<?xml version="1.0"?>
<ownershipDocument>

    <schemaVersion>X0303</schemaVersion>

    <documentType>4</documentType>

    <periodOfReport>2010-07-30</periodOfReport>

    <notSubjectToSection16>0</notSubjectToSection16>

    <issuer>
        <issuerCik>0001373671</issuerCik>
        <issuerName>Isilon Systems, Inc.</issuerName>
        <issuerTradingSymbol>ISLN</issuerTradingSymbol>
    </issuer>

    <reportingOwner>
        <reportingOwnerId>
            <rptOwnerCik>0001106910</rptOwnerCik>
            <rptOwnerName>ATLAS VENTURE FUND V LP</rptOwnerName>
        </reportingOwnerId>
        <reportingOwnerAddress>
            <rptOwnerStreet1>C/O ATLAS VENTURE</rptOwnerStreet1>
            <rptOwnerStreet2>890 WINTER STREET, SUITE 320</rptOwnerStreet2>
            <rptOwnerCity>WALTHAM</rptOwnerCity>
            <rptOwnerState>MA</rptOwnerState>
            <rptOwnerZipCode>02451</rptOwnerZipCode>
            <rptOwnerStateDescription></rptOwnerStateDescription>
        </reportingOwnerAddress>
        <reportingOwnerRelationship>
            <isDirector>0</isDirector>
            <isOfficer>0</isOfficer>
            <isTenPercentOwner>1</isTenPercentOwner>
            <isOther>0</isOther>
        </reportingOwnerRelationship>
    </reportingOwner>

    <reportingOwner>
        <reportingOwnerId>
            <rptOwnerCik>0001133807</rptOwnerCik>
            <rptOwnerName>ATLAS VENTURE ENTREPRENEURS FUND V LP</rptOwnerName>
        </reportingOwnerId>
        <reportingOwnerAddress>
            <rptOwnerStreet1>C/O ATLAS VENTURE</rptOwnerStreet1>
            <rptOwnerStreet2>890 WINTER STREET, SUITE 320</rptOwnerStreet2>
            <rptOwnerCity>WALTHAM</rptOwnerCity>
            <rptOwnerState>MA</rptOwnerState>
            <rptOwnerZipCode>02451</rptOwnerZipCode>
            <rptOwnerStateDescription></rptOwnerStateDescription>
        </reportingOwnerAddress>
        <reportingOwnerRelationship>
            <isDirector>0</isDirector>
            <isOfficer>0</isOfficer>
            <isTenPercentOwner>1</isTenPercentOwner>
            <isOther>0</isOther>
        </reportingOwnerRelationship>
    </reportingOwner>

    <reportingOwner>
        <reportingOwnerId>
            <rptOwnerCik>0001133805</rptOwnerCik>
            <rptOwnerName>ATLAS VENTURE ASSOCIATES V LP</rptOwnerName>
        </reportingOwnerId>
        <reportingOwnerAddress>
            <rptOwnerStreet1>C/O ATLAS VENTURE</rptOwnerStreet1>
            <rptOwnerStreet2>890 WINTER STREET, SUITE 320</rptOwnerStreet2>
            <rptOwnerCity>WALTHAM</rptOwnerCity>
            <rptOwnerState>MA</rptOwnerState>
            <rptOwnerZipCode>02451</rptOwnerZipCode>
            <rptOwnerStateDescription></rptOwnerStateDescription>
        </reportingOwnerAddress>
        <reportingOwnerRelationship>
            <isDirector>0</isDirector>
            <isOfficer>0</isOfficer>
            <isTenPercentOwner>1</isTenPercentOwner>
            <isOther>0</isOther>
        </reportingOwnerRelationship>
    </reportingOwner>

