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BioTapestry
genetic regulatory networks, network modeling, network visualization, systems biology software, drawing gene networks, layout of gene networks, view from the genome, view from the nucleus
BioTapestry is an interactive tool for building, visualizing, and simulating genetic regulatory networks.
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Еще 34 сайта после авторизации |
Данные предоставлены сервисом semrush
Данные linkpad ( 24 Апреля 2015 ) | |
Количество ссылок на сайт | 26 |
Количество доменов, которые ссылаются на сайт | 10 |
Количество найденных анкоров | 7 |
Исходящие (внешние) ссылки домена | 75 |
Количество доменов, на которые ссылается сайт | 27 |
Количество исходящих анкоров | 28 |
Внешние ссылки главной страницы ( 107 ) | |
systemsbiology.org | <img> |
caltech.edu | <img> |
sugp.caltech.edu/endomes/index.html | <img> |
java.com/ | here |
java.com/en/download/manual.jsp | here |
baliga.systemsbiology.net/egrin.php | <img> |
its.caltech.edu/~tcellgrn/TCellMap.html | <img> |
its.caltech.edu/~tcellgrn/Oldnetwork.html | T-cell gene regulatory network (2009 Version) |
networks.systemsbiology.net/mtb/content/Environment-Specific... | Environment-specific gene regulatory networks for Mycobacterium tuberculosis |
networks.systemsbiology.net/mtb/ | MTB Network Portal |
phisite.org/main/index.php?nav=search | phiSITE: Database of Gene Regulation in Bacteriophages |
research.nhgri.nih.gov/pigment_cell/templates/files/Diagram.... | The Pigment Cell Gene Network |
dx.doi.org/10.1038/ni.3287 | Regulation of bifurcating B cell trajectories by mutual antagonism between transcription factors IRF4 and IRF8. |
dx.doi.org/10.7554/eLife.08827 | Deployment of a retinal determination gene network drives directed cell migration in the sea urchin embryo. |
dx.doi.org/10.7554/eLife.06942 | NKX2-5 mutations causative for congenital heart disease retain functionality and are directed to hundreds of targets. |
dx.doi.org/10.1530/ERC-14-0454 | HES5 silencing is an early and recurrent change in prostate tumourigenesis. |
dx.doi.org/10.1016/j.jcz.2015.03.005 | Too many ways to make a muscle: Evolution of GRNs governing myogenesis. |
dx.doi.org/10.1242/dev.105445 | Establishing neural crest identity: a gene regulatory recipe. |
dx.doi.org/10.7554/eLife.07343 | Logics and properties of a genetic regulatory program that drives embryonic muscle development in an echinoderm. |
elsevier.com/books/genomic-control-process/davidson/978-0-12... | Genomic Control Process: Development and Evolution |
dx.doi.org/10.1242/dev.117986 | Geometric control of ciliated band regulatory states in the sea urchin embryo. |
dx.doi.org/10.1371/journal.pcbi.1004103 | An Integrated Approach to Reconstructing Genome-Scale Transcriptional Regulatory Networks. |
dx.doi.org/10.1371/journal.pgen.1004912 | A Regulatory Hierarchy Controls the Dynamic Transcriptional Response to Extreme Oxidative Stress in Archaea. |
dx.doi.org/10.1371/journal.pgen.1004837 | Global Analysis of Photosynthesis Transcriptional Regulatory Networks. |
dx.doi.org/10.1073/pnas.1419141111 | Specific functions of the Wnt signaling system in gene regulatory networks throughout the early sea urchin embryo. |
dx.doi.org/10.1073/pnas.1323105111 | Encoding regulatory state boundaries in the pregastrular oral ectoderm of the sea urchin embryo. |
dx.doi.org/10.1534/genetics.114.163642 | Modeling the Zebrafish Segmentation Clock’s Gene Regulatory Network Constrained by Expression Data Suggests Evolutionary Transit... |
dx.doi.org/10.1371/journal.pgen.1004321 | Retinoid-X-Receptors (α/β) in Melanocytes Modulate Innate Immune Responses and Differentially Regulate Cell Survival following U... |
dx.doi.org/10.1016/j.it.2014.03.006 | Gene regulatory networks in the immune system. |
dx.doi.org/10.1038/ni.2795 | Transcriptional programming of dendritic cells for enhanced MHC class II antigen presentation. |
dx.doi.org/10.1242/dev.105775 | A dynamic regulatory network explains ParaHox gene control of gut patterning in the sea urchin. |
