2013-10-31T15:53:56-05:00 2012-12-31 911194016 CLARK NUBER PS 10900 NE 4TH STREET SUITE 1700 BELLEVUE WA 98004 990 2012-01-01 912003593 INSTITUTE FOR SYSTEMS BIOLOGY INST 2067321200 401 TERRY AVENUE N SEATTLE WA 98109 MARK ASHIDA 2067321200 2013-10-24 1 SARA ELIZABETH J HYRE P00235495 4254544919 2013-10-28 2012 2016-03-07 17:11:31Z LEROY HOOD 401 TERRY AVENUE N SEATTLE WA 98109 45003572 0 X WWW.SYSTEMSBIOLOGY.ORG X 1999 WA USING THE SCIENCE OF SYSTEMS BIOLOGY TO PREDICT, PREVENT, AND CURE DISEASE. 11 9 276 10 -71669 -71669 23892848 24894172 15963894 18458193 -1564540 119556 510521 179436 38802723 43651357 0 0 0 0 21990516 20644930 0 0 176099 25600381 23565647 47590897 44210577 -8788174 -559220 45477682 43517471 32642788 31341797 12834894 12175674 X THE INSTITUTE FOR SYSTEMS BIOLOGY (ISB) IS A NON-PROFIT RESEARCH INSTITUTE FOUNDED IN SEATTLE IN 1999 TO ADVANCE A SYSTEMS (OR HOLISTIC AND CROSS-DISCIPLINARY) APPROACH TO SCIENCE; PERSONALIZED MEDICINE; GLOBAL HEALTH AND ENVIRONMENTAL SUSTAINABILITY; SCIENCE EDUCATION; AND THE PIONEERING AND INVENTION OF BIOLOGICAL AND TECHNOLOGICAL METHODS AND TOOLS. OUR MISSION STATEMENT IS: REVOLUTIONIZE SCIENCE, TRANSFORM HUMAN HEALTH, AND ENSURE ENVIRONMENTAL SUSTAINABILITY. 0 0 18845695 594108 BIOMOLECULAR RESEARCH: INSTITUTE FOR SYSTEMS BIOLOGY SCIENTISTS PUBLISHED 75 RESEARCH PAPERS IN PEER-REVIEWED JOURNALS IN 2012. RESEARCH TOPICS INCLUDED: GENOMICS, MICROFLUIDICS, PROTEOMICS, HIGH-THROUGHPUT COMPUTATION, SYSTEMS BIOLOGY APPLICATIONS, AND BIOINFORMATICS. 14696963 17526790 UNIVERSITY OF LUXEMBOURG (UL) COLLABORATION CONTRACT: THIS IS A FIVE-YEAR PROJECT UTILIZING FUNDS SPENT DOMESTICALLY, IN WHICH THE INSTITUTE WILL: (1) COORDINATE AND PERFORM RESEARCH WORK ON TWO PRIMARY PROJECTS RELATED TO (A) PERSONAL GENOME SEQUENCING AND SYSTEMS GENETICS AND (B) PERSONAL BLOOD PROTEOMICS, RNA, AND PROGENITOR CELL ANALYSIS; (2) ASSIST UL WITH ESTABLISHING AND RECRUITING FACULTY FOR THE LUXEMBOURG CENTER FOR SYSTEMS BIOLOGY (LCSB); AND (3) TRANSFER KNOWLEDGE ABOUT SYSTEMS BIOLOGY TO UL STAFF THROUGH MENTORING, STAFF EXCHANGES, AND RESEARCH COLLABORATIONS. ACCOMPLISHMENTS IN 2012 INCLUDED: (1) WHOLE GENOME SEQUENCE ANALYSIS OF 66 PEDIGREES, REPRESENTING 8 DIFFERENT DISORDERS, INCLUDING HUNTINGTON'S DISEASE, ALZHEIMER'S DISEASE, EPILEPSY, BIPOLAR DISORDER, ALTERNATING HEMIPLEGIA OF CHILDHOOLD, ADAMS-OLIVER SYNDROME, CUSHING SYNDROME, AND INFLAMMATORY BOWEL DISEASE; (3) WHOLE GENOME SEQUENCE OBTAINED FROM ROUGHLY 580 INDIVIDUALS; (4) COMPLETE DEVELOPMENT OF SPECIFIC TARGETED PROTEOMICS ASSAYS FOR NEARLY ALL 20,000 HUMAN