Components of the antigen processing and presentation pathway revealed by gene expression microarray analysis of following B cell antigen receptor (BCR) stimulation

BMC Bioinformatics

Volumn 7, Issue , 2006, Pages

  Lee, Jamie A ^a   Sinkovits, Robert S ^b   Mock, Dennis ^b   Rab, Eva L ^a   Cai, Jennifer ^a   Yang, Peng ^a   Saunders, Brian ^b   Hsueh, Robert C ^a   Choi, Sangdun ^d   Subramaniam, Shankar ^b,c   Scheuermann, Richard H ^a,b  

^a UNIVERSITY OF TEXAS SOUTHWESTERN MEDICAL CENTER   (United States)

^b UNIVERSITY OF CALIFORNIA   (United States)

^c UNIVERSITY OF CALIFORNIA SAN DIEGO   (United States)

^d CALIFORNIA INSTITUTE OF TECHNOLOGY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

B CELL ANTIGEN RECEPTORS; BIOLOGICAL RESPONSE; COMPUTATIONAL APPROACH; EXPERIMENTAL VALIDATIONS; EXTRACELLULAR LIGANDS; GENE EXPRESSION MICROARRAY; MULTIPLE COMPONENTS; STATISTICAL APPROACH;

ACTIVATION ANALYSIS; CELL DEATH; CLUSTER ANALYSIS; GENE EXPRESSION; LIGANDS; MICROARRAYS; PROTONS; SIGNAL TRANSDUCTION;

ANTIGENS;

B LYMPHOCYTE ANTIGEN; COMPLEMENTARY DNA; LIGAND; LYMPHOCYTE ANTIGEN RECEPTOR; MAJOR HISTOCOMPATIBILITY ANTIGEN CLASS 2; PROTON PUMP; ANTIGEN;

ANIMAL CELL; ANTIGEN EXPRESSION; ANTIGEN PRESENTATION; ARTICLE; B LYMPHOCYTE; CLUSTER ANALYSIS; CONTROLLED STUDY; CORRELATION ANALYSIS; DATA ANALYSIS; DNA MICROARRAY; EXPERIMENTAL STUDY; FOLLOW UP; GENE CLUSTER; GENE EXPRESSION; GENETIC ANALYSIS; INFORMATION PROCESSING; INTERNALIZATION; ION TRANSPORT; MATHEMATICAL COMPUTING; MOLECULAR BIOLOGY; MOUSE; NONHUMAN; STATISTICAL ANALYSIS; STIMULATION; UPREGULATION; VALIDATION STUDY; ALGORITHM; CELL CULTURE; COMPUTER PROGRAM; GENE EXPRESSION PROFILING; HUMAN; LYMPHOCYTE ACTIVATION; METABOLISM; PHYSIOLOGY; PROCEDURES; PROTEIN ANALYSIS; SIGNAL TRANSDUCTION;

ALGORITHMS; ANTIGEN PRESENTATION; ANTIGENS; B-LYMPHOCYTES; CELLS, CULTURED; DATA INTERPRETATION, STATISTICAL; GENE EXPRESSION PROFILING; HUMANS; LYMPHOCYTE ACTIVATION; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PROTEIN INTERACTION MAPPING; RECEPTORS, ANTIGEN, B-CELL; SIGNAL TRANSDUCTION; SOFTWARE;

EID: 33745062476     PISSN: 14712105     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-7-237     Document Type: Article

References (106)

