{"success":true,"data":{"_id":330695906,"filings":[{"Organization":{"Hours":[0],"Total Compensation":[0],"Direct compensation":[0],"Other compensation":[0]},"Basic":{"mission":"The mission of vtt/msi molecular sciences institute (msi) is to enable the quantitative prediction of the behaviors of biological systems. To accomplish its mission, the institute will significantly advance understanding of how living systems function and evolve, and will have positive effects on human health, well-being and the bioeconomy. We are dedicated to scientific, charitable, and educational purposes in the fields of microbiology, genetics, and immunology for the discovery of new therapies, basis of disease, and how our environment influences the health of the community","primary_activities":"Significant activitiesresearch at vtt/msi molecular sciences institute (msi) enables the quantitative prediction of the behaviors of biological systems. To this end, msi emphasizes the creation of tools and techniques for generating biological information, the development of computational and analytical frameworks for integrating this data, and the design and engineering of biological systems. The goal of institute scientists is to significantly advance our understanding of how living systems function and evolve. One way that institute scientists disseminate findings from their research activities is through peer-reviewed publications.below we present select recent publications from the institute:select publicationszdraljevic s, wagner d, cheng k, ruohonen l, jntti j, penttil m, resnekov o, pesce cg. (2013)single cell measurements of enzyme level as a predictive tool for cellular fates during organic acidproduction. Appl environ microbiol. 2013 sep 13. [epub ahead of print] pmid:24038690pincus, d., ryan, c., smith, r.d., brent, r., and resnekov, o. (2013) assigning quatitative function topost-translational modifications reveals multiple sites of phosphorylation that tune yeast pheromonesignaling output. Published 12 mar 2013 | plos one 10.1371/journal.pone.0056544flanigon j, kamali-moghaddam m, burbulis i, annink c, steffen m, oeth p, brent r, van den boom d,landegren u and cantor c. (2012) multiplex protein detection with dna readout via mass spectrometry.n biotechnol. Nov 28. Doi:pii: s1871-6784(12)00860-6. 10.1016/j.nbt.2012.11.003. [epub ahead of print].bush a, chernomoretz a, yu r, gordon a. And colman-lerner a. (2012) using cell-id 1.4 with r formicroscope-based cytometry. Curr protoc mol biol. Oct; chapter 14:unit 14.18. Doi:10.1002/0471142727.mb1418s100.2).denby, c.m., im, j.h., yu, r.c., pesce, g. And brem, r.b. (2012) negative feedback confers mutationalrobustness in yeast transcription factor regulation. Proc. Natl. Acad. Sci. USA. Mar 6: 109(10):3874-3878.thomson tm, benjamin kr, bush a, love t, pincus d, resnekov o, yu rc, gordon a, colman-lernera, endy d and brent r. (2011) scaffold number in yeast signaling system sets tradeoff between systemoutput and dynamic range. Proc. Natl. Acad. Sci. USA. Dec 13;108(50):20265-70. Epub 2011 nov 23.pincus d, benjamin k, burbulis i, tsong ae and resnekov o. (2010) reagents for investigating mapksignalling in model yeast species. Yeast. 2010 jul;27(7):423-30.andrews ss, addy nj, brent r and arkin ap. (2010) detailed simulations of cell biology with smoldyn2.1. Plos comput biol. Mar 12;6(3):e1000705.andrews ss. (2009) accurate particle-based simulation of adsorption, desorption and partial transmission.phys biol. 2009 nov 12;6(4):046015.yu, r.c., pesce, c.g., colman-lerner, a., lok, l.,pincus, d., serra, e., holl, m., benjamin, k., gordon,a., and brent , r. (2008) feedback that improves information transmission in yeast signalling. Nature 456:755-761.yu rc, resnekov o, abola ap, andrews ss, benjamin kr, bruck j, burbulis ie, colman-lerner a, endyd, gordon a, holl m, lok l, pesce cg, serra e, smith rd, thomson tm, tsong ae and brent r. (2008)the alpha project: a model system for systems biology research. Iet syst biol. 2008 sep;2(5):222-33.review.burbulis, i., yamaguchi, k., yu, r., resnekov o., and brent, r. (2007) quantifying small numbers ofmolecules with a \"near-universal\" protein-dna chimera. Nat methods, 12:1011-3.gordon a, colman-lerner a, chin te, benjamin kr, yu, r.c., brent r: (2007) single-cell quantificationof molecules and rates using open-source microscope-based cytometry. Nat methods.burbulis i, yamaguchi k, gordon a, carlson r, brent r: (2005) using protein-dna chimeras to detectand count small numbers of molecules. Nat methods, 2:31-37.FY13 auditcolman-lerner a, gordon a, serra e, chin t, resnekov o, endy d, pesce cg, brent r (2005) regulatedcell-to-cell variation in a cell-fate decision system. Nature, 437:699-706.lok l, brent r: (2005) automatic generation of cellular reaction networks with moleculizer 1.0. Natbiotechnol, 23:131-136.lok l: (2004) the need for speed in stochastic