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Citing CEBS

Chemical Effects in Biological Systems (CEBS)


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Citing CEBS

Many data sets in CEBS are published, so please acknowledge data sources and CEBS either by citation or in the acknowledgements section of publications you prepare using CEBS.

 

Please alert us through email to any publication that uses CEBS so that we can highlight it on our site.

 

Data sets not yet used in full publications are not available for downloading by other groups without prior written agreement of those who generated the data. It is often possible to obtain access to entire unpublished data sets or large subsets of data on a collaborative basis. Please contact the Principal Investigator listed with the Study.

 

If you are citing the use of CEBS please cite:

 

CEBS--Chemical Effects in Biological Systems: a public data repository integrating study design and toxicity data with microarray and proteomics data  .
Waters M, Stasiewicz S, Merrick BA, Tomer K, Bushel P, Paules R, Stegman N, Nehls G, Yost KJ, Johnson CH, Gustafson SF, Xirasagar S, Xiao N, Huang CC, Boyer P, Chan DD, Pan Q, Gong H, Taylor J, Choi D, Rashid A, Ahmed A, Howle R, Selkirk J, Tennant R, Fostel J.
Nucleic Acids Res. 2008 Jan;36(Database issue):D892-900.


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Citing CEBS Data

If you are citing published data from CEBS:

CEBS is a public resource that will only thrive in an open atmosphere of shared credit to authors willing to make their data public. Please cite the appropriate publication when using data from an Investigation in CEBS:

 

001-00002-0010-000-4
Heinloth AN, Irwin RD, Boorman GA, Nettesheim P, Fannin RD, Sieber SO, Snell ML, Tucker CJ, Li L, Travlos GS, Vansant G, Blackshear PE, Tennant RW, Cunningham ML, Paules RS. (2004). Gene expression profiling of rat livers reveals indicators of potential adverse effects. Toxicological Sciences 80(1): 193-202.

 

001-00001-0020-000-4
Lobenhofer EK, Auman JT, Blackshear PE, Boorman GA, Bushel PR, Cunningham ML, Fostel JM, Gerrish K, Heinloth AN, Irwin RD, Malarkey DE, Merrick BA, Sieber SO, Tucker CJ, Ward SM, Wilson RE, Hurban P, Tennant RW, Paules RS. (2008). Gene expression response in target organ and whole blood varies as a function of target organ injury phenotype. Genome Biol. 9(6):R100.

 

001-00003-0010-000-5
Merrick BA, Bruno ME, Madenspacher JH, Wetmore BA, Foley J, Pieper R, Zhao M, Makusky AJ, McGrath AM, Zhou JX, Taylor J, Tomer KB. (2006). Alterations in the rat serum proteome during liver injury from acetaminophen exposure. J Pharmacol Exp Ther. 318(2):792-802.

 

003-00001-0010-000-5
Williams RW, Bennett B, Lu L, Gu J, DeFries JC, Carosone-Link PJ, Rikke BA, Belknap JK, Johnson TE. (2004). Genetic structure of the LXS panel of recombinant inbred mouse strains: a powerful resource for complex trait analysis. Mamm Genome. 15(8):637-47.

 

Chesler EJ, Lu L, Shou S, Qu Y, Gu J, Wang J, Hsu HC, Mountz JD, Baldwin N, Langston MA, Threadgill DW, Manly KF, Williams RW. (2005). Genetic dissection of gene expression reveals polygenic and pleiotropic networks modulating brain structure and function. Nature Genetics 37: 233-242.

 

Bystrykh L, Weersing E, Dontje B, Sutton S, Pletcher MT, Wiltshire T, Su AI, Vellenga E, Wang J, Manly KF, Lu L, Chesler EJ, Alberts R, Jansen RC, Williams RW, Cooke M, de Haan G. (2005). Uncovering regulatory pathways affecting hematopoietic stem cell function using "genetical genomics"? Nature Genetics 37(3):225-32.

 

004-00001-0010-000-6
Kiyosawa N, Tanaka K, Hirao J, Ito K, Niino N, Sakuma K, Kanbori M, Yamoto T, Manabe S, Matsunuma N. (2004). Molecular mechanism investigation of phenobarbital-induced serum cholesterol elevation in rat livers by microarray analysis. Archives of Toxicology 78(8): 435-42.

 

004-00002-0010-000-6
McMillian M, Nie AY, Parker JB, Leone A, Bryant S, Kemmerer M, Herlich J, Liu Y, Yieh L, Bittner A, Liu X, Wan J, Johnson MD. (2004). A gene expression signature for oxidant stress/reactive metabolites in rat liver. Biochem Pharmacol. 68(11):2249-61.

 

McMillian M, Nie AY, Parker JB, Leone A, Kemmerer M, Bryant S, Herlich J, Yieh L, Bittner A, Liu X, Wan J, Johnson MD. (2004). Inverse gene expression patterns for macrophage activating hepatotoxicants and peroxisome proliferators in rat liver. Biochem Pharmacol. 67(11):2141-65.