1. Hsueh RC, Scheuermann RH: Tyrosine kinase activation in the decision between growth, differentiation, and death responses initiated from the B cell antigen receptor. Adv Immunol 2000, 75:283-316.
2. DeFranco AL: Molecular aspects of B-lymphocyte activation. Annu Rev Cell Biol 1987, 3:143-78.
3. Bryant PW, Lennon-Dumenil AM, Fiebiger E, Lagaudriere-Gesbert C, Ploegh HL: Proteolysis and antigen presentation by MHC class II molecules. Adv Immunol 2002, 80:71-114.
4. Siemasko K. Clark MR: The control and facilitation of MHC class II antigen processing by the BCR. Curr Opin Immunol 2001, 13:32-6.
5. Lanzavecchia A, Bove S: Specific B lymphocytes efficiently pick up, process and present antigen to T cells. Behring Inst Mitt 1985:82-7.
6. McGovern EM, Moquin AE, Caballero A, Drake JR: The effect of B cell receptor signaling on antigen endocytosis and processing. Immunol Invest 2004, 33:143-56.
7. Brown BK, Li C, Cheng PC, Song W: Trafficking of the Igalpha/Igbeta. heterodimer with membrane Ig and bound antigen to the major histocompatibility complex class II peptide-loading compartment. J Biol Chem 1999, 274:11439-46.
8. Zhu X, Hart R, Chang MS, Kim JW, Lee SY, Cao YA, Mock D, Ke E, Saunders B, Alexander A, et al.: Analysis of the major patterns of B cell gene expression changes in response to short-term stimulation with 33 single ligands. J Immunol 2004, 173:7141-9.
9. Gene Ontology [http://www.geneontology.org]
10. Ashburner M, Ball CA Blake JA, Botstein D, Butler H, Cherry JM, Davis AP, Dolinski K, Dwight SS, Eppig JT, et al.: Gene ontology. tool for the unification of biology. The Gene Ontology Consortium. Nature Genetics 2000, 25:25-9.
11. Zhong S, Li C, Wong WH: Software for extracting gene annotation and gene ontology information for microarray analysis. Nucleic Acids Res 2003, 31:3483-6.
12. Draghici S, Khatri R Martins RP, Ostermeier GC, Krawetz SA: Global functional profiling of gene expression. Genomics 2003, 81:98-104.
13. Doniger SW, Salomonis N, Dahlquist KD, Vranizan K, Lawlor SC, Conklin BR. MAPPFinder: using Gene Ontology and Gen-MAPP to create a global gene-expression profile from microarray data. Genome Biol 2003, 4:R7.
14. Bonferroni Correction [http://mathworld.wolfram.com/ BonferronCorrection.html]
15. Kehry MR: CD40-mediated signaling in B cells. Balancing cell survival, growth, and death. J Immunol 1996, 156:2345-8.
16. Ha YJ, Lee JR. Role of TNF receptor-associated factor 3 in the CD40 signaling by production of reactive oxygen species through association with p40phox, a cytosolic subunit of nicotinamide adenine dinucleotide phosphate oxidase. J Immunol 2004, 172:231-9.
17. Contin C, Pitard V, Itai T, Nagata S, Moreau JF, Dechanet-Merville J: Membrane-anchored CD40 is processed by the tumor necrosis factor-alpha-converting enzyme. Implications for CD40 signaling. J Biol Chem 2003, 278:32801-9. Epub 2003 Jun 16
18. Isolation of Resting B Lymphocytes from One or More Groups of Four Mouse Spleens [http://www.segnaling-gateway.org/data/cgi-bin/ ProtocolFile.cgi?pid=PP00000001]
19. Hsueh RC, Roach TIA, Lin K-M, O'Connell TD, Han H, Yan Z: Purification and Characterization of Mouse Splenic B Lymphocytes. AfCS Research Reports 2002.
20. AfCS Solution Protocol [http://www.signaling-gateway.org/data/cgi-bin/ ProtocolFile.cgi??pid=PS00000056]
21. AfCS Protocols [http://www.signaling-gateway.org/data/ProtocolLinks.html]