simulation. Nat biotechnol, 22:964-965.lok l: (2002) pathfinder and other tools for analyzing signal transduction networks. Ann n y acad sci,971:589-594.burbulis ie, winkel-shirley b: (1999) interactions among enzymes of the arabidopsis flavonoidbiosynthetic pathway. Proc natl acad sci u s a, 96:12929-12934.webb cd, resnekov o: (1999) use of green fluorescent protein for visualization for cell-specific geneexpression and subcellular protein localization in bacillus subtilis. Methods enzymol, 302:136-153.","year":2012,"name":"VTTMSI MOLECULAR SCIENCES INSTITUTE","phone":"5104061169","website":"WWW.MOLSCI.ORG","type":"990","principal_officer":"PAMELA CONTAG","year_formation":1996,"state_legal_domicile":"CA","total_volunteers":0,"tax_period_begin":"2012-07-01T00:00:00","tax_period_end":"2013-06-30T00:00:00","address":"521 COTTONWOOD DRIVE NO 131, MILPITAS, CA, 95035, USA","city":"MILPITAS","state":"CA","country":"USA","zip_code":"95035"},"Governance":{"501c3 determination":true,"Number of voting members":3,"Number of independent voting members":1,"Number of employees total":9,"Total Gross UBI":0,"Net unrelated business taxable income":0,"Number of employees":9,"Prohibited tax shelter transactions":false,"Taxable party notification":false,"Funds to pay premiums":false,"Premiums Paid":false,"Family or business relationship":false,"Delegation of management duties":false,"Conflict of interest policy":true,"Whistle blower policy":true,"Compensation process for CEO":true,"Compensation process for other employees":true,"Changes to organizing documents":false,"Material diversion or misuse":false,"Members or stockholders":true,"Election of board members":true,"Decisions subject to approval":true,"Minutes of governing body":true,"Local chapters":false,"Form 990 provided to governing body":true,"Document retention policy":true,"Investment in joint venture":false,"Independent audit financial statements":true,"Consolidated audit financial statements":false,"Accountant compile or review":false,"Financial statements audited by independent accountant":true,"Audit committee":true,"Federal grant audit required":true,"Federal grant audit performed":true,"Audited financial statements separate":true,"Political activities":false,"Donor advised funds":false,"Conservation easements":false,"Collections of art":false,"School":false,"Hospital":false,"Foreign activities":false,"Foreign office":false,"Gaming":false,"Fundraising activities":false,"Professional fundraising":false,"Loan to officer or DQP":false,"Grant to related person":false,"Business relationship through family member":false,"Business relationship with organization":true,"Transfers to exempt non-charitable organization":false},"Revenues":{"value":1451133,"Contributions":{"value":1441372,"Other contributions":971181,"Grant revenue":470191},"Program revenue":{"value":9562,"Total revenue":9562,"Unrelated business revenue":0},"Investment income":{"value":199,"Investment income total":199},"Other revenues":{"value":0}},"Expenses":{"value":1396892,"Grant expense":{"value":0},"Total professional fundraising expense":{"value":0},"Benefits paid to members":{"value":0},"Salaries":{"value":538782,"Current officers":152000,"Other salaries and wages":344427,"Payroll taxes":42355},"Other expenses":{"value":858110,"Accounting":22010,"Other services":59579,"Travel":14515,"Interest":2173,"Insurance":188394,"Itemized Expenses":{"value":508010,"VARIOUS":508010},"All other expenses":63429}},"Assets":{"value":202896,"Non-interest bearing cash":91002,"Savings and temp cash investments":85296,"Pledges and grants receivable":22726,"Prepaid expenses deferred charges":3872,"Land, building, equipment":0,"Other assets":0},"Liabilities":{"value":204614,"Accounts payable, accrued":68753,"Deferred, revenue":135861,"Other liabilities":0},"Fund balance":{"value":-1718},"Form990Details":{"program_service_accomplishments":[{"description":"SIGNIFICANT ACTIVITIESRESEARCH AT VTT/MSI MOLECULAR SCIENCES INSTITUTE (MSI) ENABLES THE QUANTITATIVE PREDICTION OF THE BEHAVIORS OF BIOLOGICAL SYSTEMS. TO THIS END, MSI EMPHASIZES THE CREATION OF TOOLS AND TECHNIQUES FOR GENERATING BIOLOGICAL INFORMATION, THE DEVELOPMENT OF COMPUTATIONAL AND ANALYTICAL FRAMEWORKS FOR INTEGRATING THIS DATA, AND THE DESIGN AND ENGINEERING OF BIOLOGICAL SYSTEMS. THE GOAL OF INSTITUTE SCIENTISTS IS TO SIGNIFICANTLY ADVANCE OUR UNDERSTANDING OF HOW LIVING SYSTEMS FUNCTION AND EVOLVE. ONE WAY THAT INSTITUTE SCIENTISTS DISSEMINATE FINDINGS FROM THEIR RESEARCH ACTIVITIES IS THROUGH PEER-REVIEWED PUBLICATIONS.BELOW WE PRESENT SELECT RECENT PUBLICATIONS FROM THE INSTITUTE:SELECT PUBLICATIONSZDRALJEVIC S, WAGNER D, CHENG K, RUOHONEN L, JNTTI J, PENTTIL M, RESNEKOV O, PESCE CG. (2013)SINGLE CELL MEASUREMENTS OF ENZYME LEVEL AS A PREDICTIVE TOOL FOR CELLULAR FATES DURING ORGANIC ACIDPRODUCTION. APPL ENVIRON MICROBIOL. 