dx.doi.org/10.1371/journal.pone.0079909 | Genome-Wide Identification of Regulatory Elements and Reconstruction of Gene Regulatory Networks of the Green Alga Chlamydomonas... |
dx.doi.org/10.1186/1471-2164-14-744 | Control analysis of the eukaryotic cell cycle using gene copy-number series in yeast tetraploids. |
dx.doi.org/10.1002/dvg.22359 | Experimental approaches for gene regulatory network construction: the chick as a model system. |
dx.doi.org/10.1073/pnas.1217538110 | Dpp-induced Egfr signaling triggers postembryonic wing development in Drosophila. |
dx.doi.org/10.3389/fpls.2013.00325 | Navigating the transcriptional roadmap regulating plant secondary cell wall deposition. |
dx.doi.org/10.1242/dev.090829 | VEGFA-dependent and -independent pathways synergise to drive Scl expression and initiate programming of the blood stem cell line... |
dx.doi.org/10.1242/dev.088047 | via negative-feedback regulation of Wnt signalling. |
dx.doi.org/10.1242/dev.082172 | A Hh-driven gene network controls specification, pattern and size of the Drosophila simple eyes |
dx.doi.org/10.1371/journal.pone.0046798 | A Boolean Model of the Cardiac Gene Regulatory Network Determining First and Second Heart Field Identity. |
dx.doi.org/10.1016/j.ydbio.2012.01.006 | Transcription factors involved in lens development from the preplacodal ectoderm. |
dx.doi.org/10.1371/journal.pone.0036145 | The expression of irx7 in the inner nuclear layer of zebrafish retina is essential for a proper retinal development and laminati... |
dx.doi.org/10.1242/dev.081034 | Genome-wide characterization of Foxa2 targets reveals upregulation of floor plate genes and repression of ventrolateral genes in... |
dx.doi.org/10.1016/j.ydbio.2012.07.002 | A cis-regulatory module upstream of deltaC regulated by Ntla and Tbx16 drives expression in the tailbud, presomitic mesoderm and... |
dx.doi.org/10.1371/journal.pbio.1001402 | Opposing nodal and BMP signals regulate left-right asymmetry in the sea urchin larva. |
dx.doi.org/10.1002/wsbm.162 | Regulatory gene network circuits underlying T cell development from multipotent progenitors. |
dx.doi.org/10.1371/journal.pgen.1003121 | Reciprocal signaling between the ectoderm and a mesendodermal left-right organizer directs left-right determination in the sea u... |
dx.doi.org/10.1016/j.ydbio.2012.06.028 | The peripheral sensory nervous system in the vertebrate head: A gene regulatory perspective. |
dx.doi.org/10.1016/j.ydbio.2012.05.035 | Integration of the transcriptional networks regulating limb morphogenesis. |
dx.doi.org/10.1016/j.ydbio.2012.05.002 | Initial deployment of the cardiogenic gene regulatory network in the basal chordate, Ciona intestinalis. |
dx.doi.org/10.1016/j.ydbio.2012.03.014 | Induction of the neural crest state: Control of stem cell attributes by gene regulatory, post-transcriptional and epigenetic int... |
dx.doi.org/10.1038/nature10100 | A gene regulatory network controlling the embryonic specification of endoderm. |
dx.doi.org/10.3389/fpls.2011.00026 | The MADS symphonies of transcriptional regulation. |
dx.doi.org/10.1016/j.ydbio.2009.09.042 | Roles of the Wnt effector POP-1/TCF in the C. elegans endomesoderm specification gene network. |
dx.doi.org/10.1371/journal.pgen.1001259 | Ancestral regulatory circuits governing ectoderm patterning downstream of Nodal and BMP2/4 revealed by gene regulatory network a... |
dx.doi.org/10.1016/j.gene.2010.08.008 | Prediction of regulatory networks in mouse abdominal wall. |
dx.doi.org/10.1016/j.ydbio.2009.12.005 | C. elegans BED domain transcription factor BED-3 controls lineage-specific cell proliferation during organogenesis. |
dx.doi.org/10.1016/j.ydbio.2009.10.037 | The endoderm gene regulatory network in sea urchin embryos up to mid-blastula stage. |
dx.doi.org/10.1371/journal.ppat.1000938 | Built Shallow to Maintain Homeostasis and Persistent Infection: Insight into the Transcriptional Regulatory Network of the Gast... |
