دورية أكاديمية
أعرض في EDS

The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment.

التفاصيل البيبلوغرافية
العنوان: The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment.
المؤلفون: Clark HF; Departments of Bioinformatics, Molecular Biology and Protein Chemistry, Genentech, Inc, South San Francisco, California 94080, USA. hclark@gene.com, Gurney AL, Abaya E, Baker K, Baldwin D, Brush J, Chen J, Chow B, Chui C, Crowley C, Currell B, Deuel B, Dowd P, Eaton D, Foster J, Grimaldi C, Gu Q, Hass PE, Heldens S, Huang A, Kim HS, Klimowski L, Jin Y, Johnson S, Lee J, Lewis L, Liao D, Mark M, Robbie E, Sanchez C, Schoenfeld J, Seshagiri S, Simmons L, Singh J, Smith V, Stinson J, Vagts A, Vandlen R, Watanabe C, Wieand D, Woods K, Xie MH, Yansura D, Yi S, Yu G, Yuan J, Zhang M, Zhang Z, Goddard A, Wood WI, Godowski P, Gray A
المصدر: Genome research [Genome Res] 2003 Oct; Vol. 13 (10), pp. 2265-70. Date of Electronic Publication: 2003 Sep 15.
نوع المنشور: Journal Article
اللغة: English
بيانات الدورية: Publisher: Cold Spring Harbor Laboratory Press Country of Publication: United States NLM ID: 9518021 Publication Model: Print-Electronic Cited Medium: Print ISSN: 1088-9051 (Print) Linking ISSN: 10889051 NLM ISO Abbreviation: Genome Res Subsets: MEDLINE
أسماء مطبوعة: Original Publication: Cold Spring Harbor, N.Y. : Cold Spring Harbor Laboratory Press, c1995-
مواضيع طبية MeSH: Cell Adhesion Molecules, Neuronal*, Computational Biology/*methods , Membrane Proteins/*genetics , Proteins/*genetics , Proteins/*metabolism, GPI-Linked Proteins ; Gene Library ; Humans ; Molecular Sequence Data ; Predictive Value of Tests ; Protein Sorting Signals/genetics
مستخلص: A large-scale effort, termed the Secreted Protein Discovery Initiative (SPDI), was undertaken to identify novel secreted and transmembrane proteins. In the first of several approaches, a biological signal sequence trap in yeast cells was utilized to identify cDNA clones encoding putative secreted proteins. A second strategy utilized various algorithms that recognize features such as the hydrophobic properties of signal sequences to identify putative proteins encoded by expressed sequence tags (ESTs) from human cDNA libraries. A third approach surveyed ESTs for protein sequence similarity to a set of known receptors and their ligands with the BLAST algorithm. Finally, both signal-sequence prediction algorithms and BLAST were used to identify single exons of potential genes from within human genomic sequence. The isolation of full-length cDNA clones for each of these candidate genes resulted in the identification of >1000 novel proteins. A total of 256 of these cDNAs are still novel, including variants and novel genes, per the most recent GenBank release version. The success of this large-scale effort was assessed by a bioinformatics analysis of the proteins through predictions of protein domains, subcellular localizations, and possible functional roles. The SPDI collection should facilitate efforts to better understand intercellular communication, may lead to new understandings of human diseases, and provides potential opportunities for the development of therapeutics.
التعليقات: Erratum in: Genome Res. 2003 Dec;13(12):2759.