2013 SEP 13. [EPUB AHEAD OF PRINT] PMID:24038690PINCUS, D., RYAN, C., SMITH, R.D., BRENT, R., AND RESNEKOV, O. (2013) ASSIGNING QUATITATIVE FUNCTION TOPOST-TRANSLATIONAL MODIFICATIONS REVEALS MULTIPLE SITES OF PHOSPHORYLATION THAT TUNE YEAST PHEROMONESIGNALING OUTPUT. PUBLISHED 12 MAR 2013 | PLOS ONE 10.1371/JOURNAL.PONE.0056544FLANIGON J, KAMALI-MOGHADDAM M, BURBULIS I, ANNINK C, STEFFEN M, OETH P, BRENT R, VAN DEN BOOM D,LANDEGREN U AND CANTOR C. (2012) MULTIPLEX PROTEIN DETECTION WITH DNA READOUT VIA MASS SPECTROMETRY.N BIOTECHNOL. NOV 28. DOI:PII: S1871-6784(12)00860-6. 10.1016/J.NBT.2012.11.003. [EPUB AHEAD OF PRINT].BUSH A, CHERNOMORETZ A, YU R, GORDON A. AND COLMAN-LERNER A. (2012) USING CELL-ID 1.4 WITH R FORMICROSCOPE-BASED CYTOMETRY. CURR PROTOC MOL BIOL. OCT; CHAPTER 14:UNIT 14.18. DOI:10.1002/0471142727.MB1418S100.2).DENBY, C.M., IM, J.H., YU, R.C., PESCE, G. AND BREM, R.B. (2012) NEGATIVE FEEDBACK CONFERS MUTATIONALROBUSTNESS IN YEAST TRANSCRIPTION FACTOR REGULATION. PROC. NATL. ACAD. SCI. USA. MAR 6: 109(10):3874-3878.THOMSON TM, BENJAMIN KR, BUSH A, LOVE T, PINCUS D, RESNEKOV O, YU RC, GORDON A, COLMAN-LERNERA, ENDY D AND BRENT R. (2011) SCAFFOLD NUMBER IN YEAST SIGNALING SYSTEM SETS TRADEOFF BETWEEN SYSTEMOUTPUT AND DYNAMIC RANGE. PROC. NATL. ACAD. SCI. USA. DEC 13;108(50):20265-70. EPUB 2011 NOV 23.PINCUS D, BENJAMIN K, BURBULIS I, TSONG AE AND RESNEKOV O. (2010) REAGENTS FOR INVESTIGATING MAPKSIGNALLING IN MODEL YEAST SPECIES. YEAST. 2010 JUL;27(7):423-30.ANDREWS SS, ADDY NJ, BRENT R AND ARKIN AP. (2010) DETAILED SIMULATIONS OF CELL BIOLOGY WITH SMOLDYN2.1. PLOS COMPUT BIOL. MAR 12;6(3):E1000705.ANDREWS SS. (2009) ACCURATE PARTICLE-BASED SIMULATION OF ADSORPTION, DESORPTION AND PARTIAL TRANSMISSION.PHYS BIOL. 2009 NOV 12;6(4):046015.YU, R.C., PESCE, C.G., COLMAN-LERNER, A., LOK, L.,PINCUS, D., SERRA, E., HOLL, M., BENJAMIN, K., GORDON,A., AND BRENT , R. (2008) FEEDBACK THAT IMPROVES INFORMATION TRANSMISSION IN YEAST SIGNALLING. NATURE 456:755-761.YU RC, RESNEKOV O, ABOLA AP, ANDREWS SS, BENJAMIN KR, BRUCK J, BURBULIS IE, COLMAN-LERNER A, ENDYD, GORDON A, HOLL M, LOK L, PESCE CG, SERRA E, SMITH RD, THOMSON TM, TSONG AE AND BRENT R. (2008)THE ALPHA PROJECT: A MODEL SYSTEM FOR SYSTEMS BIOLOGY RESEARCH. IET SYST BIOL. 2008 SEP;2(5):222-33.REVIEW.BURBULIS, I., YAMAGUCHI, K., YU, R., RESNEKOV O., AND BRENT, R. (2007) QUANTIFYING SMALL NUMBERS OFMOLECULES WITH A \"NEAR-UNIVERSAL\" PROTEIN-DNA CHIMERA. NAT METHODS, 12:1011-3.GORDON A, COLMAN-LERNER A, CHIN TE, BENJAMIN KR, YU, R.C., BRENT R: (2007) SINGLE-CELL QUANTIFICATIONOF MOLECULES AND RATES USING OPEN-SOURCE MICROSCOPE-BASED CYTOMETRY. NAT METHODS.BURBULIS I, YAMAGUCHI K, GORDON A, CARLSON R, BRENT R: (2005) USING PROTEIN-DNA CHIMERAS TO DETECTAND COUNT SMALL NUMBERS OF MOLECULES. NAT METHODS, 2:31-37.FY13 AUDITCOLMAN-LERNER A, GORDON A, SERRA E, CHIN T, RESNEKOV O, ENDY D, PESCE CG, BRENT R (2005) REGULATEDCELL-TO-CELL VARIATION IN A CELL-FATE DECISION SYSTEM. NATURE, 437:699-706.LOK L, BRENT R: (2005) AUTOMATIC GENERATION OF CELLULAR REACTION NETWORKS WITH MOLECULIZER 1.0. NATBIOTECHNOL, 23:131-136.LOK L: (2004) THE NEED FOR SPEED IN STOCHASTIC SIMULATION. NAT BIOTECHNOL, 22:964-965.LOK L: (2002) PATHFINDER AND OTHER TOOLS FOR ANALYZING SIGNAL TRANSDUCTION NETWORKS. ANN N Y ACAD SCI,971:589-594.BURBULIS IE, WINKEL-SHIRLEY B: (1999) INTERACTIONS AMONG ENZYMES OF THE ARABIDOPSIS FLAVONOIDBIOSYNTHETIC PATHWAY. PROC NATL ACAD SCI U S A, 96:12929-12934.WEBB CD, RESNEKOV O: (1999) USE OF GREEN FLUORESCENT PROTEIN FOR VISUALIZATION FOR CELL-SPECIFIC GENEEXPRESSION AND SUBCELLULAR PROTEIN LOCALIZATION IN BACILLUS SUBTILIS. 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THE INSTITUTE'S FEDERAL AND STATE INFORMATION RETURNS FOR THE YEARS 2009 THROUGH 2012 ARE SUBJECT TO EXAMINATION BY REGULATORY AGENCIES, GENERALLY FOR THREE YEARS AND FOUR YEARS AFTER THEY WERE FILED FOR FEDERAL AND STATE, RESPECTIVELY."}]},"ScheduleL":{"business_transactions_involving_interested_persons":[{"person_name":"PAMELA CONTAG","relationship":"CHAIRMAN","description":"CONSULTING SERVICES","amount":48000,"sharing_of_revenues":false,"name":"PAMELA CONTAG"}]},"ScheduleM":{"policies":{"any_property_that_must_be_held":false,"review_process_unusual_noncash_gifts":false,"third_parties_used":false},"noncash_contributions":{"other_noncash_contributions":[{"description":"DEBT FORGIVENESS","reported":true,"revenue_reported_on_990":26900,"contribution_count":1,"method_of_determining_revenues":"BOOK"}]}},"ScheduleR":{"tax_exempt_organizations":[{"business_name_line1":"VTT TECHNICAL RESEARCH CENTRE OF FINLAND VTT MANAGES VTT INTERNATIONAL LTD","primary_activities":"SCIENTIFIC RESEARCH","controlled_organization":false,"legal_domicile_foreign_country":"FI","foreign_address_line1":"METALLIMIEHENKUJA 2","foreign_city":"ESPOO","foreign_country":"FI","name":"VTT TECHNICAL RESEARCH CENTRE OF FINLAND VTT MANAGES VTT INTERNATIONAL