22. AfCS Ligand Screen Experiments [http://www.signaling-gateway.org/data/ cgi-bin/table.cgi?cellabbr=BC]
23. Tusher VG, Tibshirani R, Chu G: Significance analysis of micro-arrays applied to the ionizing radiation response. Proc Natl Acad Sci USA 2001, 98:5116-21. Epub 2001 Apr 17
24. Eisen MB, Spellman PT, Brown PO, Botstein D: Cluster analysis and display of genome-wide expression patterns. Proc Natl Acad Sci USA 1998, 95:14863-8.
25. Grigoriev A: A relationship between gene expression and protein interactions on the proteome scale: analysis of the bacteriophage T7 and the yeast Saccharomyces cerevisiae. Nucleic Acids Res 2001, 29:3513-9.
26. Ge H, Liu Z, Church GM, Vidal M: Correlation between transcriptome and interactome mapping data from Saccharomyces cerevisiae. Nat Genet 2001, 29:482-6.
27. P Kemmeren, van Berkum NL, Vilo J, Bijma T, Donders R, Brazma A, Holstege FC: Protein interaction verification and functional annotation by integrated analysis of genome-scale data. Mol Cell 2002, 9:1133-43.
28. CLASSIFI [http://pathcuric1.swmed.edu/pathdb/CLASSIFI.html]
29. Primer3 [http://frodo.wi.mit.edu/cgi-bin/primer3/primer3www.cgi]
30. Schmittgen TD, Zakrajsek BA: Effect of experimental treatment on housekeeping gene expression: validation by real-time, quantitative RT-PCR. J Biochem Biophys Methods 2000, 46:69-81.
31. Tebar F, Bohlander SK, Sorkin A. Clathrin assembly lymphoid myeloid leukemia (CALM) protein: localization in endocyticcoated pits, interactions with clathrin, and the impact of overexpression on clathrin-mediated traffic. Mol Biol Cell 1999, 10:2687-702.
32. Wu HJ, Venkataraman C, Estus S, Dong C, Davis RJ, Flavell RA, S Bondada: Positive signaling through CD72 induces mitogen-activated protein kinase activation and synergizes with B cell receptor signals to induce X-linked immunodeficiency B cell proliferation. J Immunol 2001, 167:1263-73.
33. Hokazono Y, Adachi T, Wabl M, Tada N, Amagasa T, Tsubata T: Inhibitory coreceptors activated by antigens but not by anti-Ig heavy chain antibodies install requirement of costimulation through CD40 for survival and proliferation of B cells. J Immunol 2003, 171:1835-43.
34. Fujiwara N, Fusaki N, Hozumi N: CD72 stimulation modulates anti-IgM induced apoptotic signaling through the pathway of NF-kappaB, c-Myc and p27(Kipl).Microbiol Immunol 2004, 48:59-66.
35. Adachi T, Flaswinkel H, Yakura H, Reth M, Tsubata T: The B cell surface protein CD72 recruits the tyrosine phosphatase SHP-1 upon tyrosine phosphorylation. J Immunol 1998, 160:4662-5.
36. Marti F, Krause A, Post NH, Lyddane C, Dupont B, Sadelain M, PD King Negative-feedback regulation of CD28 costimulation by a novel mitogen-activated protein kinase phosphatase, MKP6. J Immunol 2001, 166:197-206.
37. Schulze-Luehrmann J, Santner-Nanan B, Jha MK, Schimpl A, Avots A, Serfling E: Hematopoietic progenitor kinase I supports apoptosis of T lymphocytes. Blood 2002, 100:954-60.
38. Hu E, Kim JB, Sarraf P, Spiegelman BM: Inhibition of adipogenesis through MAP kinase-mediated phosphorylation of PPAR-gamma. Science 1996, 274:2100-3.
39. Hu MC, Qiu WP, Wang X, Meyer CF, Tan TH: Human HPKI, a novel human hernatopoietic progenitor kinase that activates the JNK/SAPK kinase cascade. Genes Dev 1996, 10:2251-64.
40. Tanaka N, Kamanaka M, Enslen H, Dong C, Wysk M, Davis RJ, Flavell RA. Differential involvement of p38 mitogen-activated protein kinase kinases MKK3 and MKK6 in T-cell apoptosis. EMBO Rep 2002, 3:785-91. Epub 2002 Jul 15
