Innate Immunity in Heart, Lung and Blood Disease
Programs for Genomic Applications
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Related documents:
- Phase output blocks
- See corresponding data for another gene
| Haplotype counts inferred by Phase*. |
| Gene = LBP, Minimum allele freq. in ANY population= 0.000, 5 SNP, 1114 Subjects |
| Note that the haplotypes shown below comprise alleles at |
| the following SNP locations in the order show. The first column |
| is the allele position in the haplotype. The SNP column is the |
| SNP position in the reference sequence (1=first base). The RelativeOffset column |
| is the SNP offset relative to the Gene transcription start codon. |
| # | SNP | RelativeOffset |
| 1 | 1605 | -921 |
| 2 | 17119 | 14349 |
| 3 | 20294 | 17471 |
| 4 | 23297 | 20420 |
| 5 | 25627 | 22712 |
| Haplotype Frequency Sort Order | |||||||
| Haplotype | All | Controls | Cases | ||||
| ACGCT | 904 | 40.6% | 483 | 40.6% | 421 | 40.6% | |
| ATATC | 699 | 31.4% | 367 | 30.8% | 332 | 32.0% | |
| TCATC | 147 | 6.6% | 90 | 7.6% | 57 | 5.5% | |
| ACATC | 146 | 6.6% | 75 | 6.3% | 71 | 6.8% | |
| ACGCC | 76 | 3.4% | 33 | 2.8% | 43 | 4.1% | |
| TTATC | 70 | 3.1% | 35 | 2.9% | 35 | 3.4% | |
| ATGCT | 26 | 1.2% | 14 | 1.2% | 12 | 1.2% | |
| ATATT | 26 | 1.2% | 10 | 0.8% | 16 | 1.5% | |
| TCGCT | 24 | 1.1% | 16 | 1.3% | 08 | 0.8% | |
| ACACT | 24 | 1.1% | 12 | 1.0% | 12 | 1.2% | |
| ACGTC | 23 | 1.0% | 11 | 0.9% | 12 | 1.2% | |
| ACATT | 17 | 0.8% | 14 | 1.2% | 03 | 0.3% | |
| ACACC | 14 | 0.6% | 10 | 0.8% | 04 | 0.4% | |
| TCATT | 13 | 0.6% | 06 | 0.5% | 07 | 0.7% | |
| TCGCC | 10 | 0.4% | 08 | 0.7% | 02 | 0.2% | |
| ATGTC | 03 | 0.1% | 03 | 0.3% | 00 | 0.0% | |
| ATACT | 03 | 0.1% | 03 | 0.3% | 00 | 0.0% | |
| TTGTC | 02 | 0.1% | 00 | 0.0% | 02 | 0.2% | |
| TCACT | 01 | 0.0% | 00 | 0.0% | 01 | 0.1% | |
| Totals | 2228 | 1190 | 1038 | ||||
| Haplotype Alphabetic Sort Order | |||||||
| ACACC | 14 | 0.6% | 10 | 0.8% | 04 | 0.4% | |
| ACACT | 24 | 1.1% | 12 | 1.0% | 12 | 1.2% | |
| ACATC | 146 | 6.6% | 75 | 6.3% | 71 | 6.8% | |
| ACATT | 17 | 0.8% | 14 | 1.2% | 03 | 0.3% | |
| ACGCC | 76 | 3.4% | 33 | 2.8% | 43 | 4.1% | |
| ACGCT | 904 | 40.6% | 483 | 40.6% | 421 | 40.6% | |
| ACGTC | 23 | 1.0% | 11 | 0.9% | 12 | 1.2% | |
| ATACT | 03 | 0.1% | 03 | 0.3% | 00 | 0.0% | |
| ATATC | 699 | 31.4% | 367 | 30.8% | 332 | 32.0% | |
| ATATT | 26 | 1.2% | 10 | 0.8% | 16 | 1.5% | |
| ATGCT | 26 | 1.2% | 14 | 1.2% | 12 | 1.2% | |
| ATGTC | 03 | 0.1% | 03 | 0.3% | 00 | 0.0% | |
| TCACT | 01 | 0.0% | 00 | 0.0% | 01 | 0.1% | |
| TCATC | 147 | 6.6% | 90 | 7.6% | 57 | 5.5% | |
| TCATT | 13 | 0.6% | 06 | 0.5% | 07 | 0.7% | |
| TCGCC | 10 | 0.4% | 08 | 0.7% | 02 | 0.2% | |
| TCGCT | 24 | 1.1% | 16 | 1.3% | 08 | 0.8% | |
| TTATC | 70 | 3.1% | 35 | 2.9% | 35 | 3.4% | |
| TTGTC | 02 | 0.1% | 00 | 0.0% | 02 | 0.2% | |
| Totals | 2228 | 1190 | 1038 | ||||
Minimal SNP (shown in red italics) needed to unambiguously distinguish haplotypes seen more than once, by population group
Please note that this an experimental resource which is still under test.Please email Ross Lazarus if you have comments or find any errors or anomalies
Group=Cases (blocklist=[[1, 6]], snplist=[[1, 2, 3, 4, 5]])
Haplotype heterozygosity: Observed = 0.7218751, Expected = 0.9598219
Effective # Haplotypes = 3.596, Minimum #SNP to distinguish haplotypes seen more than once: 5
| -921: | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | A | T | T | T | T | T | T | T | T | T | T | T | T | T | T | T | A | A | A | A | A | A | A | T | T | T | T | T |
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