PROTEINS; (5) CONTINUED DEVELOPMENT OF ORGAN-SPECIFIC BLOOD PROTEIN AND MICRORNA ASSAYS FOR DISEASE DIAGNOSTICS; AND (6) NEARLY 70 PUBLICATIONS REPRESENTING ALL ASPECTS OF THE UL COLLABORATION, MANY OF WHICH INCLUDED CO-AUTHORS FROM LCSB. 670667 337295 SCIENCE EDUCATION: ISB'S CENTER FOR INQUIRY SCIENCE (CIS) PROVIDES TRAINING FOR K-12 SCIENCE EDUCATORS. IN 2012, CIS SERVED 850 SCIENCE EDUCATORS REPRESENTING 22 SCHOOL DISTRICTS OVER THE COURSE OF 104 PROFESSIONAL DEVELOPMENT DAYS. 34213325 1 1 0 1 0 0 0 0 0 1 1 0 0 0 1 0 1 0 0 0 0 0 0 0 1 0 0 0 0 1 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 1 77 0 1 276 1 1 1 0 0 0 0 1 1 0 0 0 0 X 11 9 1 0 0 0 0 0 0 1 1 0 0 1 1 1 1 1 1 1 1 0 WA CA X GARY C STREICHER 2067321200 401 TERRY AVENUE N SEATTLE WA 98109 ROGER PERLMUTTER MD PHD 1.00 X 0 0 0 CHARLES L HIRSCH 1.00 X 0 0 0 WILLIAM K BOWES JR 1.00 X 0 0 0 THOMAS J CABLE 1.00 X 0 0 0 LOUIS G LANGE MD PHD 4.00 X X 0 0 0 DAVID A SABEY 2.00 X 0 0 0 MARK ASHIDA 20.00 X 180000 0 0 ROBERT T NELSEN 1.00 X 0 0 0 LEROY HOOD MD PHD 84.00 X X 381879 0 32315 STEPHEN GRAHAM 1.00 X 0 0 0 DANIEL T LING 1.00 X 0 0 0 LEIGHTON READ 1.00 X 0 0 0 JAMES R LADD 40.00 X 281900 0 38997 JOHN AITCHISON PHD 24.00 X 128697 0 17206 EE SISSY BOUCHARD EDD 60.00 X 196728 0 35667 ROBERT J LIPSHUTZ 50.00 X 205350 0 125423 JOSEPH H NADEAU PHD 50.00 X 226570 0 18861 DAVID GALAS PHD 50.00 X 229030 0 28468 CATHRYN CAMPBELL JD PHD 40.00 X 273196 0 30401 NITIN S BALIGA PHD 60.00 X 222460 0 42619 SUI HUANG 60.00 X 241240 0 29934 2567050 0 399891 36 0 1 0 SEATTLE BIOMEDICAL RESEARCH INSTITUTE 307 WESTLAKE AVE N SUITE 500 SEATTLE WA 98109 RESEARCH GRANT SUBCONTRACTOR 1450500 ST JUDE CHILDREN'S RESEARCH HOSPITAL PO BOX 1000 DEPT 949 MEMPHIS TN 381480949 RESEARCH GRANT SUBCONTRACTOR 763287 MD ANDERSON CANCER CENTER THE UNIVERSITY OF TEXAS HOUSTON TX 772104390 RESEARCH GRANT SUBCONTRACTOR 417595 UNIVERSITY OF CALIFORNIA SAN DIEGO 9500 GILMAN DRIVE LA JOLLA CA 920930009 RESEARCH GRANT SUBCONTRACTOR 408351 UNIVERSITY OF WASHINGTON 1410 NE CAMPUS PARKWAY SEATTLE WA 98195 RESEARCH GRANT SUBCONTRACTOR 390107 19 14070 61280 17481938 7336884 5000 24894172 LUXEMBOURG COLLABORATN 541700 17526790 17526790 LAB AND RESEARCH SRVCS 541700 594108 594108 SCIENCE EDUCATION 541900 337295 337295 18458193 109483 109483 262489 262489 1216328 1342318 -125990 -125990 -71669 -54321 10073 0 10073 10073 10073 2570 61280 9897 -7327 -7327 COST REIMBURSEMENTS 900099 50264 50264 50264 43651357 18458193 -71669 370661 1624162 572044 1005639 46479 13690772 9581088 4087254 22430 1184821 811154 371976 1691 2991528 2137117 844096 