http://www.protocol-online.org/forums Sat, 04 Feb 2012 08:22:08 +0000 1000 http://www.protocol-online.org/forums/topic/24288-a-question-about-alleles-and-mutations/ The human ABO-O allele differs from ABO-A by deletion of one bp (G261) at amino acid 87 of the 354 amino acid protein. What would be the blood type of a person who inherited one normal ABO-O allele and one ABO-O allele in which a new mutation had deleted a second base at the same position?
a. A
b. B
c. AB
d. O
e. A novel blood type
Explain your answer in a few words.

My answer was d, that the person would have blood type O. ... because the person has 2 alleles, and the person inherited one ABO- O allele and one allele that has been mutated, the ABO-O allele would still be expressed even though a mutation has occurred in the other allele.

Can anyone explain what they think their answer may be? Thank you!!]]> Sat, 04 Feb 2012 08:22:08 +0000 http://www.protocol-online.org/forums/topic/24288-a-question-about-alleles-and-mutations/ http://www.protocol-online.org/forums/topic/24287-snv-and-snp/
Hi there,
I thought that SNP is a single nucleotide polymorphism - which happens among a population, whereas SNV is a single nucleotide variation among an individual. So SNP should contain more alleles... Can someone please verify the answer and if it's wrong, explain why?
Thank you!]]> Sat, 04 Feb 2012 08:16:39 +0000 http://www.protocol-online.org/forums/topic/24287-snv-and-snp/ http://www.protocol-online.org/forums/topic/24230-genome-mapping-of-helicase/
Is this possible to use DNA sequencing to find out the helicase gene? And then compare the sequenced gene with the gene bank.]]> Tue, 31 Jan 2012 14:26:59 +0000 http://www.protocol-online.org/forums/topic/24230-genome-mapping-of-helicase/ http://www.protocol-online.org/forums/topic/23962-genomic-workbench/ Hi, I would like to know if anyone has a protocol@guideline on how to analyse data of microarray results for aCGH. I used the Agilent Genomic Workbench to do the analyses, and I got a massive data which I do not know what it means.Thanks. Tue, 10 Jan 2012 04:38:46 +0000 http://www.protocol-online.org/forums/topic/23962-genomic-workbench/ http://www.protocol-online.org/forums/topic/23910-chromosomes/ Human have got 23 pairs of chromosomes, so does tht means, 23 chromosome frm father and 23 chromosomes frm mother? Wed, 04 Jan 2012 21:21:27 +0000 http://www.protocol-online.org/forums/topic/23910-chromosomes/ http://www.protocol-online.org/forums/topic/23767-mutation-in-both-the-genes-nullify-the-defects/
Is there any known phenomena where knocking out two genes can nullify the effect of single knock outs of both the genes? What I mean here is that we have two different knock out strains, both show defects but when you knock out both the genes the strain overcome the defect and behaves like wild type strain . I searched about this and came across to only epistasis, however in epistasis the defects in double mutant should be similar to epistatic gene. and that is not true in my case. Is anyone aware of this phenomena in any system, or am I missing some basic understanding about genetics?....please help]]> Wed, 14 Dec 2011 10:31:19 +0000 http://www.protocol-online.org/forums/topic/23767-mutation-in-both-the-genes-nullify-the-defects/ http://www.protocol-online.org/forums/topic/23446-how-to-find-gene-sequences-online-need-both-exons-and-introns/
I have tried NCBI, but didn't find introns.

Would you please recommend more websites for searching gene sequences?

Thanks very much!
Look forward for your reply!]]> Wed, 16 Nov 2011 20:33:48 +0000 http://www.protocol-online.org/forums/topic/23446-how-to-find-gene-sequences-online-need-both-exons-and-introns/ http://www.protocol-online.org/forums/topic/23177-help-needed-for-study-plan-design/ Hi, I am a beginner of gene study, and hope to get some suggestions of the study design.

I want to test the function of a group of proteins on a disease (to compare if they are the same between healthy people and patients). The proteins are coded by 5 genes, each gene has 2-4 allels.

I want to test:
1. the prevalence of the different allels of the 5 gene loci in healthy people (~50) and patients (~50)
2. mutation of these genes in patients

I wonder what methods should I use for the two purposes? Is there a standard way? And as there are 5 genes (each gene has several exons), is there a quick method?

Look forward to your suggestions. Thanks very much!]]> Fri, 21 Oct 2011 15:52:05 +0000 http://www.protocol-online.org/forums/topic/23177-help-needed-for-study-plan-design/ http://www.protocol-online.org/forums/topic/23028-meta-analysis-result-interpretation/
I am working on meta analysis of a polymorphism with respect to disease X.

Lets say the wildtype is 'a' and the variant is 'A'. I have used a number of genetic models like recessive, dominant, allele contrast and homozygous models.

The results i get are as follows: a significant association seen for recessive genetic model but not for any other model.

My query here is:

i) Is my interpreatation of results correct:
the homozygous variant genotype (AA) has a higher risk of disease as compared to the the heterozygous and homozygous wildtype genotypes (Aa+aa)

ii) homozygous model (AA vs aa) shows no positive results. so are my results for recessive model of any significance.

Any sort of help and suggestions are welcome.

Thanks in advance,
Jasmine]]> Sat, 08 Oct 2011 13:28:39 +0000 http://www.protocol-online.org/forums/topic/23028-meta-analysis-result-interpretation/ http://www.protocol-online.org/forums/topic/21829-ncbi-vs-ensembl-vs-ucsc-stats/
I am currently writing up my thesis and madly thought it would be sensible to compare gene annotations for NCBI build 37/hg19.

This turned out to be a complete nightmare.

Whilst I easily found the number of VEGA protein coding genes, there seems to be no way of finding out how many RefSeq protein coding genes there are.

Even worse with UCSC - the UCSC genes release seems to neither have a date nor a build number, grrr. No idea how many genes there are...


Am I missing something here or are is this kind of information really not available?!?

Cheers ]]> Fri, 24 Jun 2011 09:40:31 +0000 http://www.protocol-online.org/forums/topic/21829-ncbi-vs-ensembl-vs-ucsc-stats/