Abstract：
:Cleavage by the proteasome is responsible for generating the C terminus of T-cell epitopes. Modeling the process of proteasome cleavage as part of a multi-step algorithm for T-cell epitope prediction will reduce the number of non-binders and increase the overall accuracy of the predictive algorithm. Quantitative matrix-based models for prediction of the proteasome cleavage sites in a protein were developed using a training set of 489 naturally processed T-cell epitopes (nonamer peptides) associated with HLA-A and HLA-B molecules. The models were validated using an external test set of 227 T-cell epitopes. The performance of the models was good, identifying 76% of the C-termini correctly. The best model of proteasome cleavage was incorporated as the first step in a three-step algorithm for T-cell epitope prediction, where subsequent steps predicted TAP affinity and MHC binding using previously derived models.
journal_name
Mol Immunoljournal_title
Molecular immunologyauthors
Doytchinova IA,Flower DRdoi
10.1016/j.molimm.2005.12.013subject
Has Abstractpub_date
2006-05-01 00:00:00pages
2037-44issue
13eissn
0161-5890issn
1872-9142pii
S0161-5890(06)00011-3journal_volume
43pub_type
杂志文章abstract：:Mycobacterium leprae, the causative agent of leprosy, challenges host defense mechanism by impairing the signal transduction of T cells which leads to downregulation of T cell proliferation, mainly as a consequence of interference with IL-2 production. In this study we sought to identify how soluble forms of M. leprae...
journal_title：Molecular immunology
pub_type： 临床试验,杂志文章
doi：10.1016/j.molimm.2006.09.008
更新日期：2007-03-01 00:00:00
abstract：:V(D)J recombination is a mechanism peculiar to the somatic rearrangement of antigen receptor genes. It requires both expression of the RAG-1 and RAG-2 recombinases and accessibility of the substrate to its recombinase and post-cleavage/DNA repair stage. TCR revision is a genetic correction mechanism that changes T cel...
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/j.molimm.2007.06.153
更新日期：2008-01-01 00:00:00
abstract：:Recent studies demonstrate that tissue microenvironments may regulate development and functions of immune cells including dendritic cells, monocytes and T cells. However, there is no report about functional regulation of innate NK cells by tissue microenvironment. The liver is an organ abundant in NK cells and suscept...
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/j.molimm.2008.01.035
更新日期：2008-05-01 00:00:00
abstract：:Evidence suggests that immune dysregulation is associated with autism spectrum disorder (ASD). T cell immunoglobulin and mucin domain-3 (TIM-3) has a critical role in several inflammatory disorders; however, the role of TIM-3 signaling has not been demonstrated in ASD. In the present study, we assessed the role of TIM...
journal_title：Molecular immunology
pub_type： 临床试验,杂志文章
doi：10.1016/j.molimm.2018.12.020
更新日期：2019-02-01 00:00:00
abstract：:Host-derived macrophage migration inhibitory factor (MIF) has been implicated in the pathogenesis of malaria infection, especially in malarial anemia. Although two Plasmodium parasite-derived MIF orthologs, Plasmodium falciparum MIF and P. berghei MIF were identified recently, the crystal structure and the precise rol...
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/j.molimm.2009.10.037
更新日期：2010-01-01 00:00:00
abstract：:Dendritic cells (DCs) are suspected to be involved in the development of atherogenesis, but their role is still unclear. The aim of this study was to characterize circulating DCs and monocyte-derived DCs (Mo-DCs) of obese and diabetic patients (T2D), and to study their interaction with human coronary smooth muscle cel...
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/j.molimm.2011.08.019
更新日期：2011-10-01 00:00:00
abstract：:Class switch DNA recombination (CSR) substitutes an immunoglobulin (Ig) constant heavy chain (C(H)) region with a different C(H) region, thereby endowing an antibody with different biological effector functions. CSR requires activation-induced cytidine deaminase (AID) and occurrence of double-strand DNA breaks (DSBs) ...
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/j.molimm.2008.07.003
更新日期：2008-11-01 00:00:00
abstract：:The development and progression of systemic lupus erythematosus (SLE) is strongly associated with complement activation and deposition. The anaphylatoxin C3a is a product of complement activation with immunomodulatory properties, and the receptor for C3a (C3aR) is not only expressed by granulocytes and antigen present...
