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        <ReturnReference>SCHEDULE D, PART III, LINE 4</ReturnReference>
        <Explanation>THE INSTITUTE'S ART COLLECTION WAS PURCHASED WITH A GIFT FROM ITS FOUNDER, EDWIN C. WHITEHEAD. THE COLLECTION CONSISTS OF 77 ARTWORKS EXECUTED IN OIL, ACRYLIC, WATERCOLOR AND MIXED MEDIA, PRINTS AND PHOTOGRAPHY. THE COLLECTION'S PURPOSE IS TO HELP CREATE/FOSTER A STIMULATING ENVIRONMENT THAT PROMOTES AN INNOVATIVE CULTURE TO ACHIEVE THE MISSION OF THE INSTITUTE. ENDOWMENT SCHEDULE D, PART V, LINE 4 THE INSTITUTE'S ENDOWMENT FUNDS ARE USED TO UNDERWRITE THE RESEARCH PROGRAM OF THE INSTITUTE AS WELL AS TO FUND THE ADMINISTRATION AND OPERATION OF THE INSTITUTE. THE INSTITUTE HAS ADOPTED ENDOWMENT INVESTMENT AND SPENDING POLICIES THAT ATTEMPT TO PROVIDE A PREDICTABLE STREAM OF FUNDING TO THE INSTITUTE'S MISSION, SUPPORTED BY ITS ENDOWMENT, WHILE SEEKING TO MAINTAIN THE PURCHASING POWER OF ENDOWMENT ASSETS. THESE POLICIES DETERMINE THE AMOUNT THAT MAY BE DRAWN FROM ITS ENDOWMENT FUNDS. THE INSTITUTE DRAWS FUNDS FOR OPERATIONS, AS APPROVED BY THE BOARD, FROM TOTAL INVESTMENTS. FIN 48 SCHEDULE D, PART X THE INSTITUTE HAS BEEN DESIGNATED, FOR TAX PURPOSES, AS A PUBLICLY SUPPORTED EDUCATIONAL INSTITUTE UNDER SECTION 501(c)(3) OF THE INTERNAL REVENUE CODE. THE INSTITUTE COMPLIES WITH AUTHORITATIVE GUIDANCE AND ACCOUNTING FOR AND DISCLOSURE OF UNCERTAINTY IN TAX POSITIONS. SCHEDULE D, PART XI, LINE 8 LOSS ON DISPOSAL OF FIXED ASSETS (589,437) POSTRETIREMENT RELATED CHANGE 791,795 ---------- TOTAL 202,358 SCHEDULE D, PART XII, LINE 2D RENTAL EXPENSES - 4,123,434 SCHEDULE D, PART XIII, LINE 2D RENTAL EXPENSES - 4,123,434</Explanation>
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      <Form990ScheduleJPartII>
        <NamePerson>DR TERRY ORR-WEAVER</NamePerson>
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        <ReturnReference>DAVID PAGE RECEIVES A HOUSING ALLOWANCE. NO WRITTEN POLICY IS CURRENTLY</ReturnReference>
        <Explanation>IN PLACE, HOWEVER THE BOARD APPROVED HOUSING ALLOWANCE IS PART OF THE COMPENSATION PACKAGE FOR THE DIRECTOR OF THE INSTITUTE.</Explanation>
      </Form990ScheduleJPartIII>
      <Form990ScheduleJPartIII>
        <Identifier>SCHEDULE J, PART I, LINE 7 AND PART II, COLUMN (B)(ii)</Identifier>
        <Explanation>THE BONUS REPORTED IN COLUMN B(ii) REPRESENTS A NON-FIXED PAYMENT IN RECOGNITION OF MEETING CERTAIN PERFORMANCE GOALS FOR CALENDAR YEARS 2009 AND 2010.</Explanation>
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    </IRS990ScheduleJ>
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        <CUSIPNumber>57585KA57</CUSIPNumber>
        <DateIssued>2008-10-30</DateIssued>
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        <OnBehalfOfIssuer>false</OnBehalfOfIssuer>
        <PoolFinancing>true</PoolFinancing>
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        <AnyResearchAgreements>false</AnyResearchAgreements>
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        <GrossProceedsInvested>false</GrossProceedsInvested>
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      <Form990ScheduleKPartV>
        <Identifier>SEE SCHEDULE O.</Identifier>
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    <IRS990ScheduleL documentId="IRS990ScheduleL">
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        <NamePerson>DAVID PAGE -</NamePerson>
        <PurposeOfLoan>MORTGAGE ASSISTANCE</PurposeOfLoan>
        <LoanFromOrganization>X</LoanFromOrganization>
        <OriginalPrincipalAmount>350000</OriginalPrincipalAmount>
        <BalanceDue>254057</BalanceDue>
