Limit : all time
all time today this week this month this year
64 results • Page 1 of 2
Sort: Rank
Rank Views Votes Replies
Filtering for tag: utr • reset
0
votes
0
replies
115
views
Job: Two postdocs (one wet, one dry) in 3' UTR biology and RNA threapeutics
rna machine-learning utr
20 days ago by i.sudbery 11k
0
votes
2
replies
142
views
Lengths of UTR3, UTR5 and ORF from gtf file
UTR ORF
19 days ago by bio_elle • 0
0
votes
0
replies
94
views
Finding mutational burden in TCGA dataset
genome python UTR tcga cancer
5 weeks ago by Jamie Watson • 0
0
votes
0
replies
182
views
Adjustment of number of mutations of 3'UTR region for UTR length
UTR SNV RNA-Seq genome sequence
5 weeks ago by Thind amarinder ▴ 130
0
votes
0
replies
115
views
Calling UTRs in TCGA dataset
TCGA cancer UTR ORF
9 weeks ago by Jamie Watson • 0
11
votes
7
replies
8.9k
views
How Can We Find The Info For 3'Utr And 5'Utr In Gencode Gtf File?
utr
updated 4 months ago by 20 • written 7.7 years ago by ▴ 860
2
votes
6
replies
1.3k
views
Recommended Tools For 3'UTR APA Detection From Rna-Seq Data?
RNA-Seq R Polyadenylation UTR tools
5 months ago by gandrescabrera ▴ 80
3
votes
5
replies
250
views
Download entire gene sequences (including UTRs) with BioMart-Ensembl
ensembl genomes UTR
6 months ago by lessismore ★ 1.1k
3
votes
3
replies
396
views
Coordinates for genomic features?
gene utr promoter intron exon
7 months ago by Ankit ▴ 170
0
votes
1
reply
1.2k
views
3'UTR Strip from all genes
genome python ucsc utr mysql
updated 9 months ago by 20 • written 3.8 years ago by • 0
2
votes
2
replies
220
views
NA return when searching for 3'UTRs in biomaRt
R utr na biomart
updated 10 months ago by ★ 1.6k • written 10 months ago by ▴ 10
0
votes
0
replies
259
views
Extracting 3' UTR from long read RNA sequencing reads
rna-seq UTR long-reda
11 months ago by peris ▴ 120
0
votes
6
replies
208
views
Homology of 3' UTRs
UTR homology
updated 11 months ago by 47k • written 11 months ago by 11k
0
votes
4
replies
1.8k
views
Collecting 3' UTR and neighboring exonic sequence from GENCODE GTF files
GENCODE GTF UTR
updated 12 months ago by 20 • written 5.0 years ago by • 0
3
votes
6
replies
423
views
Downloading 3' UTR sequences for miRNA Target Prediction
utr RNA-Seq Assembly sequence genome
updated 14 months ago by 11k • written 14 months ago by • 0
0
votes
4
replies
664
views
How to extract 3', 5' UTR sequences from genbank records using python, PERL and R code?
UTR
updated 15 months ago by ▴ 110 • written 15 months ago by ▴ 60
0
votes
2
replies
270
views
Is virus specific UTR prediction tool available?
UTR
16 months ago by mathavanbioinfo ▴ 60
3
votes
3
replies
292
views
GENCODE and untranslated regions
GENCODE UTR
updated 16 months ago by 22k • written 16 months ago by ▴ 10
2
votes
1
reply
675
views
3' UTRs GTF file
gtf utr mir expression
updated 16 months ago by 8.6k • written 16 months ago by ▴ 10
10
votes
9
replies
443
views
Remove overlap between Exon and UTR boundaries
RNA-Seq exon UTR
updated 18 months ago by 12k • written 18 months ago by ▴ 100
3
votes
1
reply
390
views
Mapping aligned reads to UTRs
alignment rna-seq utr cds RNA-Seq
updated 22 months ago by ▴ 80 • written 22 months ago by • 0
2
votes
6
replies
431
views
Finding Ribo-seq reads in annotated UTRs
Ribo-Seq UTR Alignment HTSeq Annotation
22 months ago by jpcchoy • 0
2
votes
3
replies
526
views
Bulk Download all CDS and UTRs of known genes from ENSEMBL
UTR CDS ensembl
updated 22 months ago by 47k • written 22 months ago by ▴ 80
1
vote
3
replies
548
views
annotate gene feature
gene feature annotation UTR
24 months ago by arunprasanna83 ▴ 40
1
vote
6
replies
1.1k
views
Find the 3' utrs, 5'utrs and their counts from bam files
bam bed ucsc bedtools utr
updated 2.2 years ago by ▴ 340 • written 2.2 years ago by ▴ 10
7
votes
7
replies
4.9k
views
Multiple Sequence Alignment Of 3' Utr
alignment multiple utr
updated 2.6 years ago by 32k • written 11.0 years ago by ▴ 20
2
votes
6
replies
1.5k
views
Get one maximum UTR per gene
3' UTR UTR UCSC Biomart
updated 3.7 years ago by 32k • written 3.7 years ago by • 0
0
votes
0
replies
1.1k
views
Bacterial UTR Analysis tools
transcription UTR promoter
4.1 years ago by Joe 19k
0
votes
0
replies
1.8k
views
Training Augustus parameters for CDS and UTRs - separately or together?