References: Curr Opin Cell Biol. 1999 Apr;11(2):184-9. (PMID: 10209149)
J Biol Chem. 2002 May 10;277(19):16831-6. (PMID: 11877449)
Drug Discov Today. 1999 Mar;4(3):115-122. (PMID: 10322263)
Genome Biol. 2002 Jul 29;3(8):REVIEWS3011. (PMID: 12186654)
Proc Natl Acad Sci U S A. 1998 Dec 8;95(25):14717-22. (PMID: 9843955)
J Mol Biol. 1997 Apr 25;268(1):78-94. (PMID: 9149143)
Growth Factors. 2002 Mar;20(1):1-15. (PMID: 11999214)
EMBO J. 2000 Aug 1;19(15):4046-55. (PMID: 10921885)
Nature. 2001 Aug 30;412(6850):877-84. (PMID: 11528470)
Curr Opin Hematol. 1999 Jan;6(1):37-43. (PMID: 9915552)
Trends Pharmacol Sci. 2002 Oct;23(10):459-67. (PMID: 12368070)
Genome Biol. 2001;2(3):REVIEWS3005. (PMID: 11276432)
Science. 2000 Oct 20;290(5491):523-7. (PMID: 11039935)
Trends Pharmacol Sci. 2001 Apr;22(4):201-7. (PMID: 11282421)
Curr Biol. 1998 Apr 23;8(9):525-8. (PMID: 9560343)
Genomics. 1996 Apr 1;33(1):151-2. (PMID: 8617505)
Nucleic Acids Res. 2002 Jan 1;30(1):276-80. (PMID: 11752314)
J Biol Chem. 2001 Jan 12;276(2):1660-4. (PMID: 11058597)
Science. 1997 Aug 8;277(5327):818-21. (PMID: 9242611)
Proc Natl Acad Sci U S A. 2000 Jan 18;97(2):773-8. (PMID: 10639155)
Science. 1999 Oct 15;286(5439):455-7. (PMID: 10521335)
Nature. 1998 Sep 17;395(6699):284-8. (PMID: 9751057)
Immunol Today. 1999 Jun;20(6):278-84. (PMID: 10354553)
Bioinformatics. 2003 Jan 22;19(2):307-8. (PMID: 12538263)
Cytokine. 1999 Oct;11(10):729-35. (PMID: 10525310)
Proc Natl Acad Sci U S A. 1996 Jul 9;93(14):7108-13. (PMID: 8692953)
Curr Top Microbiol Immunol. 2002;266:1-9. (PMID: 12014199)
Bioinformatics. 1998;14(9):755-63. (PMID: 9918945)
Curr Biol. 1997 Dec 1;7(12):1003-6. (PMID: 9382840)
J Immunol. 2001 Aug 15;167(4):1882-5. (PMID: 11489966)
Nature. 2001 Feb 8;409(6821):685-90. (PMID: 11217851)
J Biol Chem. 2000 Oct 6;275(40):31335-9. (PMID: 10875937)
Nucleic Acids Res. 1998 Jan 1;26(1):320-2. (PMID: 9399864)
Nature. 1998 Dec 17;396(6712):699-703. (PMID: 9872321)
EMBO J. 2000 Jul 3;19(13):3325-36. (PMID: 10880445)
Nature. 2000 Oct 19;407(6806):916-20. (PMID: 11057672)
J Interferon Cytokine Res. 2002 May;22(5):505-16. (PMID: 12060489)
Int J Biochem Cell Biol. 2001 Jan;33(1):33-44. (PMID: 11167130)
Curr Biol. 1999 Feb 25;9(4):215-8. (PMID: 10074428)
Cell. 1998 May 29;93(5):661-4. (PMID: 9630209)
Curr Opin Infect Dis. 2002 Jun;15(3):259-67. (PMID: 12015460)
سلسلة جزيئية: GENBANK AY358081; AY358082; AY358083; AY358084; AY358085; AY358086; AY358087; AY358088; AY358089; AY358090; AY358091; AY358092; AY358093; AY358094; AY358095; AY358096; AY358097; AY358098; AY358099; AY358100; AY358101; AY358102; AY358103; AY358104; AY358105; AY358106; AY358107; AY358108; AY358109; AY358110; AY358111; AY358112; AY358113; AY358114; AY358115; AY358116; AY358117; AY358118; AY358119; AY358120; AY358121; AY358122; AY358123; AY358124; AY358125; AY358126; AY358127; AY358128; AY358129; AY358130; AY358131; AY358132; AY358133; AY358134; AY358135; AY358136; AY358137; AY358138; AY358139; AY358140; AY358141; AY358142; AY358143; AY358144; AY358145; AY358146; AY358147; AY358148; AY358149; AY358150; AY358151; AY358152; AY358153; AY358154; AY358155; AY358156; AY358157; AY358158; AY358159; AY358160; AY358161; AY358162; AY358163; AY358164; AY358165; AY358166; AY358167; AY358168; AY358169; AY358170; AY358171; AY358172; AY358173; AY358174; AY358175; AY358176; AY358177; AY358178; AY358179; AY358180; AY358181; AY358182; AY358183; AY358184; AY358185; AY358186; AY358187; AY358188; AY358189; AY358190; AY358191; AY358192; AY358193; AY358194; AY358195; AY358196; AY358197; AY358198; AY358199; AY358200; AY358201; AY358202; AY358203; AY358204; AY358205; AY358206; AY358207; AY358208; AY358209; AY358210; AY358211; AY358212; AY358213; AY358214; AY358215; AY358216; AY358217; AY358218; AY358219; AY358220; AY358221; AY358222; AY358223; AY358224; AY358225; AY358226; AY358227; AY358228; AY358229; AY358230; AY358231; AY358232; AY358233; AY358234; AY358235; AY358236; AY358237; AY358238; AY358239; AY358240; AY358241; AY358242; AY358243; AY358244; AY358245; AY358246; AY358247; AY358248; AY358249; AY358250; AY358251; AY358252; AY358253; AY358254; AY358255; AY358256; AY358257; AY358258; AY358259; AY358260; AY358261; AY358262; AY358263; AY358264; AY358265; AY358266; AY358267; AY358268; AY358269; AY358270; AY358271; AY358272; AY358273; AY358274; AY358275; AY358276; AY358277; AY358278; AY358279; AY358280; AY358281; AY358282; AY358283; AY358284; AY358285; AY358286; AY358287; AY358288; AY358289; AY358290; AY358291; AY358292; AY358293; AY358294; AY358295; AY358296; AY358297; AY358298; AY358299; AY358300; AY358301; AY358302; AY358303; AY358304; AY358305; AY358306; AY358307; AY358308; AY358309; AY358310; AY358311; AY358312; AY358313; AY358314; AY358315; AY358316; AY358317; AY358318; AY358319; AY358320; AY358321; AY358322; AY358323; AY358324; AY358325; AY358326; AY358327; AY358328; AY358329; AY358330; AY358331; AY358332; AY358333; AY358334; AY358335; AY358336; AY358337; AY358338; AY358339; AY358340; AY358341; AY358342; AY358343; AY358344; AY358345; AY358346; AY358347; AY358348; AY358349; AY358350; AY358351; AY358352; AY358353; AY358354; AY358355; AY358356; AY358357; AY358358; AY358359; AY358360; AY358361; AY358362; AY358363; AY358364; AY358365; AY358366; AY358367; AY358368; AY358369; AY358370; AY358371; AY358372; AY358373; AY358374; AY358375; AY358376; AY358377; AY358378; AY358379; AY358380; AY358381; AY358382; AY358383; AY358384; AY358385; AY358386; AY358387; AY358388; AY358389; AY358390; AY358391; AY358392; AY358393; AY358394; AY358395; AY358396; AY358397; AY358398; AY358399; AY358400; AY358401; AY358402; AY358403; AY358404; AY358405; AY358406; AY358407; AY358408; AY358409; AY358410; AY358411; AY358412; AY358413; AY358414; AY358415; AY358416; AY358417; AY358418; AY358419; AY358420; AY358421; AY358422; AY358423; AY358424; AY358425; AY358426; AY358427; AY358428; AY358429; AY358430; AY358431; AY358432; AY358433; AY358434; AY358435; AY358436; AY358437; AY358438; AY358439; AY358440; AY358441; AY358442; AY358443; AY358444; AY358445; AY358446; AY358447; AY358448; AY358449; AY358450; AY358451; AY358452; AY358453; AY358454; AY358455; AY358456; AY358457; AY358458; AY358459; AY358460; AY358461; AY358462; AY358463; AY358464; AY358465; AY358466; AY358467; AY358468; AY358469; AY358470; AY358471; AY358472; AY358473; AY358474; AY358475; AY358476; AY358477; AY358478; AY358479; AY358480; AY358481; AY358482; AY358483