41. Lu HT, Yang DD, Wysk M, Gatti E, Mellman I, Davis RJ, Flavell RA: Defective IL-12 production in mitogen-activated protein (MAP) kinase kinase 3 (Mkk3)-deficient mice. Embo J 1999, 18:1845-57.
42. Datta PK, Chytil A, Gorska AE, Moses HL: Identification of STRAP, a novel WD domain protein in transforming growth factor-beta signaling. J Biol Chem 1998, 273:34671-4.
43. Habas R, Kato Y, He X: Wnt/Frizzled activation of Rho regulates vertebrate gastrulation and requires a novel Formin homology protein Daaml. Cell 2001, 107:843-54.
44. Healy JI, Dolmetsch RE, Timmerman LA, Cyster JG, Thomas ML, Crabtree GR, Lewis RS, Goodnow CC: Different nuclear signals are activated by the B cell receptor during positive versus negative signaling. Immunity 1997, 6:419-28.
45. Peng SL, Gerth AJ, Ranger AM, Glimcher LH: NFATc1 and NFATc2 together control both T and B cell activation and differentiation. Immunity 2001, 14:13-20.
46. Kondo E, Harashima A, Takabatake T, Takahashi H, Matsuo Y, Yoshino T, Orita K, Akagi T: NF-ATc2 induces apoptosis in Burkitt's lymphoma cells through signaling via the B cell antigen receptor. Eur J Immunol 2003, 33:1-11.
47. Teasdale RD, Loci D, Houghton F, Karlsson L, Gleeson PA: A large family of endosome-localized proteins related to sorting nexin I. Biochem J 2001, 358:7-16.
48. Towler MC, Gleeson PA, Hoshino S, Rahkila P, Manalo V, Ohkoshi N, Ordahl C, Parton RG, Brodsky FM: Clathrin isoform CHC22, a component of neuromuscular and myotendinous junctions, binds sorting nexin 5 and has increased expression during myogenesis and muscle regeneration. Mol Biol Cell 2004, 15:3181-95. Epub 2004 May 7
49. Mbele GO, Deloulme JC, Gentil BJ, Delphin C, Ferro M, Garin J, Takahashi M, Baudier J: The zinc- and calcium-binding S100B interacts and co-localizes with IQGAPI during dynamic rearrangement of cell membranes. J Biol Chem 2002, 277:49998-50007. Epub 2002 Oct 10
50. Roy M, Li Z, Sacks DB: IQGAPI binds ERK2 and modulates its activity. J Biol Chem 2004, 279:17329-37. Epub 2004 Feb 17
51. Topp JD, Gray NW, Gerard RD, Horazdovsky BF: Alsin is a Rab5 and Rac1 guanine nuclecitide exchange factor. J Biol Chem 2004, 279:24612-23. Epub 2004 Mar 19
52. Kunita R, Otomo, A, Mizumura H, Suzuki K, Showguchi-Miyata J, Yanagisawa Y, Hadano S, Ikeda JE: Homo-oligomerization of ALS2 through its unique carboxy-terminal regions is essential for the ALS2-associated Rab5 guanine nucleotide exchange activity and its regulatory function on endosome trafficking. J Biol Chem 2004, 7:7.
53. Yu H, Leaf DS, Moore HP: Gene cloning and characterization of a GTP-binding Rab protein from mouse pituitary AtT-20 cells. Gene 1993, 132:273-8.
54. Lutcke A, Parton RG, Murphy C, Olkkonen VM, Dupree P, Valencia A, Simons K, Zerial M: Cloning and subcellular localization of novel rab proteins reveals polarized and cell type-specific expression. J Cell Sci 1994, 107:3437-48.
55. Schafer U, Seibold S, Schneider A, Neugebauer E: Isolation and characterisation of the human rab 18 gene after stimulation of endothelial cells with histamine. FEBS Lett 2000, 466:148-54.
56. Segev N: insight into functions through novel interactions. Curr Opin Cell Biol 2001, 13:500-11.
57. Seabra MC, Mules EH, Hume AN: Rab GTPases, intracellular traffic and disease. Trends Mol Med 2002, 8:23-30.
