MHC sequencing project

Slides:



Advertisements
Similar presentations
Chapter 9 Major Histocompatibility Complex (MHC)
Advertisements

Antigen Presentation K.J. Goodrum Department of Biomedical Sciences Ohio University 2005.
The Effect of Mating with Neanderthals and Denisovans on our Immune system Group A10 Gerald Duncan, Olivia Lahay, Madeline Lionberger, Kyle Sledge, Heather.
The MHC complex: genetics, function and disease association
Principles of Immunology Major Histocompatibility Complex 2/28/06 “Change is not merely necessary for life. It is life.” A Toffler.
Introduction to Immunology
Characterisation of the KIR genes in HLA homozygous cell lines Christian Garcia Anthony Nolan Research Institute Royal Free Hospital School of Medicine.
MHC and its functions Review: Class I/peptide TCR/CD8 cytotoxic function Class II/peptide TCR/CD4 Helper function TH1 Macrophages TH2 B cells Strong selective.
The Major Histocompatibility Complex And Antigen Presentation
Antigen recognition by T cells Zheng W. Chen, M.D., Ph.D.
Major Histocompatibility Complex Molecules
VACCINOMICS: CURRENT FINDINGS, CHALLENGES AND NOVEL APPROACHES FOR VACCINE DEVELOPMENT Megan Brown Dr. Inna G. Ovsyannikova and Dr. Gregory A. Poland.
Institute of Immunology, ZJU
11 22 33  m 11 22 33 11 22 11 22 Classical MHC I human MICA, B ULBP-human RAE-1- like human NKG2D-ligands mouse NKG2D-ligands RAE-1,
MHC and AG Presentation1 MHC and Antigen Presentation Chapters 6 & 7 Self-Test Questions: Chap 6 A: 1 – 5, 8 Note: for A-5 know MHC I - III B – D: all.
Ad5 expressing Gag, Pol and Nef Immune responses in control of HIV replication non-human primates // SIV extrapolated to humans // HIV Prospects for.
Statistical physics of T cell receptor selection and function Thesis committee meeting, 04/15/2009 Andrej Košmrlj Physics Department Massachusetts Institute.
Fe A. Bartolome, MD, FPASMAP Department of Microbiology Our Lady of Fatima University.
Genetic Association Study Principles: Andrew C. Heath.
ProteinStart position HLAEpitopePositive responses (n) Env209A*0101SFEPIPSHY1 Env310A*0101/Cw*0401GPGPGRAFY1 Gag406A*0302RAPRKKGC WK 1 Nef9A*0101/A*0302SVVGWPAVR1.
NK cells are part of the innate immune response
Figure S1: Seventeen MHC alleles in lake whitefish including nucleotide and amino acid sequences. Putative peptide binding region (PBR) sites are indicated.
Eric S. Huseby et al, Cell (2005); Nature Immunol. (2007), compared the T cells of normal mice, with mice genetically engineered to present only one type.
Specific Defenses of the Host Part 2 (acquired or adaptive immunity)
MHC March 24, :00-12:00.
Paul J. Norman, Jill A. Hollenbach, Neda Nemat-Gorgani, Wesley M
Chapter 7. 주조직적합성 복합체 1. 주조직적합성 복합체 (MHC)의 발견 2. MHC 분자의 구조
T Cell Receptor (TCR) & MHC Complexes-Antigen Presentation
Vojvodić S, Ademović-Sazdanić D.
The Major Histocompatibility Complex (MHC)
Major Histocompatibility complex OR
Figure 1 CTLA-4 and PD-1–PD-L1 immune checkpoints
and CHAPTER 6 Major Histocompatibility Complex (MHC) Molecules
Major Histocompatibility complex OR
Overview of next-generation sequencing, neoantigen prediction, and functional T-cell analyses. Overview of next-generation sequencing, neoantigen prediction,
TCR-MHC-peptide(s): in vivo veritas
Volume 7, Issue 6, Pages (December 1997)
Diversity of Individuals and Evolution of Populations
Royal Liverpool University Hospital & University of Liverpool
بيولوژي لنفوسيتهايT لنفوسيتهاي T نقش اساسي و محوري در پاسخ به آنتي ژنهاي پروتئيني دارند و به دليل وجود پروتئين در اكثر ارگانيسم هاي عفونت زا سلولهاي.
Expansion of NKG2A−LIR1− Natural Killer Cells in HLA-Matched, Killer Cell Immunoglobulin-Like Receptors/HLA-Ligand Mismatched Patients following Hematopoietic.
Engineering regulatory T cells against factor VIII inhibitors
Ligand Docking to MHC Class I Molecules
Characterization of Siglec-5, a Novel Glycoprotein Expressed on Myeloid Cells Related to CD33 by Ann L. Cornish, Sylvie Freeman, Gareth Forbes, Jian Ni,
Richard G. Phelps, Andrew J. Rees  Kidney International 
Cytomegalovirus-specific T cells are primed early after cord blood transplant but fail to control virus in vivo by Suzanne M. McGoldrick, Marie E. Bleakley,
The major histocompatibility complex (MHC) and MHC molecules
Relationship between Genotype and Phenotype
The Major Histocompatibility Complex (MHC)
Genotyping HLA and KIR from NGS data
Gene Discovery for Complex Traits: Lessons from Africa
Regions of sequence homology across dominant clones in TLR7tg animals.
Expansion of NKG2A−LIR1− Natural Killer Cells in HLA-Matched, Killer Cell Immunoglobulin-Like Receptors/HLA-Ligand Mismatched Patients following Hematopoietic.
Maternal allo-recognition of the fetus
KIR2DS2 recognizes the HCV peptide LNP.
E. Wang, Y. -C. Ding, P. Flodman, J. R. Kidd, K. K. Kidd, D. L
Volume 15, Issue 6, Pages (December 2001)
HIV and HLA Class I: An Evolving Relationship
Volume 7, Issue 6, Pages (December 1997)
by Rupert Handgretinger, Peter Lang, and Maya C. André
Detection of neoantigen-specific T cell recognition in cancer.
Volume 12, Issue 6, Pages (June 2000)
Result of coincubation assays with peptide-loaded target cells, Jurkat effector cells, and bs-868Z11-CD3 at six different concentrations. Result of coincubation.
Frequency and kinetics of killer cell apoptosis are dependent on functional conjugations with multiple NALM-6 tumor cells. Frequency and kinetics of killer.
Overview of DS-A*02:01 production and usage for affinity measurements.
Selectivity-determining regions
ADNs are largely distinct from CDNs
Inactivation of human TRAC and CD52 genes by TALENs
Volume 15, Issue 6, Pages (December 2001)
Cumulative incidences of MR4
Presentation transcript:

MHC sequencing project GenBank submission A. 800 CDS accessions for alleles of non-IPD curated genes (GenBank) B. 190 gene sequence alleles of IPD non-classical genes (GenBank) Update to (A) to full gene sequences (GenBank) and alignments (GitHub)

MHC sequencing project

MHC sequencing project

MHC sequencing project 330 visits; referring sites

KIR Polymorphism Workshop

Dynamic interactions of KIR and HLA class I underlie significant pressure to evolve Paul J. Norman Parham Lab Stanford

KIR and HLA have co-evolved to diversify their interaction Computer modeling Phylogenetics Cross-species comparison Population Genetics HLA KIR Binding site Norman et al. 2013 PloS Genetics

Multiple binders/functions of HLA KIR LILR TCR + peptide (HLA-E) Computer modeling Phylogenetics Cross-species comparison Population Genetics HLA-C

But KIR only have one job.. (e.g.) 2DL1*022 evolved in response to high C2 frequency Hilton et al. 2015 PLoS Genetics; 11:1005439.

High-resolution KIR and HLA class I Genotypes KIR Polymorphism Workshop High-resolution KIR and HLA class I Genotypes

KIR Polymorphism Workshop KhoeSan Pygmy Hadza West African Africa Modern humans Out of Africa

KIR Polymorphism Workshop Bari et al. 2009 Blood Hilton et al. 2015 J. Immunol

KIR Polymorphism Workshop

KIR Polymorphism Workshop

KIR Polymorphism Workshop

Han HLA Class I haplotypes All of top 10 encode at least 2 KIR ligands

Except East Asian and South American

(has novel amino acids at two positively-selected residues) An unusual KIR allele shared by Māori, Papua New Guineans and Indigenous Australians (has novel amino acids at two positively-selected residues) Residue 166 Residue 20 2DL4 3DL1 2DS4 3DL2 *028 *086 *001 *002 Maori/PPNG Haplotype *001loh *002loh *00104 *00501 Australian Haplotypes Nemat-Gorgani et al. 2014 Immunogenetics Loh et al. in prep

KIR3DL1; F166 and Q20 enhance recognition of target HLA 3DL1 _L166 3DL1_F166 3DL1_F166_Q20 (*086) Relative activity Effector: Jurkat cells with KIR3DL1+CD3ζ Target: HLA transfected [Philippa Saunders]

KIR Polymorphism Workshop