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/j.molimm.2008.12.004
更新日期：2009-04-01 00:00:00
abstract：:Anaerobic reduction of purified rabbit IgG antibody (Ab) with 1.5 moles of dithiothreitol per mole of Ab at pH 8.0, followed by alkylation, cleaves 39% of the inter-heavy-chain (H-H) disulfide (SS) bonds. This treatment has the following effects on the ability of the Ab to activate the classical pathway of complement....
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/0161-5890(84)90092-0
更新日期：1984-01-01 00:00:00
abstract：:The immune system protects from infections primarily by detecting and eliminating invading pathogens. This is predominantly mediated by innate immune cells like neutrophils, monocytes and dendritic cells (DCs) expressing specific receptors recognizing pathogen-associated molecular patterns. DC activation by pathogens ...
journal_title：Molecular immunology
pub_type： 杂志文章,评审
doi：10.1016/j.molimm.2020.02.015
更新日期：2020-05-01 00:00:00
abstract：:We have examined the regulation of the AP-1 DNA transcription complex during T cell activation in response to interleukin 1 (IL-1) and phorbol ester (TPA) treatment of the IL-1 responsive murine thymoma T cell line, EL4 6.1 C 10. IL-1 synergistically enhances the stimulatory effect of TPA on AP-1-mediated gene express...
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/0161-5890(95)00055-j
更新日期：1995-08-01 00:00:00
abstract：:The recognition structure responsible for binding to conventional antigen on target cells has not previously been described for nonspecific cytotoxic cells (NCC) or for mammalian natural killer (NK) cells. Although several biochemical pathways may be available for initiation of the lytic cycle in NCC, evidence present...
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/s0161-5890(97)00086-2
更新日期：1997-08-01 00:00:00
abstract：:The high affinity receptor for IgE, which mediates allergic reactions, is found exclusively on mast cells, basophils and epidermal Langerhans cells. It is composed of an alpha, beta and two gamma-polypeptide chains, inserted as a complex into the plasma membrane. The alpha and beta-subunits are produced only by these ...
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/0161-5890(96)84614-1
更新日期：1996-07-01 00:00:00
abstract：:Antimicrobial peptides (AMPs) are important components of the host's innate immune response against microbial invasion. The cysteine-rich AMPs such as defensin and hepcidin have been extensively studied, but the recently identified cysteine-rich liver-expressed antimicrobial peptide 2 (LEAP-2) has been characterized f...
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/j.molimm.2005.02.014
更新日期：2006-02-01 00:00:00
abstract：:C3 glomerulopathy (C3G) is an ultra-rare complement-mediated renal disease characterized histologically by the predominance of C3 deposition within in the glomerulus. Familial cases of C3G are extremely uncommon and offer unique insight into the genetic drivers of complement dysregulation. In this report, we describe ...
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/j.molimm.2016.07.007
更新日期：2016-09-01 00:00:00
abstract：:The cancer immunosurveillance hypothesis has found strong experimental support in recent years. It is believed that cytotoxic lymphocytes are important effectors in this process. PKCtheta plays an essential role in proliferation, activation and survival of these cells, but also proliferation and survival of leukemic T...
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/j.molimm.2008.03.016
更新日期：2008-07-01 00:00:00
abstract：:Suppressor of cytokine signaling 3 (SOCS3) is a negative regulator of TBK1 and interferon pathway and the expression of SOCS3 is closely correlated with symptoms of influenza patients. However, whether deletion of Socs3 in the lung epithelial cells would affect influenza lung replication and inflammation in vivo is un...
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/j.molimm.2020.06.022
更新日期：2020-09-01 00:00:00
abstract：:Histocompatibility Leukocyte Antigens, or HLAs, are one of the most polymorphic molecules in humans. This high degree of polymorphism endows HLA molecules with the ability to present a vast array of peptides, an essential trait for responding to ever-evolving pathogens. Unlike classical HLA molecules (HLA-Ia), some no...
journal_title：Molecular immunology
pub_type： 杂志文章,评审
doi：10.1016/j.molimm.2020.02.011
更新日期：2020-04-01 00:00:00
abstract：:The sphingosine-1-phosphate analogue FTY720 is known to alter migration and homing of lymphocytes via sphingosine-1-phosphate receptors. However, several studies indicate that its mode of action is more complex and that FTY720 may also directly influence cytokine effector functions. Therefore, we studied the effect of...