        <Default>false</Default>
        <ApprovedByBoard>true</ApprovedByBoard>
        <WrittenAgreement>true</WrittenAgreement>
      </LoanTable>
      <LoanTable>
        <NamePerson>HIDDE PLOEGH -</NamePerson>
        <PurposeOfLoan>MORTGAGE ASSISTANCE</PurposeOfLoan>
        <LoanFromOrganization>X</LoanFromOrganization>
        <OriginalPrincipalAmount>350000</OriginalPrincipalAmount>
        <BalanceDue>206250</BalanceDue>
        <Default>false</Default>
        <ApprovedByBoard>true</ApprovedByBoard>
        <WrittenAgreement>true</WrittenAgreement>
      </LoanTable>
      <TotalBalanceDue>460307</TotalBalanceDue>
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        <NameOfInterestedPerson>
          <NamePerson>MERCK CO INC</NamePerson>
        </NameOfInterestedPerson>
        <Relationship>DIRECTOR IS OFFICER</Relationship>
        <AmountOfTransaction>140000</AmountOfTransaction>
        <DescriptionOfTransaction>ROYALTY PAYMENTS ON PATENTS</DescriptionOfTransaction>
        <SharingOfRevenues>false</SharingOfRevenues>
      </Form990ScheduleLPartIV>
    </IRS990ScheduleL>
    <IRS990ScheduleM documentId="IRS990ScheduleM">
      <WorksOfArt />
      <ArtHistoricalTreasures />
      <ArtFractionalInterest />
      <BooksAndPublications />
      <ClothingAndHouseholdGoods />
      <CarsAndOtherVehicles />
      <BoatsAndPlanes />
      <IntellectualProperty />
      <SecuritiesPubliclyTraded>
        <NonCashCheckbox>X</NonCashCheckbox>
        <NumberOfContributions>8</NumberOfContributions>
        <NoncashContribsRptdF990>154523</NoncashContribsRptdF990>
        <MethodOfDeterminingRevenues>AVG OF HI/LOW</MethodOfDeterminingRevenues>
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      <SecuritiesCloselyHeldStock />
      <SecuritiesPrtnrshpTrustIntrsts />
      <SecuritiesMiscellaneous />
      <QualifiedContribHistStruct />
      <QualifiedContribOther />
      <RealEstateResidential />
      <RealEstateCommercial />
      <RealEstateOther />
      <Collectibles />
      <FoodInventory />
      <DrugsAndMedicalSupplies />
      <Taxidermy />
      <HistoricalArtifacts />
      <ScientificSpecimens />
      <ArchaeologicalArtifacts />
      <NumberOf8283Received>0</NumberOf8283Received>
      <AnyPropertyThatMustBeHeld>false</AnyPropertyThatMustBeHeld>
      <ReviewProcessUnusualNCGifts>true</ReviewProcessUnusualNCGifts>
      <ThirdPartiesUsed>false</ThirdPartiesUsed>
      <Form990ScheduleMPartII>
        <Identifier>SCHEDULE M, COLUMN B</Identifier>
        <Explanation>THE INSTITUTE IS REPORTING THE NUMBER OF CONTRIBUTIONS.</Explanation>
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    </IRS990ScheduleM>
    <IRS990ScheduleO documentId="IRS990ScheduleO">
      <GeneralExplanation>
        <Identifier>MISSION</Identifier>
        <ReturnReference>FORM 990, PART I, LINE 1 AND PART III, LINE 1</ReturnReference>
        <Explanation>WHITEHEAD INSTITUTE FOR BIOMEDICAL RESEARCH (THE "INSTITUTE") ENGAGES IN BIOMEDICAL RESEARCH AND EDUCATION TO FOSTER THE UNDERSTANDING OF BIOLOGICAL SYSTEMS, ORGANISMS, AND PROCESSES WITH THE ULTIMATE GOAL OF IMPROVING HUMAN HEALTH AND WELL-BEING.</Explanation>
      </GeneralExplanation>
      <GeneralExplanation>
        <Identifier>VOLUNTEERS</Identifier>
        <ReturnReference>FORM 990, PART I, LINE 6</ReturnReference>
        <Explanation>THE INSTITUTE DOES NOT FORMALLY TRACK VOLUNTEERS, BUT HAS INCLUDED THE NUMBER OF BOARD MEMBERS AND COMMITTEE MEMBERS OF THE BOARD OF ASSOCIATES (FRIENDS OF THE INSTITUTE) THAT ARE UNCOMPENSATED.</Explanation>
      </GeneralExplanation>
      <GeneralExplanation>
        <Identifier>RELATIONSHIPS</Identifier>