    <nonDerivativeTable>
        <nonDerivativeTransaction>
            <securityTitle>
                <value>Common Stock</value>
            </securityTitle>
            <transactionDate>
                <value>2010-07-30</value>
            </transactionDate>
            <transactionCoding>
                <transactionFormType>4</transactionFormType>
                <transactionCode>S</transactionCode>
                <equitySwapInvolved>0</equitySwapInvolved>
            </transactionCoding>
            <transactionTimeliness>
                <value></value>
            </transactionTimeliness>
            <transactionAmounts>
                <transactionShares>
                    <value>100000</value>
                    <footnoteId id="F1"/>
                </transactionShares>
                <transactionPricePerShare>
                    <value>17.4719</value>
                    <footnoteId id="F2"/>
                </transactionPricePerShare>
                <transactionAcquiredDisposedCode>
                    <value>D</value>
                </transactionAcquiredDisposedCode>
            </transactionAmounts>
            <postTransactionAmounts>
                <sharesOwnedFollowingTransaction>
                    <value>14240080</value>
                </sharesOwnedFollowingTransaction>
            </postTransactionAmounts>
            <ownershipNature>
                <directOrIndirectOwnership>
                    <value>I</value>
                </directOrIndirectOwnership>
                <natureOfOwnership>
                    <value>See Footnote</value>
                    <footnoteId id="F3"/>
                </natureOfOwnership>
            </ownershipNature>
        </nonDerivativeTransaction>
        <nonDerivativeTransaction>
            <securityTitle>
                <value>Common Stock</value>
            </securityTitle>
            <transactionDate>
                <value>2010-08-02</value>
            </transactionDate>
            <transactionCoding>
                <transactionFormType>4</transactionFormType>
                <transactionCode>S</transactionCode>
                <equitySwapInvolved>0</equitySwapInvolved>
            </transactionCoding>
            <transactionTimeliness>
                <value></value>
            </transactionTimeliness>
            <transactionAmounts>
                <transactionShares>
                    <value>300000</value>
                    <footnoteId id="F4"/>
                </transactionShares>
                <transactionPricePerShare>
                    <value>18.1215</value>
                    <footnoteId id="F5"/>
                </transactionPricePerShare>
                <transactionAcquiredDisposedCode>
                    <value>D</value>
                </transactionAcquiredDisposedCode>
            </transactionAmounts>
            <postTransactionAmounts>
                <sharesOwnedFollowingTransaction>
                    <value>13940080</value>
                </sharesOwnedFollowingTransaction>
            </postTransactionAmounts>
            <ownershipNature>
                <directOrIndirectOwnership>
                    <value>I</value>
                </directOrIndirectOwnership>
                <natureOfOwnership>
                    <value>See Footnote</value>
                    <footnoteId id="F6"/>
                </natureOfOwnership>
            </ownershipNature>
        </nonDerivativeTransaction>
        <nonDerivativeTransaction>
            <securityTitle>
                <value>Common Stock</value>
            </securityTitle>
            <transactionDate>
                <value>2010-08-03</value>
            </transactionDate>
            <transactionCoding>
                <transactionFormType>4</transactionFormType>
                <transactionCode>S</transactionCode>
                <equitySwapInvolved>0</equitySwapInvolved>
            </transactionCoding>
            <transactionTimeliness>
                <value></value>
            </transactionTimeliness>
            <transactionAmounts>
                <transactionShares>
                    <value>44700</value>
                    <footnoteId id="F7"/>
                </transactionShares>
                <transactionPricePerShare>
                    <value>17.6659</value>
                    <footnoteId id="F8"/>
                </transactionPricePerShare>
                <transactionAcquiredDisposedCode>
                    <value>D</value>
                </transactionAcquiredDisposedCode>
            </transactionAmounts>
            <postTransactionAmounts>
                <sharesOwnedFollowingTransaction>
                    <value>13895380</value>
                </sharesOwnedFollowingTransaction>
            </postTransactionAmounts>
            <ownershipNature>
                <directOrIndirectOwnership>
                    <value>I</value>
                </directOrIndirectOwnership>
                <natureOfOwnership>
                    <value>See Footnote</value>
                    <footnoteId id="F9"/>
                </natureOfOwnership>
            </ownershipNature>
        </nonDerivativeTransaction>
    </nonDerivativeTable>