58. Smith AN, Lovering RC, Futai M, Takeda J, Brown D, Karet FE: Revised nomenclature for mammalian vacuolar-type H+ - ATPase subunit genes. Mol Cell 2003, 12:801-3.
59. Sun-Wada GH, Yoshimizu T, Imai-Senga Y, Wada Y, Futai M: Diversity of mouse proton-translocating ATPase: presence of multiple isoforms of the C, d and G subunits. Gene 2003, 302:147-53.
60. Nishi T, Forgac M: The vacuolar (H+)-ATPases-nature's most versatile proton pumps. Not Rev Mol Cell Biol 2002, 3:94-103.
61. Demirci FY, White NJ, Rigatti BW, Lewis KF, Gorin MB: Identification, genomic structure, and screening of the vacuolar proton-ATPase membrane sector-associated protein M8-9 gene within the COD1 critical region (Xp11.4). Mol Vis 2001, 7:234-9.
62. Ludwig J, Kerscher S, Brandt U, Pfeiffer K, Getlawi F, Apps DK, Schagger H: Identification and characterization of a novel 9.2-kDa membrane sector-associated protein of vacuolar proton-ATPase from chromaffin granules. J Biol Chem 1998, 273:10939-47.
63. Kornak U, Bosl MR, Kubisch C: Complete genomic structure of the CLCN6 and CLCN7 putative chloride channel genes(1). Biochim Biophys Acta 1999, 1447:100-6.
64. Campos-Xavier AB, Saraiva JM, Ribeiro LM, Munnich A, Cormier-Daire V: Chloride channel 7 (CLCN7) gene mutations in intermediate autosomal recessive osteopetrosis. Hum Genet 2003, 112:186-9. Epub 2002 Nov 7
65. Li W, Zhang Q, Oiso N, Novak EK, Gautam R, O'Brien EP, Tinsley CL, Blake DJ, Spritz RA Copeland NG, et al: Hermansky-Pudlak syndrome type 7 (HPS-7) results from mutant dysbindin, a member of the biogenesis of lysosome-related organelles complex 1 (BLOC-1). Nat Genet 2003, 35:84-9. Epub 2003 Aug 17
66. Pennacchio LA, Myers RM: Isolation and characterization of the mouse cystatin B gene. Genome Res 1996, 6:1103-9.
67. Pennacchio LA Lehesjoki AE, Stone NE, Willour VL, Virtaneva K, Miao J, D'Amato E, Ramirez L, Faham M, Koskiniemi M, et al.: Mutations in the gene encoding cystatin B in progressive myoclonus epilepsy (EPM1). Science 1996, 271:1731-4.
68. Shannon P, Pennacchio LA, Houseweart MK, Minassian BA, Myers RM: Neuropathological changes in a mouse model of progressive myoclonus epilepsy: cystatin B deficiency and Unverricht-Lundborg disease. J Neuropathol Exp Neural 2002, 61:1085-91.
69. Beccari T, Datti A, Orlacchio A, Farinelli S, Blasi E, Hoade J, Stirling JL: Calcium ionophore A-23187 inhibits the secretion of beta-hexosaminidase from the GG2EE mouse macrophage cell line. Biochem Int 1992, 27:783-91.
70. Beccari T, Hoade J, Orlacchio A, Stirling JL: Cloning and sequence analysis of a cDNA encoding the alpha-subunit of mouse beta-N-acetylhexosaminidase and comparison with the human enzyme. Biochem J 1992, 285:593-6.
71. Lankar D, Vincent-Schneider H, Briken V, Yokozeki T, Raposo G, Bonnerot C: Dynamics of major histocompatibility complex class II compartments during B cell receptor-mediated cell activation. J Exp Med 2002, 195:461-72.
72. Ezaki J, Takeda-Ezaki M, Koike M, Ohsawa Y, Taka H, Mineki R, Murayama K, Uchiyama Y, Ueno T, Kominami E: Characterization of Cln3p, the gene product responsible for juvenile neuronal ceroid lipofuscinosis, as a lysosomal integral membrane glycoprotein. J Neurochem 2003, 87:1296-308.
73. Mycko MP, Cwiklinska H, Szymanski J, Szymanska B, Kudla G, Kilianek L, Odyniec A, Brosnan CF, Selmaj KW: Inducible heat shock protein 70 promotes myelin autoantigen presentation by the HLA class II. J Immunol 2004, 172:202-13.
