crohn {gap}R Documentation

Crohn's disease data

Description

The data set consist of 103 common (>5% minor allele frequency) SNPs genotyped in 129 trios from an European-derived population. These SNPs are in a 500-kb region on human chromosome 5q31 implicated as containing a genetic risk factor for Crohn disease.

The positions, names and haplotype blocks reported are as follows,

274044   IGR1118a_1     BLOCK 1
274541   IGR1119a_1     *
286593   IGR1143a_1     *
287261   IGR1144a_1     *
299755   IGR1169a_2     *
324341   IGR1218a_2     *
324379   IGR1219a_2     *
358048   IGR1286a_1     BLOCK 1
366811   TSC0101718
395079   IGR1373a_1     BLOCK 2
396353   IGR1371a_1     *
397334   IGR1369a_2     *
397381   IGR1369a_1     *
398352   IGR1367a_1     BLOCK 2
411823   IGR2008a_2
411873   IGR2008a_1     BLOCK 3
412456   IGR2010a_3     *
413233   IGR2011b_1     *
415579   IGR2016a_1     *
417617   IGR2020a_15    *
419845   IGR2025a_2     *
424283   IGR2033a_1     *
425376   IGR2036a_2     *
425549   IGR2036a_1     BLOCK 3
433467   IGR2052a_1     BLOCK 4
435282   IGR2055a_1     *
437682   IGR2060a_1     *
438883   IGR2063b_1     *
443565   IGR2072a_2     *
443750   IGR2073a_1     *
445337   IGR2076a_1     *
447791   IGR2081a_1     *
449895   IGR2085a_2     *
455246   IGR2096a_1     *
463136   IGR2111a_3     BLOCK 4
482171   IGR2150a_1     BLOCK 5
485828   IGR2157a_1     *
495082   IGR2175a_2     *
506266   IGR2198a_1     *
506890   IGR2199a_1     BLOCK 5
507208   IGR2200a_1     BLOCK 6
508338   IGR2202a_1     *
508858   IGR2203a_1     *
510951   IGR2207a_1     *
518478   IGR2222a_2     BLOCK 6
519387   IGR2224a_2     BLOCK 7
519962   IGR2225a_1     *
520521   IGR2226a_3     *
522600   IGR2230a_1     *
525243   IGR2236a_1     *       
529556   IGR2244a_4     *
532363   IGR2250a_4     *
545062   IGR2276a_1     *
553189   IGR2292a_1     *
570978   IGR3005a_1     *
571022   IGR3005a_2     *
576586   IGR3016a_1     *
577141   IGR3018a_2     *
577838   IGR3019a_2     *
578122   IGR3020a_1     *
579217   IGR3022a_1     *
579529   IGR3023a_1     *
579818   IGR3023a_3     *
582651   IGR3029a_1     *
582948   IGR3029a_2     *
583131   IGR3030a_1     *
587836   IGR3039a_1     *
590425   IGR3044a_1     *
590585   IGR3045a_1     *
594115   IGR3051a_1     *
594812   IGR3053a_1     *
598805   IGR3061a_1     *
601294   IGR3066a_1     *
608759   IGR3081a_1     *
610447   IGR3084a_1     *
611177   IGR3086a_1     BLOCK 7
613488   IGR3090a_1
616241   IGR3096a_1     BLOCK 8
616763   IGR3097a_1     *
617299   IGR3098a_1     *
626881   IGR3117a_1     *
633786   IGR3131a_1     *
635072   IGR3134a_1     *
637441   IGR3138a_1     BLOCK 8
648564   IGR3161a_1
649061   IGR3162a_1     BLOCK 9
649903   IGR3163a_1     *
657234   IGR3178a_1     *
662077   IGR3188a_1     *
662819   IGR3189a_2     *
676688   IGRX100a_1     BLOCK 9
683387   IGR3230a_1     BLOCK 10
686249   IGR3236a_1     *
692320   IGR3248a_1     *
718291   IGR3300a_2     *
730313   IGR3324a_1     *
731025   IGR3326a_1     *
738461   IGR3340a_1     BLOCK 10
871978   GENS021ex1_2   BLOCK 11
877571   GENS020ex3_3   *
877671   GENS020ex3_2   *
877809   GENS020ex3_1   *
890710   GENS020ex1_1   BLOCK 11

However it has been updated after the paper was published (posted on http://www.broad.mit.edu/humgen/IBD5/haplodata.html)

Usage

data(crohn)

Format

A data frame containing 387 rows and 212 columns

Source

MJ Daly, JD Rioux, SF Schaffner, TJ Hudson, ES Lander (2001) High-resolution haplotype structure in the human genome Nature Genetics 29:229-232


[Package gap version 1.0-17 Index]