LTD","foreign_address":"METALLIMIEHENKUJA 2, ESPOO, FI"}],"taxable_corporations_and_trusts":[{"business_name_line1":"VTT INTERNATIONAL LTD","primary_activity":"SCIENTIFIC RESEARCH","legal_domicile_foreign_country":"FI","foreign_address_line1":"P O BOX 1000","foreign_city":"ESPOO","foreign_country":"FI","controlled_organization":false,"name":"VTT INTERNATIONAL LTD","foreign_address":"P O BOX 1000, ESPOO, FI"}],"transaction_flags":{"dividends_from_related_organization":false,"gift_grant_or_capital_contribution_from_other_org":true,"gift_grant_or_capital_contribution_to_other_org":false,"loans_or_guarantees_from_other_org":false,"loans_or_guarantees_to_other_org":false,"performance_of_services_by_other_orgs":false,"performance_of_services_for_other_orgs":false,"sharing_of_facilities":false,"sharing_of_paid_employees":false,"reimbursement_paid_by_other_org":false,"reimbursement_paid_to_other_org":false,"rental_of_facilities_from_other_orgs":false,"rental_of_facilities_to_other_orgs":false,"purchase_of_assets_from_other_org":false,"sale_of_assets_to_other_org":false,"exchange_of_assets":false,"receipt_of_interest_annuities_rents_royalties":false,"other_transfer_from_other_org":false,"other_transfer_to_other_org":false},"transactions":[{"business_name_line1":"VTT TECHNICAL RESEARCH CENTRE OF FINLAND","amount_involved":943805,"method_of_amount_determination":"CASH","transaction_type":"C","name":"VTT TECHNICAL RESEARCH CENTRE OF FINLAND"}]},"source_xml":"201421359349306097_public.xml"},{"Organization":{"Hours":[0],"Total Compensation":[0],"Direct compensation":[0],"Other compensation":[0]},"Basic":{"mission":"The mission of vtt/msi molecular sciences institute (msi) is to enable the quantitative prediction of the behaviors of biological systems. To accomplish its mission, the institute will significantly advance understanding of how living systems function and evolve, and will have positive effects on human health, well-being and the bioeconomy.","primary_activities":"Research at vtt/msi molecular sciences institute (msi) enables the quantitative prediction of the behaviors of biological systems. To this end, msi emphasizes the creation of tools and techniques for generating biological information, the development of computational and analytical frameworks for integrating this data, and the design and engineering of biological systems. The goal of institute scientists is to significantly advance our understanding of how living systems function and evolve. One way that institute scientists disseminate findings from their research activities is through peer-reviewed publications. Below we present select recent publications from the institute:select publicationspincus, d., ryan, c., smith, r.d., brent, r., and resnekov, o. (2013) altering post-translational regulation to tailor quantitative signaling outputs. Published 12 mar 2013 | plos one 10.1371/journal.pone.0056544flanigon j, kamali-moghaddam m, burbulis i, annink c, steffen m, oeth p, brent r, van den boom d, landegren u and cantor c. (2012) multiplex protein detection with dna readout via mass spectrometry. N biotechnol. Nov 28. Doi:pii: s1871-6784(12)00860-6. 10.1016/j.nbt.2012.11.003. [epub ahead of print].bush a, chernomoretz a, yu r, gordon a. And colman-lerner a. (2012) using cell-id 1.4 with r for microscope-based cytometry. Curr protoc mol biol. Oct; chapter 14:unit 14.18. Doi: 10.1002/0471142727.mb1418s100.2).denby, c.m., im, j.h., yu, r.c., pesce, g. And brem, r.b. (2012) negative feedback confers mutational robustness in yeast transcription factor regulation. Proc. Natl. Acad. Sci. USA. Mar 6: 109(10):3874-3878.thomson tm, benjamin kr, bush a, love t, pincus d, resnekov o, yu rc, gordon a, colman-lerner a, endy d and brent r. (2011) scaffold number in yeast signaling system sets tradeoff between system output and dynamic range. Proc. Natl. Acad. Sci. USA. Dec 13;108(50):20265-70. Epub 2011 nov 23.pincus d, benjamin k, burbulis i, tsong ae and resnekov o. (2010) reagents for investigating mapk signalling in model yeast species. Yeast. 2010 jul;27(7):423-30.andrews ss, addy nj, brent r and arkin ap. (2010) detailed simulations of cell biology with smoldyn 2.1. Plos comput biol. Mar 12;6(3):e1000705.andrews ss. (2009) accurate particle-based simulation of adsorption, desorption and partial transmission. Phys biol. 2009 nov 12;6(4):046015.yu, r.c., pesce, c.g., colman-lerner, a., lok, l.,pincus, d., serra, e., holl, m., benjamin, k., gordon, a., and brent , r. (2008) feedback that improves information transmission in yeast signalling. Nature 456: 755-761. Yu rc, resnekov o, abola ap, andrews ss, benjamin kr, bruck j, burbulis ie, colman-lerner a, endy d, gordon a, holl m, lok l, pesce cg, serra e, smith rd, thomson tm, tsong ae and brent r. (2008) the alpha project: a model system for systems biology research. Iet syst biol. 2008 sep;2(5):222-33. Review.burbulis, i., yamaguchi, k., yu, r., resnekov