74. Chae TH, Kim S, Marz KE, Hanson PI, Walsh CA: The hyh mutation uncovers roles for alpha Snap in apical protein localization and control of neural cell fate. Nat Genet 2004, 36:264-70. Epub 2004 Feb 1
75. Lemons PP, Chen D, Bernstein AM, Bennett MK, Whiteheart SW: Regulated secretion in platelets: identification of elements of the platelet exocytosis machinery. Blood 1997, 90:1490-500.
76. Walter M, Davies JP, Ioannou YA. Telomerase immortalization upregulates Rab9 expression and restores LDL cholesterol egress from Niemann-Pick CI late endosomes. J Lipid Res 2003, 44:243-53. Epub 2002 Nov 4
77. Davies JP, Cotter PD, Ioannou YA: Cloning and mapping of human Rab7 and Rab9 cDNA sequences and identification of a Rab9 pseudogene. Genomics 1997, 41:131-4.
78. van der Stoep N, Quinten E. van den Elsen PJ: Transcriptional regulation of the MHC class II trans-activator (CIITA) promoter III: identification of a novel regulatory region in the 5′-untranslated region and an important role for cAMP-responsive element binding protein I and activating transcription factor-I in CIITA-promoter III transcriptional activation in B lymphocytes. J Immunol 2002, 169:5061-71.
79. Romisch K. Surfing the Sec61 channel: bidirectional protein translocation across the ER membrane. J Cell Sci 1999, 112:4185-91.
80. Hirama T, Miller CW, Koeffler HP: Translocon-associated protein alpha transcripts are induced by granulocyte-macrophage colony-stimulating factor and exhibit complex alternative polyadenylation. FEBS Lett 1999, 455:223-7.
81. Yamagata K, Nakanishi T, Ikawa M, Yamaguchi R, Moss SB, Okabe M: Sperm from the calmegin-deficient mouse have normal abilities for binding and fusion to the egg plasma membrane. Dev Biol 2002, 250:348-57.
82. Romagnoli P, Germain RN: Inhibition of invariant chain (li)-calnexin interaction results in enhanced degradation of li but does not prevent the assembly of alpha beta li complexes. J Exp Med 1995, 182:2027-36.
83. Meyer HA, Hartmann E The yeast SPC22/23 homolog Spc3p is essential for signal peptidase activity. J Biol Chem 1997, 272:13159-64.
84. Edgar AJ, Polak JM: Human homologues of yeast vacuolar protein sorting 29 and 35. Biochem Biophys Res Commun 2000, 277:622-30.
85. Murk JL, Humbel BM, Ziese U, Griffith JM, Posthuma G, Slot JW, Koster AJ, Verkleij AJ, Geuze HJ, Kleijmeer MJ: Endosomal compartmentalization in three dimensions: implications for membrane fusion. Proc Natl Acad Sci U S A 2003, 100-13332-7. Epub 2003 Nov 3
86. Oertle T, Klinger M, Stuermer CA Schwab ME: A reticular rhapsody: phylogenic evolution and nomenclature of the RTN/Nogo gene family. Faseb J 2003, 17:1238-47.
87. Kumamaru E, Kuo CH, Fujimoto T, Kohama K, Zeng LH, Taira E, Tanaka H, Toyoda T, Miki N: Reticulon3 expression in rat optic and olfactory systems. Neurosci Lett 2004, 356:17-20.
88. Chu CC, Paul WE: Expressed genes in interleukin-4 treated B cells identified by cDNA representational difference analysis. Mol Immunol 1998, 35:487-502.
89. Mootha VK, Bunkenborg J, Olsen JV, Hjerrild M, Wisniewski JR, Stahl E, Bolouri MS, Ray HN, Sihag S, Kamal M, et al.: Integrated analysis of protein composition, tissue diversity, and gene regulation in mouse mitochondria. Cell 2003, 115:629-40.
90. Duffield A, Kamsteeg EJ, Brown AN, Pagel P, Caplan MJ: The tetraspanin CD63 enhances the internalization of the H, K-ATPase beta-subunit. Proc Natl Acad Sci U S A 2003, 100:15560-5. Epub 2003 Dec 5