10315 1153647 758336 390613 4698 339122 337722 1400 603530 25554 577976 120795 120795 165159 165159 258292 255642 2650 44348 9644 34646 58 436152 26085 407761 2306 354963 6739 348224 4628617 4199072 352343 77202 476060 362674 112960 426 144916 56013 88546 357 131477 116675 12635 2167 3033655 2926182 102776 4697 132308 132308 SUBCONTRACTS 8462674 8462674 SUPPLIES 2121413 2120719 694 LAB TESTING & ANALYSIS 1243990 1238874 5116 UBI TAXES 37429 37429 830747 547039 282529 1179 44210577 34213325 9821153 176099 300 300 15963174 17990671 6721277 8517321 463030 164948 30000 22500 335641 348228 3274868 815861 35898702 20571255 18113183 15327447 187195 192195 389014 138000 45477682 43517471 5229409 4765073 4208566 4286603 8865500 8344000 14339313 13946121 32642788 31341797 X -980318 -307723 5143712 3811897 8671500 8671500 12834894 12175674 45477682 43517471 X -559220 -100000 X 0 1 X 1 1 1 X 36067112 29351797 39044471 23892848 24894172 153250400 36067112 29351797 39044471 23892848 24894172 153250400 11520136 141730264 892643 1256885 1075697 1062338 896402 5183965 19519 3976 20244 139884 183623 140398 139147 383582 84799 50264 798190 159416178 58997261 0.88910 0.91200 X SCHEDULE A, PART II, LINE 10, EXPLANATION OF OTHER INCOME: COST REIMBURSEMENTS - 2008 AMOUNT: $ 140,398. 2009 AMOUNT: $ 139,147. 2010 AMOUNT: $ 383,582. 2011 AMOUNT: $ 84,799. 2012 AMOUNT: $ 50,264. RESTRICTED RESTRICTED RESTRICTED RESTRICTED RESTRICTED RESTRICTED RESTRICTED RESTRICTED 0 0 0 0 0 0 1 165159 0 0 165159 0 EXPLANATION OF LOBBYING ACTIVITIES: PART II-B, LINE 1: DIRECT CONTACT WITH LEGISLATORS OR STAFF TO ASSIST IN OBTAINING FEDERAL FUNDING FOR ISB'S PROGRAMS THROUGH THE APPROPRIATIONS PROCESS. 8671500 82548 82548 8671500 8671500 84324 84324 8671500 8671500 83055 83055 8671500 8671500 161549 161549 8671500 8671500 8671500 1.00000 0 0 14508920 2692449 11816471 21389782 17878806 3510976 15327447 DEFERRED RENT PAYABLE 13946121 13946121 44903572 -100000 -100000 45003572 -1352215 -1352215 43651357 45562792 1352215 1352215 44210577 0 44210577 DESCRIPTION OF INTENDED USE OF ENDOWMENT FUNDS: PART V, LINE 4: THESE ENDOWMENT FUNDS ARE PLEDGED AS COLLATERAL FOR THE ORGANIZATION'S LONG-TERM DEBT. EARNINGS ON THE ENDOWMENT FUNDS ARE USED TO PARTIALLY FUND PAYMENT OF PRINCIPAL & INTEREST DUE ON THE DEBT. PART XI, LINE 2D - OTHER ADJUSTMENTS: WRITE-OFF OF DEPOSIT ALLOWANCE -100,000. PART XI, LINE 4B - OTHER ADJUSTMENTS: RENTAL EXPENSES NETTED AGAINST REVENUES ON PART VIII -1,342,318. SPECIAL EVENT DEDUCTIONS -9,897. PART XII, LINE 2D - OTHER ADJUSTMENTS: TENANT REVENUE NETTED WITH EXPENSES ON FINANCIAL