; AY358484; AY358485; AY358486; AY358487; AY358488; AY358489; AY358490; AY358491; AY358492; AY358493; AY358494; AY358495; AY358496; AY358497; AY358498; AY358499; AY358500; AY358501; AY358502; AY358503; AY358504; AY358505; AY358506; AY358507; AY358508; AY358509; AY358510; AY358511; AY358512; AY358513; AY358514; AY358515; AY358516; AY358517; AY358518; AY358519; AY358520; AY358521; AY358522; AY358523; AY358524; AY358525; AY358526; AY358527; AY358528; AY358529; AY358530; AY358531; AY358532; AY358533; AY358534; AY358535; AY358536; AY358537; AY358538; AY358539; AY358540; AY358541; AY358542; AY358543; AY358544; AY358545; AY358546; AY358547; AY358548; AY358549; AY358550; AY358551; AY358552; AY358553; AY358554; AY358555; AY358556; AY358557; AY358558; AY358559; AY358560; AY358561; AY358562; AY358563; AY358564; AY358565; AY358566; AY358567; AY358568; AY358569; AY358570; AY358571; AY358572; AY358573; AY358574; AY358575; AY358576; AY358577; AY358578; AY358579; AY358580; AY358581; AY358582; AY358583; AY358584; AY358585; AY358586; AY358587; AY358588; AY358589; AY358590; AY358591; AY358592; AY358593; AY358594; AY358595; AY358596; AY358597; AY358598; AY358599; AY358600; AY358601; AY358602; AY358603; AY358604; AY358605; AY358606; AY358607; AY358608; AY358609; AY358610; AY358611; AY358612; AY358613; AY358614; AY358615; AY358616; AY358617; AY358618; AY358619; AY358620; AY358621; AY358622; AY358623; AY358624; AY358625; AY358626; AY358627; AY358628; AY358629; AY358630; AY358631; AY358632; AY358633; AY358634; AY358635; AY358636; AY358637; AY358638; AY358639; AY358640; AY358641; AY358642; AY358643; AY358644; AY358645; AY358646; AY358647; AY358648; AY358649; AY358650; AY358651; AY358652; AY358653; AY358654; AY358655; AY358656; AY358657; AY358658; AY358659; AY358660; AY358661; AY358662; AY358663; AY358664; AY358665; AY358666; AY358667; AY358668; AY358669; AY358670; AY358671; AY358672; AY358673; AY358674; AY358675; AY358676; AY358677; AY358678; AY358679; AY358680; AY358681; AY358682; AY358683; AY358684; AY358685; AY358686; AY358687; AY358688; AY358689; AY358690; AY358691; AY358692; AY358693; AY358694; AY358695; AY358696; AY358697; AY358698; AY358699; AY358700; AY358701; AY358702; AY358703; AY358704; AY358705; AY358706; AY358707; AY358708; AY358709; AY358710; AY358711; AY358712; AY358713; AY358714; AY358715; AY358716; AY358717; AY358718; AY358719; AY358720; AY358721; AY358722; AY358723; AY358724; AY358725; AY358726; AY358727; AY358728; AY358729; AY358730; AY358731; AY358732; AY358733; AY358734; AY358735; AY358736; AY358737; AY358738; AY358739; AY358740; AY358741; AY358742; AY358743; AY358744; AY358745; AY358746; AY358747; AY358748; AY358749; AY358750; AY358751; AY358752; AY358753; AY358754; AY358755; AY358756; AY358757; AY358758; AY358759; AY358760; AY358761; AY358762; AY358763; AY358764; AY358765; AY358766; AY358767; AY358768; AY358769; AY358770; AY358771; AY358772; AY358773; AY358774; AY358775; AY358776; AY358777; AY358778; AY358779; AY358780; AY358781; AY358782; AY358783; AY358784; AY358785; AY358786; AY358787; AY358788; AY358789; AY358790; AY358791; AY358792; AY358793; AY358794; AY358795; AY358796; AY358797; AY358798; AY358799; AY358800; AY358801; AY358802; AY358