dx.doi.org/10.1093/database/baq025 | A curated online resource for SOX10 and pigment cell molecular genetic pathways. |
dx.doi.org/10.1093/nar/gkp911 | phiSITE: database of gene regulation in bacteriophages. |
dx.doi.org/10.1038/ni.1721 | Role of the transcription factor C/EBPδ in a regulatory circuit that discriminates between transient and persistent Toll-like re... |
dx.doi.org/10.1007/978-1-4419-0322-8 | Molecular and Cellular Determinants for Generating ES-Cell Derived Dopamine Neurons for Cell Therapy. |
dx.doi.org/10.1016/j.ydbio.2009.08.005 | The cis-regulatory system of the tbrain gene: Alternative use of multiple modules to promote skeletogenic expression in the sea... |
dx.doi.org/10.1186/1752-0509-3-83 | Monte Carlo analysis of an ODE Model of the Sea Urchin Endomesoderm Network. |
dx.doi.org/10.1371/journal.pgen.1000511 | The Level of the Transcription Factor Pax6 Is Essential for Controlling the Balance between Neural Stem Cell Self-Renewal and N... |
dx.doi.org/10.1371/journal.pgen.1000396 | A systems approach reveals regulatory circuitry for Arabidopsis trichome initiation by the GL3 and GL1 selectors. |
dx.doi.org/10.1016/j.ydbio.2009.02.029 | A perturbation model of the gene regulatory network for oral and aboral ectoderm specification in the sea urchin embryo. |
dx.doi.org/10.1016/j.bbagrm.2008.09.005 | Developmental gene regulatory networks in the zebrafish embryo. |
dx.doi.org/10.1073/pnas.0808382106 | A gene regulatory network directed by zebrafish No tail accounts for its roles in mesoderm formation. |
icpress.co.uk/lifesci/p567.html | Computational Modeling of Gene Regulatory Networks: a Primer, |
dx.doi.org/10.1186/1471-2164-9-511 | Microarray analysis of Foxa2 mutant mouse embryos reveals novel gene expression and inductive roles for the gastrula organizer ... |
dx.doi.org/10.1038/nprot.2008.187 | A protocol for unraveling gene regulatory networks. |
dx.doi.org/10.1073/pnas.0806442105 | Gene regulatory network subcircuit controlling a dynamic spatial pattern of signaling in the sea urchin embryo. |
dx.doi.org/doi:10.1073/pnas.0806009105 | Dissecting early regulatory relationships in the lamprey neural crest gene network. |
dx.doi.org/doi:10.1073/pnas.0806377105 | The Caenorhabditis elegans vulva: A post-embryonic gene regulatory network controlling organogenesis. |
dx.doi.org/10.1073/pnas.0806501105 | Georgescu et. al., 2008 |
dx.doi.org/10.1371/journal.pone.0002179 | How to Build Transcriptional Network Models of Mammalian Pattern Formation. |
dx.doi.org/10.1634/stemcells.2007-0821 | Functional network reconstruction reveals somatic stemness genetic maps and dedifferentiation-like transcriptome reprogramming ... |
dx.doi.org/10.1161/CIRCRESAHA.108.174318 | Notch Signaling in Cardiac Development. |
dx.doi.org/10.1186/gb-2008-9-6-r99 | Identification of transcripts with enriched expression in the developing and adult pancreas. |
cell.com/content/article/abstract?uid=PIIS009286740701416X | Bonneau et.al., 2007 |
dx.doi.org/10.1242/dev.001966 | Vokes et.al., 2007 |
dx.doi.org/10.1142/9781860949920_0008 | Modeling development: spikes of the sea urchin. |
dx.doi.org/10.1016/j.ydbio.2006.05.023 | Tbx5-dependent rheostatic control of cardiac gene expression and morphogenesis. |
dx.doi.org/10.1371/journal.pgen.0020117 | flower development. |
dx.doi.org/10.1016/j.modgep.2006.04.009 | Regulation of spblimp1/krox1a, an alternatively transcribed isoform expressed in midgut and hindgut of the sea urchin gastrula. |
dx.doi.org/10.1016/j.ydbio.2006.02.021 | Expression and function of blimp1/krox, an alternatively transcribed regulatory gene of the sea urchin endomesoderm network. |
dx.doi.org/10.1126/science.1113832 | Gene regulatory networks and the evolution of animal body plans. |
elsevier.com/wps/find/bookdescription.cws_home/706878/descri... | The Regulatory Genome: Gene Regulatory Networks in Development and Evolution, |
dx.doi.org/10.1038/ng1707 | Cooperative and antagonistic interactions between Sall4 and Tbx5 pattern the mouse limb and heart. |
dx.doi.org/10.1073/pnas.0408031102 | Gene regulatory networks for development. |