 

004-00005-0010-000-0
Kramer JA, Curtiss SW, Kolaja KL, Alden CL, Blomme EA, Curtiss WC, Davila JC, Jackson CJ, Bunch RT. (2004). Acute molecular markers of rodent hepatic carcinogenesis identified by transcription profiling. Chem Res Toxicol 17(4): 463-70.

 

004-00004-0010-000-9
Natsoulis G, Pearson CI, Gollub J, P Eynon B, Ferng J, Nair R, Idury R, Lee MD, Fielden MR, Brennan RJ, Roter AH, Jarnagin K. (2008). The liver pharmacological and xenobiotic gene response repertoire. Mol Syst Biol. 4:175

 

004-00007-0000-000-2
Su AI, Wiltshire T, Batalov S, Lapp H, Ching KA, Block D, Zhang J, Soden R, Hayakawa M, Kreiman G, Cooke MP, Walker JR, Hogenesch JB. (2004). A gene atlas of the mouse and human protein-encoding transcriptomes. Proc Natl Acad Sci U S A. 101(16):6062-7

 

005-00003-0010-000-8
Cho HY, Reddy SP, Debiase A, Yamamoto M, Kleeberger SR. (2005). Gene expression profiling of NRF2-mediated protection against oxidative injury. Free Radical Biol Med. 38(3):325-43.

 

007-00001-0010-000-9
Scherf U, Ross DT, Waltham M, Smith LH, Lee JK, Tanabe L, Kohn KW, Reinhold WC, Myers TG, Andrews DT, Scudiero DA, Eisen MB, Sausville EA, Pommier Y, Botstein D, Brown PO, Weinstein JN. (2000). A gene expression database for the molecular pharmacology of cancer. Nat Genet. 24(3):236-44.

 

Ross DT, Scherf U, Eisen MB, Perou CM, Rees C, Spellman P, Iyer V, Jeffrey SS, Van de Rijn M, Waltham M, Pergamenschikov A, Lee JC, Lashkari D, Shalon D, Myers TG, Weinstein JN, Botstein D, Brown PO. (2000). Systematic variation in gene expression patterns in human cancer cell lines. Nat Genet. 24(3):227-35.

 

008-00001-0010-000-0
Ulrich RG, Rockett JC, Gibson GG, Pettit SD. (2004). Overview of an interlaboratory collaboration on evaluating the effects of model hepatotoxicants on hepatic gene expression. Environ Health Perspect. 112(4):423-7.

 

008-00002-0010-000-1
Amin RP, Vickers AE, Sistare F, Thompson KL, Roman RJ, Lawton M, Kramer J, Hamadeh HK, Collins J, Grissom S, Bennett L, Tucker CJ, Wild S, Kind C, Oreffo V, Davis JW 2nd, Curtiss S, Naciff JM, Cunningham M, Tennant R, Stevens J, Car B, Bertram TA, Afshari, CA. (2004). Identification of putative gene based markers of renal toxicity. Environ Health Perspect. 112(4):465-79.

 

Kramer JA, Pettit SD, Amin RP, Bertram TA, Car B, Cunningham M, Curtiss SW, Davis JW, Kind C, Lawton M, Naciff JM, Oreffo V, Roman RJ, Sistare FD, Stevens J, Thompson K, Vickers AE, Wild S, Afshari CA. (2004). Overview on the application of transcription profiling using selected nephrotoxicants for toxicology assessment. Environ Health Perspect. 112(4):460-4.

 

008-00003-0001-000-2
Boedigheimer MJ, Wolfinger RD, Bass MB, Bushel PR, Chou JW, Cooper M, Corton JC, Fostel J, Hester S, Lee JS, Liu F, Liu J, Qian HR, Quackenbush J, Pettit S, Thompson KL. (2008). Sources of variation in baseline gene expression levels from toxicogenomics study control animals across multiple laboratories. BMC Genomics. 9:285

 

009-00001-0010-000-1
Beyer RP, Fry RC, Lasarev MR, McConnachie LA, Meira LB, Palmer VS, Powell CL, Ross PK, Bammler TK, Bradford BU, Cranson AB, Cunningham ML, Fannin RD, Higgins GM, Hurban P, Kayton RJ, Kerr KF, Kosyk O, Lobenhofer EK, Sieber SO, Vliet PA, Weis BK, Wolfinger R. (2007). Multicenter study of acetaminophen hepatotoxicity reveals the importance of biological endpoints in genomic analyses. Toxicol Sci. 99(1):326-37.

 

010-00001-0001-000-3
Royland JE, Wu J, Zawia NH, Kodavanti PR. (2008). Gene expression profiles in the cerebellum and hippocampus following exposure to a neurotoxicant, Aroclor 1254: developmental effects. Toxicol Appl Pharmacol. 231(2):165-78

 

Royland JE, Kodavanti PR. (2008). Gene expression profiles following exposure to a developmental neurotoxicant, Aroclor 1254: pathway analysis for possible mode(s) of action. Toxicol Appl Pharmacol. 231(2):179-96

 

010-00001-0003-000-5
Royland JE, Parker JS, Gilbert ME. (2008). A genomic analysis of subclinical hypothyroidism in hippocampus and neocortex of the developing rat brain. J Neuroendocrinol. 20(12):1319-38


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