Picture of Caroline Shamu
Caroline Elizabeth Shamu, Ph.D.
Assistant Professor of Radiology

One of my main roles at Harvard Medical School is as Director of the ICCB-Longwood Screening Facility. ICCB-L supports both small molecule and RNAi screening, and was one of the first high throughput screening facilities established in an academic setting.

 

Research:

One of my main roles at Harvard Medical School is as Director of the ICCB-Longwood Screening Facility. ICCB-L supports both small molecule and RNAi screening, and was one of the first high throughput screening facilities established in an academic setting.  The screening facility operates using an investigator-initiated, staff-assisted screening model: users provide assays, their supplies, and do the bulk of the work for their screens. For example, users grow cells, purify proteins, plate cells or protein in assay plates, and read out assays using plate readers or imagers. ICCB-L staff provide advice and assistance at every step of the screening process: they advise on assay strategies and assay miniaturization, handle and transfer libraries to assay plates, help run automation for some assays when complicated automation protocols are required, and provide support for data analysis.

My group also works to develop data standards and repositories for large-scale datasets from high-throughput assays.  For example, my group developed the open source Screensaver laboratory information management system (Tolopko et al. 2010) for storing screen data generated at ICCB-L.  Via our participation in the NIH-funded LINCS program, we have played a leadership role in helping to develop metadata standards and public repositories for the emerging field of systems pharmacology.

Address: 

Director, ICCB-Longwood Screening Facility

Seeley G Mudd Bldg, Room 604

250 Longwood Avenue

Boston, MA 02115

Publications View
The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level Cataloging of Human Cells Response to Perturbations.
Authors: Authors: Keenan AB, Jenkins SL, Jagodnik KM, Koplev S, He E, Torre D, Wang Z, Dohlman AB, Silverstein MC, Lachmann A, Kuleshov MV, Ma'ayan A, Stathias V, Terryn R, Cooper D, Forlin M, Koleti A, Vidovic D, Chung C, Schürer SC, Vasiliauskas J, Pilarczyk M, Shamsaei B, Fazel M, Ren Y, Niu W, Clark NA, White S, Mahi N, Zhang L, Kouril M, Reichard JF, Sivaganesan S, Medvedovic M, Meller J, Koch RJ, Birtwistle MR, Iyengar R, Sobie EA, Azeloglu EU, Kaye J, Osterloh J, Haston K, Kalra J, Finkbiener S, Li J, Milani P, Adam M, Escalante-Chong R, Sachs K, Lenail A, Ramamoorthy D, Fraenkel E, Daigle G, Hussain U, Coye A, Rothstein J, Sareen D, Ornelas L, Banuelos M, Mandefro B, Ho R, Svendsen CN, Lim RG, Stocksdale J, Casale MS, Thompson TG, Wu J, Thompson LM, Dardov V, Venkatraman V, Matlock A, Van Eyk JE, Jaffe JD, Papanastasiou M, Subramanian A, Golub TR, Erickson SD, Fallahi-Sichani M, Hafner M, Gray NS, Lin JR, Mills CE, Muhlich JL, Niepel M, Shamu CE, Williams EH, Wrobel D, Sorger PK, Heiser LM, Gray JW, Korkola JE, Mills GB, LaBarge M, Feiler HS, Dane MA, Bucher E, Nederlof M, Sudar D, Gross S, Kilburn DF, Smith R, Devlin K, Margolis R, Derr L, Lee A, Pillai A.
Cell Syst
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RNAi screening comes of age: improved techniques and complementary approaches.
Authors: Authors: Mohr SE, Smith JA, Shamu CE, Neumüller RA, Perrimon N.
Nat Rev Mol Cell Biol
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Online GESS: prediction of miRNA-like off-target effects in large-scale RNAi screen data by seed region analysis.
Authors: Authors: Yilmazel B, Hu Y, Sigoillot F, Smith JA, Shamu CE, Perrimon N, Mohr SE.
BMC Bioinformatics
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Metadata Standard and Data Exchange Specifications to Describe, Model, and Integrate Complex and Diverse High-Throughput Screening Data from the Library of Integrated Network-based Cellular Signatures (LINCS).
Authors: Authors: Vempati UD, Chung C, Mader C, Koleti A, Datar N, Vidovic D, Wrobel D, Erickson S, Muhlich JL, Berriz G, Benes CH, Subramanian A, Pillai A, Shamu CE, Schürer SC.
J Biomol Screen
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Differential determinants of cancer cell insensitivity to antimitotic drugs discriminated by a one-step cell imaging assay.
Authors: Authors: Tang Y, Xie T, Florian S, Moerke N, Shamu C, Benes C, Mitchison TJ.
J Biomol Screen
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On target: a public repository for large-scale RNAi experiments.
Authors: Authors: Shamu CE, Wiemann S, Boutros M.
Nat Cell Biol
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Toward interoperable bioscience data.
Authors: Authors: Sansone SA, Rocca-Serra P, Field D, Maguire E, Taylor C, Hofmann O, Fang H, Neumann S, Tong W, Amaral-Zettler L, Begley K, Booth T, Bougueleret L, Burns G, Chapman B, Clark T, Coleman LA, Copeland J, Das S, de Daruvar A, de Matos P, Dix I, Edmunds S, Evelo CT, Forster MJ, Gaudet P, Gilbert J, Goble C, Griffin JL, Jacob D, Kleinjans J, Harland L, Haug K, Hermjakob H, Ho Sui SJ, Laederach A, Liang S, Marshall S, McGrath A, Merrill E, Reilly D, Roux M, Shamu CE, Shang CA, Steinbeck C, Trefethen A, Williams-Jones B, Wolstencroft K, Xenarios I, Hide W.
Nat Genet
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Traditional Medicine Collection Tracking System (TM-CTS): a database for ethnobotanically driven drug-discovery programs.
Authors: Authors: Harris ES, Erickson SD, Tolopko AN, Cao S, Craycroft JA, Scholten R, Fu Y, Wang W, Liu Y, Zhao Z, Clardy J, Shamu CE, Eisenberg DM.
J Ethnopharmacol
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Developing a library of authenticated Traditional Chinese Medicinal (TCM) plants for systematic biological evaluation--rationale, methods and preliminary results from a Sino-American collaboration.
Authors: Authors: Eisenberg DM, Harris ES, Littlefield BA, Cao S, Craycroft JA, Scholten R, Bayliss P, Fu Y, Wang W, Qiao Y, Zhao Z, Chen H, Liu Y, Kaptchuk T, Hahn WC, Wang X, Roberts T, Shamu CE, Clardy J.
Fitoterapia
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Screensaver: an open source lab information management system (LIMS) for high throughput screening facilities.
Authors: Authors: Tolopko AN, Sullivan JP, Erickson SD, Wrobel D, Chiang SL, Rudnicki K, Rudnicki S, Nale J, Selfors LM, Greenhouse D, Muhlich JL, Shamu CE.
BMC Bioinformatics
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