o., and brent, r. (2007) quantifying small numbers of molecules with a \"near-universal\" protein-dna chimera. Nat methods, 12:1011-3.gordon a, colman-lerner a, chin te, benjamin kr, yu, r.c., brent r: (2007) single-cell quantification of molecules and rates using open-source microscope-based cytometry. Nat methods.burbulis i, yamaguchi k, gordon a, carlson r, brent r: (2005) using protein-dna chimeras to detect and count small numbers of molecules. Nat methods, 2:31-37. Colman-lerner a, gordon a, serra e, chin t, resnekov o, endy d, pesce cg, brent r (2005) regulated cell-to-cell variation in a cell-fate decision system. Nature, 437:699-706.lok l, brent r: (2005) automatic generation of cellular reaction networks with moleculizer 1.0. Nat biotechnol, 23:131-136. Lok l: (2004) the need for speed in stochastic simulation. Nat biotechnol, 22:964-965. Lok l: (2002) pathfinder and other tools for analyzing signal transduction networks. Ann n y acad sci, 971:589-594. Burbulis ie, winkel-shirley b: (1999) interactions among enzymes of the arabidopsis flavonoid biosynthetic pathway. Proc natl acad sci u s a, 96:12929-12934.webb cd, resnekov o: (1999) use of green fluorescent protein for visualization for cell-specific gene expression and subcellular protein localization in bacillus subtilis. Methods enzymol, 302:136-153.","year":2011,"name":"VTTMSI MOLECULAR SCIENCES INSTITUTE","phone":"5106470690","website":"WWW.MOLSCI.ORG","type":"990","principal_officer":"ORNA RESNEKOV","year_formation":1996,"state_legal_domicile":"CA","total_volunteers":3,"tax_period_begin":"2011-07-01T00:00:00","tax_period_end":"2012-06-30T00:00:00","address":"2168 SHATTUCK AVE 2ND FLOOR, BERKELEY, CA, 94704, USA","city":"BERKELEY","state":"CA","country":"USA","zip_code":"94704"},"Governance":{"501c3 determination":true,"Number of voting members":3,"Number of independent voting members":2,"Number of employees total":10,"Total Gross UBI":0,"Net unrelated business taxable income":0,"Number of employees":10,"Prohibited tax shelter transactions":false,"Taxable party notification":false,"Funds to pay premiums":false,"Premiums Paid":false,"Family or business relationship":false,"Delegation of management duties":false,"Conflict of interest policy":true,"Whistle blower policy":true,"Compensation process for CEO":true,"Compensation process for other employees":true,"Changes to organizing documents":false,"Material diversion or misuse":false,"Members or stockholders":true,"Election of board members":true,"Decisions subject to approval":true,"Minutes of governing body":true,"Local chapters":false,"Form 990 provided to governing body":true,"Document retention policy":true,"Investment in joint venture":false,"Independent audit financial statements":true,"Consolidated audit financial statements":false,"Accountant compile or review":false,"Financial statements audited by independent accountant":true,"Audit committee":true,"Federal grant audit required":true,"Federal grant audit performed":true,"Political activities":false,"Donor advised funds":false,"Conservation easements":false,"Collections of art":false,"School":false,"Hospital":false,"Foreign activities":false,"Foreign office":false,"Gaming":false,"Fundraising activities":false,"Professional fundraising":false,"Loan to officer or DQP":false,"Grant to related person":false,"Business relationship through family member":false,"Business relationship with organization":false,"Transfers to exempt non-charitable organization":false},"Revenues":{"value":1732687,"Contributions":{"value":1708743,"Other contributions":799368,"Grant revenue":909375},"Program revenue":{"value":23714,"Total revenue":23714,"Unrelated business revenue":0},"Investment income":{"value":230,"Investment income total":230},"Other revenues":{"value":0}},"Expenses":{"value":1722483,"Grant expense":{"value":0},"Total professional fundraising expense":{"value":0},"Benefits paid to members":{"value":0},"Salaries":{"value":637061,"Current officers":104000,"Other salaries and wages":482976,"Payroll taxes":50085},"Other expenses":{"value":1085422,"Legal":4400,"Accounting":22321,"Other services":18828,"Travel":34653,"Interest":6504,"Insurance":216198,"Itemized Expenses":{"value":701129,"VARIOUS":701129},"All other expenses":81389}},"Assets":{"value":372464,"Non-interest bearing cash":118521,"Savings and temp cash investments":85113,"Pledges and grants receivable":135025,"Prepaid expenses deferred charges":3646,"Land, building, equipment":0,"Other assets":30159},"Liabilities":{"value":428423,"Accounts payable, accrued":165884,"Deferred, revenue":139393,"Other liabilities":123146},"Fund balance":{"value":-55959},"Form990Details":{"program_service_accomplishments":[{"description":"RESEARCH AT VTT/MSI MOLECULAR SCIENCES INSTITUTE (MSI) ENABLES THE QUANTITATIVE PREDICTION OF THE BEHAVIORS OF BIOLOGICAL SYSTEMS. TO THIS END, MSI EMPHASIZES THE CREATION OF