dx.doi.org/10.1016/j.devcel.2005.09.005 | Genomic regulatory networks and animal development. |
mcb.harvard.edu/McMahon/BioTapestry/index.html | <img> |
dx.doi.org/10.1016/j.ydbio.2005.04.023 | Computational representation of developmental genetic regulatory networks. |
dx.doi.org/10.1016/j.bbagrm.2008.07.014 | Visualization, documentation, analysis, and communication of large-scale gene regulatory networks. |
dx.doi.org/10.12688/f1000research.7620.1 | BioTapestry now provides a web application and improved drawing and layout tools [version 1; referees: 3 approved]. |
sciencedirect.com/science/journal/00121606/283/1 | <img> |
dx.doi.org/10.1007/978-1-61779-292-2_21 | BioTapestry: A Tool to Visualize the Dynamic Properties of Gene Regulatory Networks. |
bentham.org/cg/contabs/cg7-6.htm#1 | Understanding the Dynamic Behavior of Genetic Regulatory Networks by Functional Decomposition. |
groups.google.com/group/biotapestry-users | http://groups.google.com/group/biotapestry-users |
github.com/BioTapestry | GitHub |
github.com/BioTapestry/Production | Java |
github.com/BioTapestry/WebApplication | browser-based Viewer Web Application |
sourceforge.net/projects/launch4j/ | Sourceforge |
bitbucket.org/infinitekind/appbundler/ | BitBucket |
oracle.com/technetwork/java/javase/terms/license/index.html | Oracle Binary Code License Agreement for the Java SE Platform Products |
Внутренние ссылки главной страницы ( 44 ) | |
#feedback | Feedback |
docs/archivedExecutables.html | Archived Executables |
executables/BioTapestryEditor711.zip | BioTapestryEditor711.zip |
executables/BioTapestryEditorInstallImage711.dmg | BioTapestryEditorInstallImage711.dmg |
executables/BioTapestryEditorForLinux711.tgz | BioTapestryEditorForLinux711.tgz |
quickStart/QuickStart.html | Quick Start Tutorial |
grns.biotapestry.org/PancreasGRN/ | Pancreas Genome Regulatory Network |
grns.biotapestry.org/VNT/ | Mouse ventral neural tube specification |
grns.biotapestry.org/ | grns.biotapestry.org |
grns.biotapestry.org/LimbMorph/ | Limb morphogenesis network |
grns.biotapestry.org/Zf/ | Zebrafish developmental gene regulatory network |
webStart/bioTapestryEditor.jnlp | HERE |
faq/FAQ.html | BioTapestry Frequently Asked Questions |
docs/QuickStartModel.btp | QuickStartModel.btp |
quickStart/QuickStartRevA.html | here |
tutorials/dmt/DynamicModelsTutorial.html | Dynamic Submodels Tutorial |
docs/TutorialModelV2.btp | TutorialModelV2.btp |
docs/TutorialExpressionDataV2.xml | TutorialExpressionDataV2.xml |
docs/TutorialInputDataV2.xml | TutorialInputDataV2.xml |
docs/TutorialModelV2-Finished.btp | TutorialModelV2-Finished.btp |
tutorials/ddt/DialogDriven.html | Tutorial on Building Networks from Interaction Tables |
docs/FromDialogTutorial-Finished.btp | FromDialogTutorial-Finished.btp |
tutorials/csv/CSVTutorial.html | Building Networks from Comma-Separated Value Files |
docs/TutorialSpreadsheetVer2.csv | TutorialSpreadsheetVer2.csv |
docs/TutorialSpreadsheetVer2Pass2.csv | TutorialSpreadsheetVer2Pass2.csv |
docs/CSVTutorialModel-Finished.btp | CSVTutorialModel-Finished.btp |
docs/CSVGuide.txt | CSVGuide.txt |
tutorials/paths/PathsTutorial.html | Tutorial on Using and Creating Paths |
docs/PathTutorialInitialModel.btp | PathTutorialInitialModel.btp |
docs/PathTutorialModel-Finished.btp | PathTutorialModel-Finished.btp |
docs/V71ReleaseNotes.html | Version 7.1 Release Notes |
docs/V7ReleaseNotes.html | Version 7 |
docs/V6ReleaseNotes.html | Version 6 |
docs/V5ReleaseNotes.html | Version 5 |
docs/V4ReleaseNotes.html | Version 4 |
docs/V3ReleaseNotes.html | Version 3 |
docs/V2ReleaseNotes.html | Version 2 |
docs/oldReleaseNotes.html | older versions |
docs/BioTapestryWithGaggle.html | here |
src/BioTapestry-7.1.1-src.tar.gz | here |
/webclient/index.html | detailed instructions |
docs/License.html | here |
docs/launch4j-head-LICENSE.html | this |
/docs/LICENSE-APPBUNDLER.txt | GNU General Public License version 2 with "Classpath" exception |
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