    <footnotes>
        <footnote id="F1">Sale of 98,684 shares of the Issuer's Common Stock by Atlas Venture Fund V, L.P. (&quot;Atlas V&quot;) and of 1,316 shares of the Issuer's Common Stock held by Atlas Venture Entrepreneurs' Fund V, L.P. (&quot;AVE V&quot;).  These shares are owned directly by Atlas V and AVE V.  Atlas Venture Associates V, L.P. is the general partner of Atlas V and AVE V.  Each of the Filing Persons disclaims beneficial ownership of such shares except to the extent of its pecuniary interest therein.</footnote>
        <footnote id="F2">Represents a weighted-average price of shares disposed. These shares were sold in multiple transactions at prices ranging from $17.40 to $17.59, inclusive. The reporting person undertakes to provide to the issuer, any security holder of the issuer, or the SEC staff, upon request, full information regarding the number of shares sold at each separate price within the ranges set forth.</footnote>
        <footnote id="F3">Represents aggregate shares beneficially owned after the reported transaction.  Includes 14,052,711 shares held directly by Atlas V and 187,369 shares held directly by AVE V. These shares are owned directly by Atlas V and AVE V.  Atlas Venture Associates V, L.P. is the general partner of Atlas V and AVE V.  Each of the Filing Persons disclaims beneficial ownership of such shares except to the extent of its pecuniary interest therein.</footnote>
        <footnote id="F4">Sale of 296,053 shares of the Issuer's Common Stock by Atlas V and of 3,947 shares of the Issuer's Common Stock held by AVE V.  These shares are owned directly by Atlas V and AVE V.  Atlas Venture Associates V, L.P. is the general partner of Atlas V and AVE V.  Each of the Filing Persons disclaims beneficial ownership of such shares except to the extent of its pecuniary interest therein.</footnote>
        <footnote id="F5">Represents a weighted-average price of shares disposed. These shares were sold in multiple transactions at prices ranging from $17.74 to $18.68, inclusive. The reporting person undertakes to provide to the issuer, any security holder of the issuer, or the SEC staff, upon request, full information regarding the number of shares sold at each separate price within the ranges set forth.</footnote>
        <footnote id="F6">Represents aggregate shares beneficially owned after the reported transaction.  Includes 13,756,658 shares held directly by Atlas V and 183,422 shares held directly by AVE V. These shares are owned directly by Atlas V and AVE V.  Atlas Venture Associates V, L.P. is the general partner of Atlas V and AVE V.  Each of the Filing Persons disclaims beneficial ownership of such shares except to the extent of its pecuniary interest therein.</footnote>
        <footnote id="F7">Sale of 44,112 shares of the Issuer's Common Stock by Atlas V and of 588 shares of the Issuer's Common Stock held by AVE V.  These shares are owned directly by Atlas V and AVE V.  Atlas Venture Associates V, L.P. is the general partner of Atlas V and AVE V.  Each of the Filing Persons disclaims beneficial ownership of such shares except to the extent of its pecuniary interest therein.</footnote>
        <footnote id="F8">Represents a weighted-average price of shares disposed. These shares were sold in multiple transactions at prices ranging from $17.60 to $17.86, inclusive. The reporting person undertakes to provide to the issuer, any security holder of the issuer, or the SEC staff, upon request, full information regarding the number of shares sold at each separate price within the ranges set forth.</footnote>
        <footnote id="F9">Represents aggregate shares beneficially owned after all of the reported transactions.  Includes 13,712,546 shares held directly by Atlas V and 182,834 shares held directly by AVE V. These shares are owned directly by Atlas V and AVE V.  Atlas Venture Associates V, L.P. is the general partner of Atlas V and AVE V.  Each of the Filing Persons disclaims beneficial ownership of such shares except to the extent of its pecuniary interest therein.</footnote>
    </footnotes>

    <remarks>This statement on Form 4 is filed by Atlas Venture Associates V, L.P., Atlas Venture Fund V, L.P., and Atlas Venture Entrepreneurs' Fund V, L.P. The principal business address of each of the reporting persons is 890 Winter Street, Suite 320, Waltham, Massachusetts 02451. The reporting persons disclaim beneficial ownership of the securities listed herein except to the extent of their pecuniary interest therein.</remarks>

    <ownerSignature>
        <signatureName>Atlas Venture Fund V, L.P., By:  Atlas Venture Associates V, L.P., Its General Partner, By:  Atlas Venture Associates V, Inc., Its General Partner, By:/s/ Kristen Laguerre, Vice President</signatureName>
        <signatureDate>2010-08-03</signatureDate>
    </ownerSignature>

    <ownerSignature>
        <signatureName>Atlas Venture Entrepreneurs' Fund V, L.P., By:  Atlas Venture Associates V, L.P., Its General Partner, By:  Atlas Venture Associates V, Inc., Its General Partner, By:/s/ Kristen Laguerre, Vice President</signatureName>
        <signatureDate>2010-08-03</signatureDate>
    </ownerSignature>

    <ownerSignature>
        <signatureName>Atlas Venture Associates V, L.P., By:  Atlas Venture Associates V, Inc., Its General Partner, By:/s/ Kristen Laguerre, Vice President</signatureName>
        <signatureDate>2010-08-03</signatureDate>
    </ownerSignature>
</ownershipDocument>