STATEMENTS 1,342,318. SPECIAL EVENT DEDUCTIONS 9,897. LUNCHEON 63850 61280 2570 1992 7610 295 63850 61280 2570 1992 7610 295 9897 -7327 X 1 1 X X X 1 0 0 1 0 0 0 0 0 MARK ASHIDA 180000 0 0 0 0 0 0 0 0 0 180000 0 0 0 LEROY HOOD MD PHD 373010 0 0 0 8869 0 22510 0 9805 0 414194 0 0 0 JAMES R LADD 276926 0 0 0 4974 0 21876 0 17121 0 320897 0 0 0 EE SISSY BOUCHARD EDD 195486 0 0 0 1242 0 17441 0 18226 0 232395 0 0 0 ROBERT J LIPSHUTZ 172500 0 0 0 32850 0 114115 0 11308 0 330773 0 0 0 JOSEPH H NADEAU PHD 224308 0 0 0 2262 0 8756 0 10105 0 245431 0 0 0 DAVID GALAS PHD 104596 0 0 0 124434 0 10108 0 18360 0 257498 0 0 0 CATHRYN CAMPBELL JD PHD 270000 0 0 0 3196 0 22512 0 7889 0 303597 0 0 0 NITIN S BALIGA PHD 220877 0 0 0 1583 0 18676 0 23943 0 265079 0 0 0 SUI HUANG 239819 0 0 0 1421 0 20923 0 9011 0 271174 0 0 0 PART I, LINE 1A AS PART OF HIS EMPLOYMENT TERMS, ROBERT LIPSHUTZ IS PAID BOTH A TEMPORARY HOUSING ALLOWANCE AND A TRAVEL ALLOWANCE. BOTH ALLOWANCES ARE TREATED AS TAXABLE. PART I, LINE 4A DAVID GALAS WAS PAID SEVERANCE PER THE TERMS OF THE TERMINATION AGREEMENT BETWEEN HIM AND ISB. PART I, LINE 5 ISB PROVIDES INCENTIVES TO ROBERT LIPSHUTZ FOR QUALIFYING REVENUE RECEIVED FROM EACH ORIGINAL AND/OR RENEWED AGREEMENT, COLLABORATION, JOINT VENTURE, SPIN-OFF OR RELATED TRANSACTION THAT HE DEVELOPS. FOR EACH TRANSACTION, ISB PAYS ROBERT LIPSHUTZ A PERCENTAGE OF QUALIFYING REVENUE. THE MAXIMUM AMOUNT OF INCENTIVE PAYMENTS THAT HE MAY RECEIVE IS $300,000 IN ANY CALENDAR YEAR. JOHN AITCHISON OFFICER PART V X 75000 22500 0 0 1 INTEGRATED DIAGNOSTICS INC INVESTEE PART V X 383550 348228 0 1 1 370728 SCHEDULE L, PART II, LOANS TO AND FROM INTERESTED PERSONS:(A) NAME OF PERSON: JOHN AITCHISON(C) PURPOSE OF LOAN: RELOCATION ASSISTANCE(D) LOAN TO OR FROM ORGANIZATION? = FROM(E) ORIGINAL PRINCIPAL AMOUNT $ 75,000. (F) BALANCE DUE $ 22,500.(G) LOAN IN DEFAULT? = NO(H) APPROVED BY BOARD OR COMMITTEE? = NO(I) WRITTEN AGREEMENT? = YES(A) NAME OF PERSON: INTEGRATED DIAGNOSTICS, INC.(C) PURPOSE OF LOAN: 2009 OPERATING EXPENSES (THRU 8/31/09)(D) LOAN TO OR FROM ORGANIZATION? = FROM(E) ORIGINAL PRINCIPAL AMOUNT $ 383,550. (F) BALANCE DUE $ 348,228.(G) LOAN IN DEFAULT? = NO(H) APPROVED BY BOARD OR COMMITTEE? = YES(I) WRITTEN AGREEMENT? = YES FORM 990, PART I, LINE 6: TEN VOLUNTEERS SERVED AS INDIVIDUAL DIRECTORS ON ISB'S BOARD OF DIRECTORS DURING 2012. FORM 990, PART VI, SECTION A, LINE 2 LEIGHTON READ AND LOUIS LANGE HAVE A BUSINESS RELATIONSHIP. LEROY HOOD AND JAMES LADD HAVE A BUSINESS RELATIONSHIP. LEROY HOOD AND DAVID GALAS HAVE A BUSINESS RELATIONSHIP. MARK ASHIDA