genome gene augustus utr
4.1 years ago by roryC • 0
0
votes
1
reply
1.1k
views
How to find the longest annotated 3' UTR in human or mouse genomes?
utr genome sequence human mouse
4.2 years ago by gprezza ▴ 30
11
votes
3
replies
2.5k
views
Finding UTR regions in the RNA sequencing data from a non-model organism
UTR RNA-seq non-model organism
updated 4.5 years ago by ▴ 570 • written 4.5 years ago by ★ 1.5k
3
votes
6
replies
2.5k
views
infer 3' and 5' UTR from gff3 file
next-gen genome utr gff3
updated 4.7 years ago by 4.0k • written 4.7 years ago by ▴ 30
54
votes
9
replies
21k
views
9 follow
Easy Way To Get 3' Utr Lengths Of A List Of Genes
utr
updated 4.7 years ago by ▴ 110 • written 10.2 years ago by ▴ 760
8
votes
9
replies
7.6k
views
How To Get The 3' Utr Given Geneid And Transcriptid In Ensembl Using Python?
ensembl utr biomart api
updated 5.1 years ago by ▴ 130 • written 10.1 years ago by ▴ 70
1
vote
4
replies
1.7k
views
Is there any way to extract longest ORF from blastx output?
sequence alignment blast CDS UTR
updated 5.5 years ago by 9.6k • written 5.6 years ago by ▴ 40
3
votes
6
replies
1.9k
views
Finding coding and UTR regions for a gene list
sequencing alignment coding UTR
updated 5.6 years ago by 135k • written 5.6 years ago by ★ 1.5k
0
votes
2
replies
2.4k
views
How to get distingushable CDS and UTR sequences of gene from biomart?
sequence coding UTR biomart
updated 5.6 years ago by 98k • written 5.6 years ago by ▴ 40
0
votes
1
reply
1.6k
views
UTR visualization of CLIP seq data
utr browser visulaization
updated 5.8 years ago by 10k • written 5.9 years ago by ★ 1.1k
0
votes
4
replies
2.2k
views
biomaRt: Extracting data for a particular isoform (R/bioconductor)
biomart bioconductor utr extract
updated 5.8 years ago by 20 • written 5.9 years ago by ▴ 180
0
votes
0
replies
1.2k
views
How to align/cluster/do phylogeny work on (un)spliced transcripts?
phylogeny alignment UTR RNA-Seq
5.9 years ago by cyril-cros ▴ 910
4
votes
6
replies
2.3k
views
5"UTR and 3"UTR of Nile Tilapia Genome (Oreochromis niloticus)
xenorefseq ucsc table browser utr annotations utr
updated 5.9 years ago by ▴ 910 • written 5.9 years ago by ▴ 60
3
votes
2
replies
3.0k
views
retrieve 3prime UTR sequence for refseq genes
UTR refseq genes sequence
6.0 years ago by nathanielsaxe ▴ 10
0
votes
2
replies
1.9k
views
program to pull out 5'and 3'utr from cds file
cds utr program
6.1 years ago by vigneshprbh37 ▴ 30
6
votes
5
replies
2.8k
views
Mirna Target Prediction
mirna target utr
updated 6.1 years ago by • 0 • written 8.9 years ago by ▴ 170
1
vote
2
replies
1.3k
views
Collection of 5' mRNA ends from human transcriptome
RNA UTR 5' Dataset
updated 6.2 years ago by 98k • written 6.2 years ago by • 0
0
votes
1
reply
2.5k
views
using max_target 1,max_hsps 1 for blastn and subsequent compilation of utr files
blast utr max_target_seq max_hsps
updated 6.2 years ago by ▴ 530 • written 6.2 years ago by ▴ 30
0
votes
1
reply
1.4k
views
UTR region misassembly ?
