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Questions tagged [gene]

The basic unit of heredity which encodes for some function RNA or protein product.

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What does ubiquitination between 2 genes mean?

I have come across the Hedgehog signaling pathway. In this pathway, the genes Cul3 and ptc have an interaction of ubiquitination (The information is available from the KGML file). What does this ...
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1answer
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Gene frequency — database/site

Is there any free database when one can check the gene frequency in a healthy population? For example I would like to check it for genes like BIN1, CLU or CR1. On the English Wikipedia I found a gene ...
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Can Tajima's D and other population genetic tools be used to copare Arabidopsis ecotypes?

I am currently investigating 2 genes in Arabidopsis taliana that are a product of a recent duplication even (observable from synteny and phylogenetic analysis). In addition to the molecular and ...
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Transcription of Multiple RNAs on One Section of DNA in Eukaryotes

When RNA Polymerase moves along the template strand it bind to the promoter and moves along in a 3'-5' fashion on the template strand. Can RNA Polymerase also move along the coding strand of this ...
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Are modern gene-editing techniques capable of creating genetically-superior versions of humans? [closed]

Can we alter the DNA in, say, a small-framed, low muscle mass male to those of elite bodybuilders? Can we alter the DNA sequence that stops balding and hair loss? How about the genes responsible for ...
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Question: What is CINWntUp and CINnormL?

What is CINWntUp and CINnormL? I read a paper that uses this two things as classes but Im not sure what they represent. I imply that CIN is referring to Chromosomal instability but I don't know what ...
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1answer
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Are androgenic-anabolic steroids a form of gene editing?

Is taking AAS a form of gene-editing? Steroids alter genes in some way since they allow people to build more muscle than what's naturally possible -- so they sort of "break" natural genetics somehow. ...
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23 views

Gene expression: which allele is considered?

For human beings, we have two copies of each gene inherited from the parents. The question is, when referring to gene expression, which copy (or allele) is considered?
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RET Gene mutations and HSCR

I'm writing an essay about RET oncogene and it's affects on Hirschprung's disease. I have found out that RET gene and it's receptor plays major role in developement of neural cells (that are missing ...
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1answer
42 views

Confusion about a gene's description

I have a very basic biology question. I am reading the description of gene FAM166A here, and I have no idea what "sequence similarity 166" means. What does 166 stand for, what is this gene's sequence "...
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1answer
55 views

How do you define a gene list?

So I wrote in a chapter that I will be checking for publications with gene lists in them. I got a comment asking "How would you define a gene list and what criteria did I use". I know that gene lists ...
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Functional Difference between the Distal Promoter and Enhancer Region

According to the Wikipedia article on eukaryotic promoter regions, the distal promoter is: Anything further upstream (but not an enhancer or other regulatory region whose influence is positional/...
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Query regarding KEGG KGML pathway files

With respect to the the Wnt pathway in KEGG, the KGML file of this pathway has description of each interaction between a pair of genes. These interactions are designated in the form: ...
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How many species have had their expression of Polyphenoloxidase reduced?

Polyphenol oxidase causes fruit to turn brown when cut. This is an undesirable trait therefore at least potatoes and artic apples have been genetically modified to reduce this browning. How many ...
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45 views

How to do a blast search for similar sequences?

Tried doing a Blast search for a PPO gene in an advocado genome: https://www.ncbi.nlm.nih.gov/blast/Blast.cgi?PAGE_TYPE=BlastSearch&PROG_DEFAULTS=on&BLAST_SPEC=OGP__3435__73885&DATABASE=...
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1answer
54 views

How to find a gene sequence?

So I need to learn how to find the sequence of a gene, polyphenoloxidase. Please do not do this for me. Tell me how to approach the problem. I have found : https://www.ncbi.nlm.nih.gov/gene and ...
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Difference between TRN and GRN

I am little bit confused about what is the difference between Transcriptional Regulatory Networks (TRNs) vs Gene Regulatory Networks (GRNs). As far as know, both involve interactions of transcription ...
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449 views

Genes and Intelligence

Assuming that intelligence has a genetic component, • do we know which genes contribute to it? and, if so, • can we predict intelligence from genomic analysis?
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how many copies of tp53 (p53) gene do we have?

I just started studying biology so I almost have no knowledge. I learned about the tp53 gene and I just wanted to know how many copies of tp53 gene we have?
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Which gene regulatory network is the largest in human?

What is the maximum number of nodes involved in any gene regulatory network and which network is it, provided its from human?
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2answers
56 views

Can gene-gene interactions result in gene expression?

I am building a project on Inferring Gene Regulatory Networks using ARACNE and PCA-CMI algorithms, and the input to these algorithms is taken from the DREAM3 challenge. The format of the input data ...
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1answer
60 views

What is linkage?

If two genes are on the same chromosome, are they always “linked”? What if they are more than 50 cM apart? Then they would follow Mendalian pattern of inheritence. So are they still linked?
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Do chromosomes change with time?