TOOLS AND TECHNIQUES FOR GENERATING BIOLOGICAL INFORMATION, THE DEVELOPMENT OF COMPUTATIONAL AND ANALYTICAL FRAMEWORKS FOR INTEGRATING THIS DATA, AND THE DESIGN AND ENGINEERING OF BIOLOGICAL SYSTEMS. THE GOAL OF INSTITUTE SCIENTISTS IS TO SIGNIFICANTLY ADVANCE OUR UNDERSTANDING OF HOW LIVING SYSTEMS FUNCTION AND EVOLVE. ONE WAY THAT INSTITUTE SCIENTISTS DISSEMINATE FINDINGS FROM THEIR RESEARCH ACTIVITIES IS THROUGH PEER-REVIEWED PUBLICATIONS. BELOW WE PRESENT SELECT RECENT PUBLICATIONS FROM THE INSTITUTE:SELECT PUBLICATIONSPINCUS, D., RYAN, C., SMITH, R.D., BRENT, R., AND RESNEKOV, O. (2013) ALTERING POST-TRANSLATIONAL REGULATION TO TAILOR QUANTITATIVE SIGNALING OUTPUTS. PUBLISHED 12 MAR 2013 | PLOS ONE 10.1371/JOURNAL.PONE.0056544FLANIGON J, KAMALI-MOGHADDAM M, BURBULIS I, ANNINK C, STEFFEN M, OETH P, BRENT R, VAN DEN BOOM D, LANDEGREN U AND CANTOR C. (2012) MULTIPLEX PROTEIN DETECTION WITH DNA READOUT VIA MASS SPECTROMETRY. N BIOTECHNOL. NOV 28. DOI:PII: S1871-6784(12)00860-6. 10.1016/J.NBT.2012.11.003. [EPUB AHEAD OF PRINT].BUSH A, CHERNOMORETZ A, YU R, GORDON A. AND COLMAN-LERNER A. (2012) USING CELL-ID 1.4 WITH R FOR MICROSCOPE-BASED CYTOMETRY. CURR PROTOC MOL BIOL. OCT; CHAPTER 14:UNIT 14.18. DOI: 10.1002/0471142727.MB1418S100.2).DENBY, C.M., IM, J.H., YU, R.C., PESCE, G. AND BREM, R.B. (2012) NEGATIVE FEEDBACK CONFERS MUTATIONAL ROBUSTNESS IN YEAST TRANSCRIPTION FACTOR REGULATION. PROC. NATL. ACAD. SCI. USA. MAR 6: 109(10):3874-3878.THOMSON TM, BENJAMIN KR, BUSH A, LOVE T, PINCUS D, RESNEKOV O, YU RC, GORDON A, COLMAN-LERNER A, ENDY D AND BRENT R. (2011) SCAFFOLD NUMBER IN YEAST SIGNALING SYSTEM SETS TRADEOFF BETWEEN SYSTEM OUTPUT AND DYNAMIC RANGE. PROC. NATL. ACAD. SCI. USA. DEC 13;108(50):20265-70. EPUB 2011 NOV 23.PINCUS D, BENJAMIN K, BURBULIS I, TSONG AE AND RESNEKOV O. (2010) REAGENTS FOR INVESTIGATING MAPK SIGNALLING IN MODEL YEAST SPECIES. YEAST. 2010 JUL;27(7):423-30.ANDREWS SS, ADDY NJ, BRENT R AND ARKIN AP. (2010) DETAILED SIMULATIONS OF CELL BIOLOGY WITH SMOLDYN 2.1. PLOS COMPUT BIOL. MAR 12;6(3):E1000705.ANDREWS SS. (2009) ACCURATE PARTICLE-BASED SIMULATION OF ADSORPTION, DESORPTION AND PARTIAL TRANSMISSION. PHYS BIOL. 2009 NOV 12;6(4):046015.YU, R.C., PESCE, C.G., COLMAN-LERNER, A., LOK, L.,PINCUS, D., SERRA, E., HOLL, M., BENJAMIN, K., GORDON, A., AND BRENT , R. (2008) FEEDBACK THAT IMPROVES INFORMATION TRANSMISSION IN YEAST SIGNALLING. NATURE 456: 755-761. YU RC, RESNEKOV O, ABOLA AP, ANDREWS SS, BENJAMIN KR, BRUCK J, BURBULIS IE, COLMAN-LERNER A, ENDY D, GORDON A, HOLL M, LOK L, PESCE CG, SERRA E, SMITH RD, THOMSON TM, TSONG AE AND BRENT R. (2008) THE ALPHA PROJECT: A MODEL SYSTEM FOR SYSTEMS BIOLOGY RESEARCH. IET SYST BIOL. 2008 SEP;2(5):222-33. REVIEW.BURBULIS, I., YAMAGUCHI, K., YU, R., RESNEKOV O., AND BRENT, R. (2007) QUANTIFYING SMALL NUMBERS OF MOLECULES WITH A \"NEAR-UNIVERSAL\" PROTEIN-DNA CHIMERA. NAT METHODS, 12:1011-3.GORDON A, COLMAN-LERNER A, CHIN TE, BENJAMIN KR, YU, R.C., BRENT R: (2007) SINGLE-CELL QUANTIFICATION OF MOLECULES AND RATES USING OPEN-SOURCE MICROSCOPE-BASED CYTOMETRY. NAT METHODS.BURBULIS I, YAMAGUCHI K, GORDON A, CARLSON R, BRENT R: (2005) USING PROTEIN-DNA CHIMERAS TO DETECT AND COUNT SMALL NUMBERS OF MOLECULES. NAT METHODS, 2:31-37. COLMAN-LERNER A, GORDON A, SERRA E, CHIN T, RESNEKOV O, ENDY D, PESCE CG, BRENT R (2005) REGULATED CELL-TO-CELL VARIATION IN A CELL-FATE DECISION SYSTEM. NATURE, 437:699-706.LOK L, BRENT R: (2005) AUTOMATIC GENERATION OF CELLULAR REACTION NETWORKS WITH MOLECULIZER 1.0. NAT BIOTECHNOL, 23:131-136. LOK L: (2004) THE NEED FOR SPEED IN STOCHASTIC SIMULATION. NAT BIOTECHNOL, 22:964-965. LOK L: (2002) PATHFINDER AND OTHER TOOLS FOR ANALYZING SIGNAL TRANSDUCTION NETWORKS. ANN N Y ACAD SCI, 971:589-594. BURBULIS IE, WINKEL-SHIRLEY B: (1999) INTERACTIONS AMONG ENZYMES OF THE ARABIDOPSIS FLAVONOID BIOSYNTHETIC PATHWAY. PROC NATL ACAD SCI U S A, 96:12929-12934.WEBB CD, RESNEKOV O: (1999) USE OF GREEN FLUORESCENT PROTEIN FOR VISUALIZATION FOR CELL-SPECIFIC GENE EXPRESSION AND SUBCELLULAR PROTEIN LOCALIZATION IN BACILLUS SUBTILIS. 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APPROPRIATE SUPPORT FOR ANY TAX POSITIONS TAKEN, AND AS SUCH, DOES NOT HAVE ANY UNCERTAIN TAX POSITIONS THAT ARE MATERIAL TO THE FINANCIAL STATEMENTS. THE INSTITUTE'S FEDERAL AND STATE INFORMATION RETURNS FOR THE YEARS 2009 THROUGH 2011 ARE SUBJECT TO EXAMINATION BY REGULATORY AGENCIES, GENERALLY FOR THREE YEARS AND FOUR YEARS AFTER THEY WERE FILED FOR FEDERAL AND STATE, RESPECTIVELY."