91. Engering A, Kuhn L, Fluitsma D, Hoefsmit E, Pieters J: Differential post-translational modification of CD63 molecules during maturation of human dendritic cells. Eur J Biochem 2003, 270:2412-20.
92. Vogt AB, Spindeldreher S, Kropshofer H: Clustering of MHC-peptide complexes prior to their engagement in the immunological synapse: lipid raft and tetraspan microdomains. Immunol Rev 2002, 189:136-51.
93. McBride K, Baron C, Picard S, Martin S, Boismenu D, Bell A, Bergeron J, Perreault C: The model B6(dom1) minor histocompatibility antigen is encoded by a mouse homolog of the yeast STT3 gene. Immunogenetics 2002, 54:562-9. Epub 2002 Oct 2
94. Waterham HR, Koster J, Romeijn GJ, Hennekam RC, Vreken P, Andersson HC, Fitzpatrick DR, Kelley RI, Wanders RJ: Mutations in the 3beta-hydroxysterol Delta24-reductase gene cause desmosterolosis, an autosomal recessive disorder of cholesterol biosynthesis. Am J Hum Genet 2001, 69:685-94. Epub 2001 Aug 22
95. Stremmel W, Pohl L, Ring A, Herrmann T: A new concept of cellular uptake and intracellular trafficking of long-chain fatty acids. Lipids 2001, 36:981-9.
96. Hemmaplardh D, Morgan RG, Morgan EH: Role of plasma membrane phospholipids in the uptake and release of transferrin and its iron by reticulocytes. J Membr Biol 1977, 33:195-212.
97. Collins CS, Kalish JE, Morrell JC, McCaffery JM, Gould SJ: The peroxisome biogenesis factors pex4p, pex22p, pex1p, and pex6p act in the terminal steps of peroxisomal matrix protein import. Mol Cell Biol 2000, 20:7516-26.
98. Yue Z, Jin S, Yang C, Levine AJ, Heintz N: Beclin 1, an autophagy gene essential for early embryonic development, is a haploinsufficient tumor suppressor. Proc Nod Acad Sd U S A 2003, 100:15077-82. Epub 2003 Dec 1
99. Yu L, Alva A, Su H, Dutt P, Freundt E, Welsh S, Baehrecke EH, Lenardo MJ: Regulation of an ATG7-beclin 1 program of autophagic cell death by caspase-8. Science 2004, 304:1500-2. Epub 2004 May 6
100. Lee CK, Smith E, Gimeno R, Gertner R, Levy DE. STATI affects lymphocyte survival and proliferation partially independent of its role downstream of IFN-gamma. J Immunol 2000, 164:1286-92.
101. Kang SJ, Wang S, Kuida K, Yuan J: Distinct downstream pathways of caspase-II in regulating apoptosis and cytokine maturation during septic shock response. Cell Death Differ 2002, 9:1115-25.
102. Schauvliege R, Vanrobaeys J, Schotte P, Beyaert R. Caspase-II gene expression in response to lipopolysaccharide and interferongamma requires nuclear factor-kappa B and signal transducer and activator of transcription (STAT) I. J Biol Chem 2002, 277:41624-30. Epub 2002 Aug 26
103. Prasad KV, Ao Z, Yoon Y, Wu MX, Rizk M, Jacquot S, Schlossman SF: CD27, a member of the tumor necrosis factor receptor family, induces apoptosis and binds to Siva, a proapoptotic protein. Proc Natl Acad Sci U S A 1997, 94:6346-51.
104. Fortin A, MacLaurin JG, Arbour N, Cregan SP, Kushwaha N, Callaghan SM, Park DS, Albert PR, Slack RS: The proapoptotic gene SIVA is a direct transcriptional target for the tumor suppressors p53 and E2F1. J Biol Chem 2004, 279:28706-14. Epub 2004 Apr 22
105. Bliskovski V, Liddell R, Ramsay ES, Miller MJ, Mock BA: Structure and localization of mouse Pmsc11 and Pmsc12 genes. Genomics 2000, 64:106-10.
106. Muro Y, Yamada T, Himeno M, Sugimoto K: cDNA cloning of a novel autoantigen targeted by a minor subset of anti-centromere antibodies. Clin Exp Immunol 1998, 111:372-6.