        <ReturnReference>FORM 990, PART VI, LINE 2</ReturnReference>
        <Explanation>JOHN, PETER, AND SUSAN WHITEHEAD (ALL DIRECTORS) HAVE A FAMILY RELATIONSHIP AND A BUSINESS RELATIONSHIP.</Explanation>
      </GeneralExplanation>
      <GeneralExplanation>
        <Identifier>FORM 990, PART VI, LINE 11B</Identifier>
        <Explanation>THE PROCESS FOR THE FORM 990 INCLUDES REVIEW BY SENIOR MANAGEMENT, THE AUDIT COMMITTEE, AND THE INDEPENDENT EXTERNAL TAX CONSULTANTS. THE AUDIT COMMITTEE REVIEWS A DRAFT OF THE RETURN AND THE FULL BOARD RECEIVES A FINAL COPY OF THE FORM 990 BEFORE IT IS FILED.</Explanation>
      </GeneralExplanation>
      <GeneralExplanation>
        <Identifier>CONFLICT OF INTEREST POLICY</Identifier>
        <ReturnReference>FORM 990, PART VI, LINE 12C</ReturnReference>
        <Explanation>PROMPTLY AFTER THE END OF EACH FISCAL YEAR OF THE INSTITUTE (JUNE 30), AND IMMEDIATELY FOLLOWING ELECTION TO THE BOARD FOR THE FIRST TIME, DIRECTORS AND OFFICERS SHALL SUBMIT TO THE VICE PRESIDENT, OR SUCH PERSON AS THE DIRECTOR MAY DESIGNATE, A COMPLETED DISCLOSURE STATEMENT REPORTING INFORMATION SPECIFICALLY REQUESTED IN THE STATEMENT AND ALSO REPORTING ON BEHALF OF THEMSELVES, THEIR FAMILY MEMBERS, AND ORGANIZATIONS WITH WHICH THEY HAVE A BUSINESS RELATIONSHIP, ANY ACTUAL OR PLANNED BUSINESS OR OTHER TRANSACTION OR RELATIONSHIP THAT DIRECTLY OR INDIRECTLY INVOLVES THE INSTITUTE OR THAT FOR SOME OTHER REASON COULD BE CONSTRUED AS A CONFLICT OF INTEREST BECAUSE IT MIGHT AFFECT THEIR INDEPENDENT, UNBAISED JUDGEMENT WHEN CARRYING OUT THEIR DUTIES FOR THE INSTITUTE. IF A MATTER COMES BEFORE THE BOARD OR ANY COMMITTEE OF THE BOARD, IN WHICH A DIRECTOR HAS AN INTEREST (EITHER DIRECTLY OR INDIRECTLY), SUCH DIRECTOR SHOULD WITHDRAW FROM DISCUSSION AND VOTING WHEN THE BOARD OR COMMITTEE ACTS ON SUCH MATTER. CONFLICTS OF INTEREST ARE MONITORED BY THE VICE PRESIDENT AND DIRECTOR WHO ADVISES THE CHAIRMAN OF THE BOARD.</Explanation>
      </GeneralExplanation>
      <GeneralExplanation>
        <Identifier>FORM 990, PART VI, LINE 15</Identifier>
        <Explanation>THERE IS A COMPENSATION COMMITTEE OF THE BOARD OF DIRECTORS THAT ANNUALLY REVIEWS AND RECOMMENDS CHANGES OF THE PRESIDENT'S SALARY. FACULTY SALARIES ARE SET BY MIT YEARLY. ALL OTHER OFFICER SALARIES ARE PART OF A RAISE POOL THAT IS DETERMINED ANNUALLY AND APPROVED BY THE BOARD OF DIRECTORS AS PART OF THE BUDGET APPROVAL PROCESS.</Explanation>
      </GeneralExplanation>
      <GeneralExplanation>
        <Identifier>AVAILABILITY OF DOCUMENTS</Identifier>
        <ReturnReference>FORM 990, PART VI, LINE 19</ReturnReference>
        <Explanation>THE INSTITUTE'S GOVERNING DOCUMENTS, CONFLICT OF INTEREST POLICY, AND FINANCIAL STATEMENTS ARE AVAILABLE ON REQUEST.</Explanation>
      </GeneralExplanation>
      <GeneralExplanation>
        <Identifier>FORM 990, PART XI, LINE 5</Identifier>
        <Explanation>NET UNREALIZED GAINS 68,208,006 LOSS ON DISPOSAL OF FIXED ASSETS (589,437) POSTRETIREMENT RELATED CHANGE 791,795 ---------- TOTAL 68,410,364</Explanation>
      </GeneralExplanation>
      <GeneralExplanation>
        <Identifier>FORM 990, SCHEDULE K, PART III</Identifier>
        <Explanation>THE INSTITUTE HAS DETERMINED THAT ITS MONITORING OF PRIVATE BUSINESS USE IS SUFFICIENT AT THIS TIME BASED ON THE MATERIALITY OF EXTERNAL BILLING AND THE MAKEUP OF ITS EXTERNAL CUSTOMER BASE. SHOULD THE VOLUME OF ACTIVITY AND/OR CHANGES IN CUSTOMER MAKE UP BECOME SIGNIFICANT THE INSTITUTE WILL RE-EVALUATE THE NEED FOR A MORE ADVANCED MONITORING METHOD.</Explanation>
      </GeneralExplanation>
    </IRS990ScheduleO>
  </ReturnData>
</Return>