}]},"ScheduleR":{"tax_exempt_organizations":[{"business_name_line1":"VTT TECHNICAL RESEARCH CENTRE OF FINLAND VTT MANAGES VTT INTERNATIONAL LTD","primary_activities":"SCIENTIFIC RESEARCH","controlled_organization":false,"legal_domicile_foreign_country":"FI","foreign_address_line1":"METALLIMIEHENKUJA 2","foreign_city":"ESPOO","foreign_country":"FI","name":"VTT TECHNICAL RESEARCH CENTRE OF FINLAND VTT MANAGES VTT INTERNATIONAL LTD","foreign_address":"METALLIMIEHENKUJA 2, ESPOO, FI"}],"taxable_corporations_and_trusts":[{"business_name_line1":"VTT INTERNATIONAL LTD","primary_activity":"SCIENTIFIC RESEARCH","legal_domicile_foreign_country":"FI","foreign_address_line1":"P O BOX 1000","foreign_city":"ESPOO","foreign_country":"FI","name":"VTT INTERNATIONAL LTD","foreign_address":"P O BOX 1000, ESPOO, FI"}],"transaction_flags":{"gift_grant_or_capital_contribution_from_other_org":true,"gift_grant_or_capital_contribution_to_other_org":false,"loans_or_guarantees_from_other_org":false,"loans_or_guarantees_to_other_org":false,"performance_of_services_by_other_orgs":false,"performance_of_services_for_other_orgs":false,"sharing_of_facilities":false,"sharing_of_paid_employees":false,"reimbursement_paid_by_other_org":false,"reimbursement_paid_to_other_org":false,"rental_of_facilities_from_other_orgs":false,"rental_of_facilities_to_other_orgs":false,"purchase_of_assets_from_other_org":false,"sale_of_assets_to_other_org":false,"exchange_of_assets":false,"receipt_of_interest_annuities_rents_royalties":false,"other_transfer_from_other_org":false,"other_transfer_to_other_org":false},"transactions":[{"business_name_line1":"VTT TECHNICAL RESEARCH CENTRE OF FINLAND","amount_involved":762171,"method_of_amount_determination":"CASH","transaction_type":"C","name":"VTT TECHNICAL RESEARCH CENTRE OF FINLAND"},{"business_name_line1":"VTT INTERNATIONAL LTD","amount_involved":37197,"method_of_amount_determination":"CASH","transaction_type":"C","name":"VTT INTERNATIONAL LTD"}]},"source_xml":"201331279349301758_public.xml"}],"Latest":{"Organization":{"Hours":[0],"Total Compensation":[0],"Direct compensation":[0],"Other compensation":[0]},"Basic":{"mission":"The mission of vtt/msi molecular sciences institute (msi) is to enable the quantitative prediction of the behaviors of biological systems. To accomplish its mission, the institute will significantly advance understanding of how living systems function and evolve, and will have positive effects on human health, well-being and the bioeconomy. We are dedicated to scientific, charitable, and educational purposes in the fields of microbiology, genetics, and immunology for the discovery of new therapies, basis of disease, and how our environment influences the health of the community","primary_activities":"Significant activitiesresearch at vtt/msi molecular sciences institute (msi) enables the quantitative prediction of the behaviors of biological systems. To this end, msi emphasizes the creation of tools and techniques for generating biological information, the development of computational and analytical frameworks for integrating this data, and the design and engineering of biological systems. The goal of institute scientists is to significantly advance our understanding of how living systems function and evolve. One way that institute scientists disseminate findings from their research activities is through peer-reviewed publications.below we present select recent publications from the institute:select publicationszdraljevic s, wagner d, cheng k, ruohonen l, jntti j, penttil m, resnekov o, pesce cg. (2013)single cell measurements of enzyme level as a predictive tool for cellular fates during organic acidproduction. Appl environ microbiol. 2013 sep 13. [epub ahead of print] pmid:24038690pincus, d., ryan, c., smith, r.d., brent, r., and resnekov, o. (2013) assigning quatitative function topost-translational modifications reveals multiple sites of phosphorylation that tune yeast pheromonesignaling output. Published 12 mar 2013 | plos one 10.1371/journal.pone.0056544flanigon j, kamali-moghaddam m, burbulis i, annink c, steffen m, oeth p, brent r, van den boom d,landegren u and cantor c. (2012) multiplex protein detection with dna readout via mass spectrometry.n biotechnol. Nov 28. Doi:pii: s1871-6784(12)00860-6. 10.1016/j.nbt.2012.11.003. [epub ahead of print].bush a, chernomoretz a, yu r, gordon a. And colman-lerner a. (2012) using cell-id 1.4 with r formicroscope-based cytometry. Curr protoc mol biol. Oct; chapter 14:unit 14.18. Doi:10.1002/0471142727.mb1418s100.2).denby, c.m., im, j.h., yu, r.c., pesce, g. And brem, r.b. (2012) negative feedback confers mutationalrobustness in yeast transcription factor regulation. Proc. Natl. Acad. Sci. USA. Mar 6: 109(10):3874-3878.thomson tm, benjamin kr, bush a, love t, pincus d, resnekov o, yu rc, gordon a, colman-lernera, endy d and brent r. (2011) scaffold number in yeast signaling system sets tradeoff between systemoutput and dynamic range. Proc. Natl. Acad. Sci. USA. Dec 13;108(50):20265-70. Epub 2011 nov 23.pincus d, benjamin k, burbulis i, tsong ae and resnekov o. (2010) reagents for investigating mapksignalling in model yeast species. Yeast. 