AND STEPHEN GRAHAM HAVE A BUSINESS RELATIONSHIP. FORM 990, PART VI, SECTION B, LINE 11 FORM 990 IS PREPARED WITH ASSISTANCE FROM A PAID PROFESSIONAL ADVISOR BASED ON INFORMATION PREPARED BY STAFF. THE DRAFT RETURN IS REVIEWED IN TURN BY THE DIRECTOR OF FINANCE, THE TREASURER/SECRETARY/COO-FINANCE & OPERATIONS, AND THEN BY THE AUDIT COMMITTEE OF THE BOARD OF DIRECTORS. THE FILING VERSION OF THE RETURN IS DISTRIBUTED ELECTRONICALLY TO ALL BOARD MEMBERS PRIOR TO FILING WITH THE IRS. FORM 990, PART VI, SECTION B, LINE 12C THE CONFLICT OF INTEREST (COI) POLICY APPLIES TO 'COVERED PERSONS', DEFINED AS ANY INSTITUTE (BOARD) DIRECTOR, OFFICER, OR ANY MEMBER OF ANY COMMITTEE OF THE INSTITUTE'S BOARD OF DIRECTORS THAT HAS AUTHORITY TO ACT ON BEHALF OF THE BOARD OF DIRECTORS. EACH COVERED PERSON SHALL PROMPTLY AND FULLY DISCLOSE ALL MATERIAL FACTS OF EVERY ACTUAL OR POTENTIAL CONFLICT OF INTEREST: [A] EXISTING AT THE TIME WHEN HE/SHE BECOMES A COVERED PERSON; [B] THAT ARISES WHILE HE/SHE IS A COVERED PERSON, AT THE TIME SUCH ACTUAL OR POTENTIAL CONFLICT ARISES; AND [C] THROUGH THE ANNUAL CIRCULATION OF THE FIDUCIARY COI QUESTIONNAIRE. THE VICE PRESIDENT OF FINANCE & ADMINSTRATION SHALL DISCLOSE TO THE BOARD OF DIRECTORS ALL CONFLICTS OF INTEREST REPORTED TO HIM OR HER UNDER THIS POLICY. THE BOARD OF DIRECTORS WILL EVALUATE THE DISCLOSURES TO DETERMINE WHETHER THEY INVOLVE ACTUAL CONFLICTS OF INTEREST AND MAY ATTEMPT TO DEVELOP ALTERNATIVES TO REMOVE THE CONFLICT FROM THE SITUATION. IF A CONFLICT DOES ARISE THE COVERED PERSON WILL RECUSE THEMSELVES OF ANY DISCUSSION OR VOTE ON THE MATTER. FORM 990, PART VI, SECTION B, LINE 15 THE COMPENSATION OF THE INSTITUTE'S PRESIDENT WAS REVIEWED BY A PAID CONSULTANT TO DETERMINE ITS COMPARABILITY TO PREVAILING MARKET CONDITIONS FOR SIMILAR POSITIONS AT OTHER ORGANIZATIONS. THIS STUDY WAS PRESENTED TO AND APPROVED BY THE INSTITUTE'S GOVERNING BOARD OF DIRECTORS. ALSO, THE EMPLOYMENT AGREEMENT FOR THE INSTITUTE'S PRESIDENT WAS REVIEWED AND APPROVED BY THE INSTITUTE'S GOVERNING BOARD OF DIRECTORS. THE COMPENSATION OF ALL OTHER OFFICERS AND KEY EMPLOYEES ARE BASED UPON AND SUBJECT TO APPROVAL OF THE PRESIDENT. FORM 990, PART VI, SECTION C, LINE 19 THE INSTITUTE'S GOVERNING DOCUMENTS, CONFLICT OF INTEREST POLICY, AND FINANCIAL STATEMENTS ARE NOT MADE READILY AVAILABLE TO THE PUBLIC. THE INSTITUTE'S APPLICATION FOR TAX EXEMPT STATUS AND ITS ANNUAL FORM 990 ARE AVAILABLE FOR PUBLIC INSPECTION AND REVIEW UPON REQUEST. CHANGES IN NET ASSETS OR FUND BALANCES: FORM 990, PART XI, LINE 9: WRITE-OFF OF DEPOSIT ALLOWANCE -100,000.