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/j.molimm.2007.02.026
更新日期：2007-07-01 00:00:00
abstract：:The host response to intravascular, Gram-negative bacteria includes profound immunologic, hematologic and physiologic changes. Numerous host defense mechanisms are activated by Gram-negative bacteria, including the complement system. Activation of the complement system leads to cleavage of C5 with subsequent generatio...
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/j.molimm.2007.10.037
更新日期：2008-04-01 00:00:00
abstract：:Covalent Superose microspheres-bound C3b was used as a model system to simplify the analysis of antigen-bound C3b modifications during antigen processing. The model was set up using purified C3 and Superose-bound trypsin. C3b was covalently bound to Superose through an ester link, as indicated by lability to hydroxyla...
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/0161-5890(93)90009-z
更新日期：1993-07-01 00:00:00
abstract：:To date, although a promising anti-inflammatory activity of oligomeric proanthocyanidins (OPCs) has been observed in asthma, the mechanism responsible for these immunomodulatory properties remains obscure. Dendritic cells (DCs) that reside in the airway have been widely perceived as an important contributor to asthma....
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/j.molimm.2017.09.012
更新日期：2017-11-01 00:00:00
abstract：:A computerized method for predicting the locations of protein antigenic determinants is presented, which requires only the amino acid sequence of a protein, and no other information. This procedure has been used to predict the major antigenic determinant of the hepatitis B surface antigen, as well as antigenic sites o...
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/0161-5890(83)90029-9
更新日期：1983-04-01 00:00:00
abstract：:alpha 1-Microglobulin (alpha lm), a glycoprotein heterogeneous in charge, was reported to occur both as a 31-kilodalton (kd) monomer [low mol. wt alpha lm (LMW-alpha lm)] and as polymers or complexes formed with other plasma proteins including IgA [high mol. wt alpha lm (HMW-alpha lm)]. The present study was designed ...
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/0161-5890(85)90096-3
更新日期：1985-06-01 00:00:00
abstract：:We investigated the structure and expression of immunoglobulin genes in the pufferfish, Takifugu rubripes, a highly prized and economically important fish species. The cDNA fragment that partially encodes the constant region of the IgM heavy chain was isolated in these animals by RACE using degenerate primers after wh...
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/j.molimm.2004.06.034
更新日期：2005-01-01 00:00:00
abstract：:The goal of this study was to identify potential transcriptomic markers in developing asthma by an integrative analysis of multiple public microarray data sets. Using the R software and bioconductor packages, we performed a statistical analysis to identify differentially expressed (DE) genes in asthma, and further per...
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/j.molimm.2017.09.021
更新日期：2017-12-01 00:00:00
abstract：:Purified mRNA's encoding the HLA-A and -B antigen heavy chains or beta 2-microglobulin were prepared from human B lymphoid cells by positive hybridization selection procedures. The role of chain association in the biosynthesis and intracellular transport of HLA-A and -B antigens was investigated by injecting these mRN...
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/0161-5890(86)90115-x
更新日期：1986-05-01 00:00:00
abstract：:Calcium signals are crucial for diverse cellular functions including adhesion, differentiation, proliferation, effector functions and gene expression. After engagement of the B cell receptor, the intracellular calcium ion (Ca(2+)) concentration is increased promoting the activation of various signaling cascades. While...
journal_title：Molecular immunology
pub_type： 杂志文章,评审
doi：10.1016/j.molimm.2013.10.006
更新日期：2014-12-01 00:00:00
abstract：:The MHC class II transactivator (CIITA) acts in the cell nucleus as the master regulator of MHC class II (MHC II) gene expression. It is important to study CIITA regulation in multiple myeloma since MHC expression is central to ability of myeloma cells to present antigen and to the ability of the immune system to reco...
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/j.molimm.2007.01.009
更新日期：2007-04-01 00:00:00
abstract：:During T-cell regulation, T-cell receptors and CD28 lead to signaling activation, while T-lymphocyte antigen 4 (CTLA-4) is known to lead to downregulation, similar to programmed cell death-1 (PD-1). In the cytoplasmic tails of CD28 and CTLA-4, phosphoinositide 3-kinase (PI3K) binds to the consensus sequence including ...
journal_title：Molecular immunology
pub_type： 杂志文章
doi：10.1016/j.molimm.2020.12.002
更新日期：2020-12-29 00:00:00