2010 jul;27(7):423-30.andrews ss, addy nj, brent r and arkin ap. (2010) detailed simulations of cell biology with smoldyn2.1. Plos comput biol. Mar 12;6(3):e1000705.andrews ss. (2009) accurate particle-based simulation of adsorption, desorption and partial transmission.phys biol. 2009 nov 12;6(4):046015.yu, r.c., pesce, c.g., colman-lerner, a., lok, l.,pincus, d., serra, e., holl, m., benjamin, k., gordon,a., and brent , r. (2008) feedback that improves information transmission in yeast signalling. Nature 456:755-761.yu rc, resnekov o, abola ap, andrews ss, benjamin kr, bruck j, burbulis ie, colman-lerner a, endyd, gordon a, holl m, lok l, pesce cg, serra e, smith rd, thomson tm, tsong ae and brent r. (2008)the alpha project: a model system for systems biology research. Iet syst biol. 2008 sep;2(5):222-33.review.burbulis, i., yamaguchi, k., yu, r., resnekov o., and brent, r. (2007) quantifying small numbers ofmolecules with a \"near-universal\" protein-dna chimera. Nat methods, 12:1011-3.gordon a, colman-lerner a, chin te, benjamin kr, yu, r.c., brent r: (2007) single-cell quantificationof molecules and rates using open-source microscope-based cytometry. Nat methods.burbulis i, yamaguchi k, gordon a, carlson r, brent r: (2005) using protein-dna chimeras to detectand count small numbers of molecules. Nat methods, 2:31-37.FY13 auditcolman-lerner a, gordon a, serra e, chin t, resnekov o, endy d, pesce cg, brent r (2005) regulatedcell-to-cell variation in a cell-fate decision system. Nature, 437:699-706.lok l, brent r: (2005) automatic generation of cellular reaction networks with moleculizer 1.0. Natbiotechnol, 23:131-136.lok l: (2004) the need for speed in stochastic simulation. Nat biotechnol, 22:964-965.lok l: (2002) pathfinder and other tools for analyzing signal transduction networks. Ann n y acad sci,971:589-594.burbulis ie, winkel-shirley b: (1999) interactions among enzymes of the arabidopsis flavonoidbiosynthetic pathway. Proc natl acad sci u s a, 96:12929-12934.webb cd, resnekov o: (1999) use of green fluorescent protein for visualization for cell-specific geneexpression and subcellular protein localization in bacillus subtilis. 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TO THIS END, MSI EMPHASIZES THE CREATION OF TOOLS AND TECHNIQUES FOR GENERATING BIOLOGICAL INFORMATION, THE DEVELOPMENT OF COMPUTATIONAL AND ANALYTICAL FRAMEWORKS FOR INTEGRATING THIS DATA, AND THE DESIGN AND ENGINEERING OF BIOLOGICAL SYSTEMS. THE GOAL OF INSTITUTE SCIENTISTS IS TO SIGNIFICANTLY ADVANCE OUR UNDERSTANDING OF HOW LIVING SYSTEMS FUNCTION AND EVOLVE. ONE WAY THAT INSTITUTE SCIENTISTS DISSEMINATE FINDINGS FROM THEIR RESEARCH ACTIVITIES IS THROUGH PEER-REVIEWED PUBLICATIONS.BELOW WE PRESENT SELECT RECENT PUBLICATIONS FROM THE INSTITUTE:SELECT PUBLICATIONSZDRALJEVIC S, WAGNER D, CHENG K, RUOHONEN L, JNTTI J, PENTTIL M, RESNEKOV O, PESCE CG. (2013)SINGLE CELL MEASUREMENTS OF ENZYME LEVEL AS A PREDICTIVE TOOL FOR CELLULAR FATES DURING ORGANIC ACIDPRODUCTION. APPL ENVIRON MICROBIOL. 2013 SEP 13. [EPUB AHEAD OF PRINT] PMID:24038690PINCUS, D., RYAN, C., SMITH, R.D., BRENT, R., AND RESNEKOV, O. 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MAR 6: 109(10):3874-3878.THOMSON TM, BENJAMIN KR, BUSH A, LOVE T, PINCUS D, RESNEKOV O, YU RC, GORDON A, COLMAN-LERNERA, ENDY D AND BRENT R. (2011) SCAFFOLD NUMBER IN YEAST SIGNALING SYSTEM SETS TRADEOFF BETWEEN SYSTEMOUTPUT AND DYNAMIC RANGE. PROC. NATL. ACAD. SCI. USA. DEC 13;108(50):20265-70. EPUB 2011 NOV 23.PINCUS D, BENJAMIN K, BURBULIS I, TSONG AE AND RESNEKOV O. (2010) REAGENTS FOR INVESTIGATING MAPKSIGNALLING IN MODEL YEAST SPECIES. YEAST. 2010 JUL;27(7):423-30.ANDREWS SS, ADDY NJ, BRENT R AND ARKIN AP. (2010) DETAILED SIMULATIONS OF CELL BIOLOGY WITH SMOLDYN2.1. PLOS COMPUT BIOL. MAR 12;6(3):E1000705.ANDREWS SS. (2009) ACCURATE PARTICLE-BASED SIMULATION OF ADSORPTION, DESORPTION AND PARTIAL TRANSMISSION.PHYS BIOL. 2009 NOV 12;6(4):046015.YU, R.C., PESCE, C.G., COLMAN-LERNER, A., LOK, L.,PINCUS, D., SERRA, E., HOLL, M., BENJAMIN, K., GORDON,A., AND BRENT , R. (2008) FEEDBACK THAT IMPROVES INFORMATION TRANSMISSION IN YEAST SIGNALLING. NATURE 456:755-761.YU RC, RESNEKOV O, ABOLA AP, ANDREWS SS, BENJAMIN KR, BRUCK J, BURBULIS IE, COLMAN-LERNER A, ENDYD, GORDON A, HOLL M, LOK L, PESCE CG, SERRA E, SMITH RD, THOMSON TM, TSONG AE AND BRENT R. (2008)THE ALPHA PROJECT: A MODEL SYSTEM FOR SYSTEMS BIOLOGY RESEARCH. IET SYST BIOL. 2008 SEP;2(5):222-33.REVIEW.BURBULIS, I., YAMAGUCHI, K., YU, R., RESNEKOV O., AND BRENT, R. (2007) QUANTIFYING SMALL NUMBERS OFMOLECULES WITH A \"NEAR-UNIVERSAL\" PROTEIN-DNA CHIMERA. NAT METHODS, 12:1011-3.GORDON A, COLMAN-LERNER A, CHIN TE, BENJAMIN KR, YU, R.C., BRENT R: (2007) SINGLE-CELL QUANTIFICATIONOF MOLECULES AND RATES USING OPEN-SOURCE MICROSCOPE-BASED CYTOMETRY. NAT METHODS.BURBULIS I, YAMAGUCHI K, GORDON A, CARLSON R, BRENT R: (2005) USING PROTEIN-DNA CHIMERAS TO DETECTAND COUNT SMALL NUMBERS OF MOLECULES. 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