803; AY358804; AY358805; AY358806; AY358807; AY358808; AY358809; AY358810; AY358811; AY358812; AY358813; AY358814; AY358815; AY358816; AY358817; AY358818; AY358819; AY358820; AY358821; AY358822; AY358823; AY358824; AY358825; AY358826; AY358827; AY358828; AY358829; AY358830; AY358831; AY358832; AY358833; AY358834; AY358835; AY358836; AY358837; AY358838; AY358839; AY358840; AY358841; AY358842; AY358843; AY358844; AY358845; AY358846; AY358847; AY358848; AY358849; AY358850; AY358851; AY358852; AY358853; AY358854; AY358855; AY358856; AY358857; AY358858; AY358859; AY358860; AY358861; AY358862; AY358863; AY358864; AY358865; AY358866; AY358867; AY358868; AY358869; AY358870; AY358871; AY358872; AY358873; AY358874; AY358875; AY358876; AY358877; AY358878; AY358879; AY358880; AY358881; AY358882; AY358883; AY358884; AY358885; AY358886; AY358887; AY358888; AY358889; AY358890; AY358891; AY358892; AY358893; AY358894; AY358895; AY358896; AY358897; AY358898; AY358899; AY358900; AY358901; AY358902; AY358903; AY358904; AY358905; AY358906; AY358907; AY358908; AY358909; AY358910; AY358911; AY358912; AY358913; AY358914; AY358915; AY358916; AY358917; AY358918; AY358919; AY358920; AY358921; AY358922; AY358923; AY358924; AY358925; AY358926; AY358927; AY358928; AY358929; AY358930; AY358931; AY358932; AY358933; AY358934; AY358935; AY358936; AY358937; AY358938; AY358939; AY358940; AY358941; AY358942; AY358943; AY358944; AY358945; AY358946; AY358947; AY358948; AY358949; AY358950; AY358951; AY358952; AY358953; AY358954; AY358955; AY358956; AY358957; AY358958; AY358959; AY358960; AY358961; AY358962; AY358963; AY358964; AY358965; AY358966; AY358967; AY358968; AY358969; AY358970; AY358971; AY358972; AY358973; AY358974; AY358975; AY358976; AY358977; AY358978; AY358979; AY358980; AY358981; AY358982; AY358983; AY358984; AY358985; AY358986; AY358987; AY358988; AY358989; AY358990; AY358991; AY358992; AY358993; AY358994; AY358995; AY358996; AY358997; AY358998; AY358999; AY359000; AY359001; AY359002; AY359003; AY359004; AY359005; AY359006; AY359007; AY359008; AY359009; AY359010; AY359011; AY359012; AY359013; AY359014; AY359015; AY359016; AY359017; AY359018; AY359019; AY359020; AY359021; AY359022; AY359023; AY359024; AY359025; AY359026; AY359027; AY359028; AY359029; AY359030; AY359031; AY359032; AY359033; AY359034; AY359035; AY359036; AY359037; AY359038; AY359039; AY359040; AY359041; AY359042; AY359043; AY359044; AY359045; AY359046; AY359047; AY359048; AY359049; AY359050; AY359051; AY359052; AY359053; AY359054; AY359055; AY359056; AY359057; AY359058; AY359059; AY359060; AY359061; AY359062; AY359063; AY359064; AY359065; AY359066; AY359067; AY359068; AY359069; AY359070; AY359071; AY359072; AY359073; AY359074; AY359075; AY359076; AY359077; AY359078; AY359079; AY359080
المشرفين على المادة: 0 (Cell Adhesion Molecules, Neuronal)
0 (GPI-Linked Proteins)
0 (Membrane Proteins)
0 (NEGR1 protein, human)
0 (Protein Sorting Signals)
0 (Proteins)
تواريخ الأحداث: Date Created: 20030917 Date Completed: 20031208 Latest Revision: 20240314
رمز التحديث: 20240314
مُعرف محوري في PubMed: PMC403697
DOI: 10.1101/gr.1293003
PMID: 12975309
قاعدة البيانات: MEDLINE
الوصف
تدمد:1088-9051
DOI:10.1101/gr.1293003