An offspring is 23 chromosomes of mother and 23 of father, if one of the mate learns say music after the birth of their first child— will their second offspring have better music skills than former? ...
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chiasmata and crossing over

are the alleles involved in crossing over random, or are the same alleles always involved if crossing over occurred? Another way to look at it is are the locations of the chiasmata random or do they ...
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How should I interpret for example AA result, when SNPedia only has CC/CT/TT listed? [closed]

I don't know how to properly formulate this question because I'm new to this, so please edit this if you can... For example when I would check SNPedia for rs gene, it would have listed CC/CT/TT genes,...
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2answers
45 views

Isolating gene of interest from a large strand of DNA [closed]

I was always confused about this in class and never learned it fully. So say you have 10,000 bp of DNA and you just want to isolate 100bp of specific region(gene of interest) using restriction enzyme. ...
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1answer
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Genetic modifications in humans to prevent disease [closed]

I was reading an article about "designer babies", which was about how before birth the DNA can be modified so to achieve certain features. Can a technique such as this also be used to prevent diseases,...
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3answers
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Is there any way to tell if a gene is functional for an individual with only a reference sequence and the individual's sequence of the gene?

I have gene sequence of a ton of individuals within a subspecies from cdna and the ncbi IDed sequence as well. Is there any way to tell using just the sequence that the gene for an individual is non-...
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64 views

Are mutations the cause of alleles?

For example, some leopards have a mutation which causes black fur. So Black fur and normal fur colour (orange-white) are both alternate forms of the same gene, right? So does that mean that mutations ...
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Coding potential map, what are the number of possible different starts

Looking at coding potential map, what are the number of possible different starts for the gene identified by the computer algorithm?
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1answer
68 views

Can a gene be inactivated using CRISPR if it is not in the interspace of short palindromic repeats?

I have recently studied how CRISPR works but there is something that I do not understand at all. I have heard a lot of people claiming that with this method it is possible to modify any genome by ...
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1answer
39 views

Reason for name “Motile sperm domain-containing protein 2” if it has nothing to do with sperm

I am interested in a gene with the name "motile sperm domain-containing protein 2". The entry for the human gene in uniprot suggests that it does not have any relation to sperm or spermatogenesis. ...
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1answer
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What percent am I?

*If my Great Great Great Great Grandma was one hundred percent Hispanic what percent am I? I'm unsure of what percentage in this ethnicity I would be.
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Why are tumor suppressor genes recessive?

In my Intro. to Biochemistry course, we have been studying cancer. The professor has pointed out that tumor suppressor genes are "recessive" while proto-oncogenes are "dominant". Since only one ...
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GlimmerHMM giving “segmentation fault” error during gene prediction

I am trying to do gene prediction using GlimmerHMM. Training model was successfully completed but during prediction its giving "segmentation fault". ...
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Number of alleles' variations in a mushroom that has over 20,000 sexes

I am trying to understand the mating behavior of a particular species of fungi known as Schizophyllum commune, or the split-gill. I found a blog post that explains the mechanisms that define the ...
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PCR gene cloning

I've been set some homework and I have no idea where I would start. Any help would be appreciated. Thanks Which version of primer 1 should be used to allow the maf gene to be cloned into the pQE-30Xa ...
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1answer
88 views

most different human tissues with respect to gene expression profiling

Is there a PCA showing the relative distance in terms of gene expression / functional genomics among the different human tissue types? So far I have found: (1) A paper based on gene expression with ...
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1answer
59 views

Name of human language related gene

I'd like to know the name of a gene with the following description of effects: Humans having two copies of this gene with a certain mutation aren't able to acquire human language, but otherwise their ...
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1answer
54 views

Why HIV need integrase enzyme to integrate their DNA into host cell?

In gene transfer by microinjection, the gene of interest is injected into the nucleus of host cell without using integrase enzyme. So why does HIV need that enzyme? Why they not just place their DNA ...
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Evidence for 90 percent accountant, 10 percent rock star?

This might sounds misogynistic but here goes: In Antifragile, Nero claims There is evidence of such a barbell strategy but no clarity about the theory behind it' where the barbell strategy, '90 ...
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1answer
580 views

What is the length of gene when calculating TPM (transcripts per million)

What is the length of gene when calculating TPM (transcripts per million)? Assume I have a dataset matrix with k rows(each row is a gene) and n columns (each column is a sample), is there any way I ...
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3answers
142 views

API for gene names by location

Is there any API where I can input chromosome location and it will provide us gene names, for example input chr: 1 location 154714693:154754070 and it will return a list of gene names or ID within ...
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1answer
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Can the same target gene be regulated differently by the same transcription factor under different conditions?

I'm very new in biology and doing more computational analysis. I'm confused with the type of interactions between Transcription Factors (TF) and target genes. Is it possible that the same ...
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2answers
120 views

Differential Gene Expression

I have a matrix two gene expression datasets, one from 10 normal individuals and ten from diseased individuals, which are normalised log fold change values--, i.e., already processed. My question is:...
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Gene networks in insects

I am working on gene networks and I currently have the honey bee gene network to work with. What I am missing is a gene network that I could compare it with. Could you please guide me to a database/...
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1answer
247 views

Definition of Cis-eqtl

I have simple question, do cis-eQTLs use the SNPs that are within 1 Mb from the gene's TSS on the same chromosome ?
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2answers
174 views

Is genome recurrence possible like in Jupiter Ascending? [closed]

I have watched Jupiter Ascending many times now and I was wondering if genome recurrence, like what happened to Jupiter Jones, is possible. Is it possible to find two unrelated people, possibly ...
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28 views

Gene networks for different tissues?

I currently work on gene networks and specifically, I analyze the brain gene regulatory network of an insect to understand its sexual behaviour. During a recent presentation, I got asked this question ...
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550 views

Are all phenotypes normally distributed

Reposting from the stats stackexchange. John Cook, in his blog https://www.johndcook.com/blog/2015/03/09/why-isnt-everything-normally-distributed/, writes that many aren't: Adult heights follow a ...