR-CLIPHEK293I304N mutant FMRP iso7, 4-thiouridine, RNase T1Download
Ascano M Jr, et al. Nature 2012FXR1HumanGSE39682PAR-CLIPHEK293wildtype FXR1, 4-thiouridine, RNase T1Download
Ascano M Jr, et al. Nature 2012FXR2HumanGSE39682PAR-CLIPHEK293wildtype FXR2, 4-thiouridine, RNase T1Download
Nakaya T, et al. RNA 2013FUSHumanGSE43308HITS-CLIPBrain, temporal corticesreplicate1, RNase T1Download
Nakaya T, et al. RNA 2013FUSHumanGSE43308HITS-CLIPBrain, temporal corticesreplicate2, RNase T1Download
Nakaya T, et al. RNA 2013FUSHumanGSE43308HITS-CLIPBrain, temporal corticesreplicate3, RNase T1Download
Hafner M, et al. RNA 2013LIN28AHumanGSE44615PAR-CLIPHEK2934-thiouridine, RNase T1Download
Hafner M, et al. RNA 2013LIN28BHumanGSE44615PAR-CLIPHEK2934-thiouridine, RNase T1Download
Wilbert ML, et al. Mol Cell 2012LIN28HumanGSE39872HITS-CLIPH9 hESCs-Download
Wilbert ML, et al. Mol Cell 2012LIN28HumanGSE39872HITS-CLIPLIN28-V5 293-Download
Sievers C, et al. Nucleic Acids Res 2012MOV10HumanGSE37524PAR-CLIPHEK2934-thiouridineDownload
Baltz AG, et al. Mol Cell 2012ALKBH5HumanGSE38201PAR-CLIPHEK2934-thiouridineDownload
Baltz AG, et al. Mol Cell 2012C17ORF85HumanGSE38201PAR-CLIPHEK2934-thiouridineDownload
Baltz AG, et al. Mol Cell 2012C22ORF28HumanGSE38201PAR-CLIPHEK2934-thiouridineDownload
Baltz AG, et al. Mol Cell 2012CAPRIN1HumanGSE38201PAR-CLIPHEK2934-thiouridineDownload
Baltz AG, et al. Mol Cell 2012ZC3H7BHumanGSE38201PAR-CLIPHEK2934-thiouridineDownload
Hoell JI, et al. Nat Struct Mol Biol 2011EWSR1HumanSRA025082PAR-CLIPHEK2934-thiouridineDownload
Hoell JI, et al. Nat Struct Mol Biol 2011FUSHumanSRA025082PAR-CLIPHEK2934-thiouridineDownload
Hoell JI, et al. Nat Struct Mol Biol 2011FUS-mutantHumanSRA025082PAR-CLIPHEK2934-thiouridineDownload
Hoell JI, et al. Nat Struct Mol Biol 2011TAF15HumanSRA025082PAR-CLIPHEK2934-thiouridineDownload
Sanford JR, et al. Genome Res 2009SFRS1HumanSupplementaryDataHITS-CLIPHEK293T-Download
Zarnack K, et al. Cell 2013hnRNPCHumanE-MTAB-1371iCLIPHelauntreatedDownload
Zarnack K, et al. Cell 2013U2AF65HumanE-MTAB-1371iCLIPHelacontrol siRNADownload
Zarnack K, et al. Cell 2013U2AF65HumanE-MTAB-1371iCLIPHelahnRNP C-specific siRNA or control siRNADownload
Wang Z, et al. PLoS Biol 2010TIA1HumanSupplementaryDataiCLIPHela-Download
Wang Z, et al. PLoS Biol 2010TIAL1HumanSupplementaryDataiCLIPHela-Download
K?nig J, et al. Nat Struct Mol Biol 2010hnRNPCHumanSupplementaryDataiCLIPHela-Download
Znd D, et al. Nat Struct Mol Biol 2013UPF1HumanGSE47976iCLIPHelareplicate1, untreatedDownload
Znd D, et al. Nat Struct Mol Biol 2013UPF1HumanGSE47976iCLIPHelareplicate2, untreatedDownload
Znd D, et al. Nat Struct Mol Biol 2013UPF1HumanGSE47976iCLIPHelareplicate2, puromycoinDownload
Tollervey et al. Nat Neurosci. 2011TDP-43HumanE-MTAB-530iCLIPbrain tissue:SH-SY5Y neuroblastoma:H9 human embryonic stem cells-Download
Chi SW, et al. Nature. 2009AGOMouseSupplementaryDataHITS-CLIPBrain2A8 or 7G1-1* antibodyDownload
Leung AK, et al. Nat Struct Mol Biol 2011AGO2Mouse GSE25310HITS-CLIPmESCsWT1A, KO subtractedDownload
Leung AK, et al. Nat Struct Mol Biol 2011AGO2Mouse GSE25310HITS-CLIPmESCsWT1B, KO subtractedDownload
Leung AK, et al. Nat Struct Mol Biol 2011AGO2Mouse GSE25310HITS-CLIPmESCsWT2, KO subtractedDownload
Loeb GB, et al. Mol Cell 2012AGO2MouseGSE41285HITS-CLIPCD4+ T cells (C57BL/6)WT or miR-155 KODownload
Zhang C, et al. Nat Biotechnol 2011NOVAMouseSupplementaryDataHITS-CLIPBrain-Download
Nakaya T, et al. RNA 2013FUSMouseGSE43308HITS-CLIPHlbx9-GFP+ (ES-derived neuronal cells)replicate1, RNase T1Download
Nakaya T, et al. RNA 2013FUSMouseGSE43308HITS-CLIPHlbx9-GFP+ (ES-derived neuronal cells)replicate2, RNase T1Download
Pandit S, et al. Mol Cell 2013SRSF1MouseGSE44591HITS-CLIPMEF (SRSF1 tet-repressible)-Download
Pandit S, et al. Mol Cell 2013SRSF2MouseGSE44591HITS-CLIPMEF (SRSF2 tet-repressible)-Download
Charizanis K, et al. Neuron 2012MBNL2MouseGSE38497HITS-CLIPhippocampus-Download
Ince-Dunn G, et al. Neuron 2012nElavlMouseTableS2HITS-CLIPforebrain-Download
Ishigaki S, et al. Sci Rep 2012FUSMouseGSE37190HITS-CLIPcerebrum-Download
Licatalosi DD, et al. Genes Dev 2012PTBP2MouseGSE47564HITS-CLIPembryonic cortex-Download
Wang ET, et al. Cell 2012MBNL1MouseGSE39911HITS-CLIPbrain (C56BL/6)-Download
Wang ET, et al. Cell 2012MBNL1MouseGSE39911HITS-CLIPbrain (129SVJ)-Download
Wang ET, et al. Cell 2012MBNL1MouseGSE39911HITS-CLIPheart (C56BL/6)-Download
Wang ET, et al. Cell 2012MBNL1MouseGSE39911HITS-CLIPmuscle (C56BL/6)-Download
Wang ET, et al. Cell 2012MBNL1MouseGSE39911HITS-CLIPC2C12 myoblasts-Download
Liu Y, et al. Sci Rep 2013CirbpMouseGSE40468PAR-CLIPMEF4-thiouridineDownload
Liu Y, et al. Sci Rep 2013Rbm3MouseGSE40468PAR-CLIPMEF4-thiouridineDownload
Polymenidou et al. Nat Neurosci. 2011TDP-43MouseGSE27201HITS-CLIPBrainMnaseDownload
Kaneko et al. Nat Struct Mol Biol. 2013EZH2MouseGSE49433PAR-CLIPE14Tg2A.4 ESCs4-thiouridineDownload