UTR RNA-Seq Assembly transcriptome misassembly
updated 6.5 years ago by 20 • written 6.6 years ago by ▴ 10
0
votes
3
replies
1.6k
views
Any Tool Which Remark The Boundries Like Regulatory, Intron And Exon In Gene Sequence
tool gene exon utr
updated 6.9 years ago by 23k • written 8.1 years ago by ▴ 300
2
votes
3
replies
3.3k
views
How to define a full-length transcript for transcriptome assembly?
RNA-Seq UTR
updated 7.0 years ago by 8.0k • written 7.0 years ago by ▴ 100
4
votes
3
replies
5.4k
views
Genomic Positions Of 3'Utrs Of Refseq-Genes
refseq utr position
updated 7.0 years ago by 12k • written 7.0 years ago by ▴ 40
64 results • Page 1 of 2
Recent Votes
Answer: Creating reference genome for mapping and then selecting
Comment: Creating reference genome for mapping and then selecting
Answer: How to convert Transcripts ID of rhesus monkey to Transcripts ID of homo sapiens
Comment: How to convert Transcripts ID of rhesus monkey to Transcripts ID of homo sapiens
Comment: How to convert Transcripts ID of rhesus monkey to Transcripts ID of homo sapiens
Comment: How to convert Transcripts ID of rhesus monkey to Transcripts ID of homo sapiens
Answer: Tool to find chromosome specific repeats
Recent Locations • All
New York, just now
Israel, just now
United States, 6 minutes ago
United States, 7 minutes ago
IISER Mohali, 8 minutes ago
Australia, 8 minutes ago
India, 8 minutes ago
Recent Awards • All
Scholar to Asaf 8.6k
Popular Question to seta ★ 1.5k
Popular Question to Philipp Bayer 6.9k
Popular Question to Kai_Qi ▴ 100
Appreciated to igor 12k
Popular Question to 9606 ▴ 320
Teacher to Lemire ▴ 600
Recent Replies
Answer: Expression of gene of interest across conditions in single-cell data by jared.andrews07 9.1k
Take a look at [dittoSeq](http://www.bioconductor.org/packages/release/bioc/vignettes/dittoSeq/inst/doc/dittoSeq.html) for viz options - it…
Comment: Extracting only tumor samples from Single cell RNASeq by jared.andrews07 9.1k
You need pre-defined variants for Vartrix. Typically it's used in conjuction with WGS/WES from bulk tissue to look for clonal variants in d…
Comment: Cell composition in each condition of single cell data by paria.alipour ▴ 20
Oh, I'm sorry. I already posted it in here the https://www.biostars.org/p/457243/#9464486. I've added the images
Comment: How to convert Transcripts ID of rhesus monkey to Transcripts ID of homo sapiens by Quanyou • 0
This seems OK when one gene generates only one transcirpt. But when one gene has multiple transcripts, these code would return a table wher…
Comment: How to convert Transcripts ID of rhesus monkey to Transcripts ID of homo sapiens by Quanyou • 0
This seems feasible. But I want to convert tens of thousands of transcript IDs. Could you tell me how can I make it through sequene search?
Answer: bbmap, mapq and uniquelly mapped reads filtering by GenoMax 99k
Many threads exist that show how to extract uniquely mapped reads. Here are a couple of examples:<br> https://www.biostars.org/p/276216/#27…
Comment: Cell composition in each condition of single cell data by rpolicastro 5.1k
The images seem to be missing from your post
Comment: Limma experiment design and making contrasts by kra277 • 0
Thank you very much for this. Much appreciated.
Comment: Limma experiment design and making contrasts by Kevin Blighe 72k
Hi, these follow the same principles as formulae used in regression modelling, so, you may want to focus on that (when searching). What lim…
Comment: Limma experiment design and making contrasts by kra277 • 0
That is very insightful. Thank you very much for the answer. Also, if I may ask, could you please point me to the articles for understandin…
Comment: Keep values from VCF file into Ensembl VEP annotation by brunobsouzaa ▴ 510
Thanks Man... I've wroten a simple awk command for this task! Everything is working fine.
Comment: Raw read processing using trimmomatic by boczniak767 ▴ 740
Do you have exact command used by the author? I guess that not all details was presented in the paper. You can always ask the corresponding…
Comment: should stop codon be counted as part of CDS by sullis02 • 0
Your github page appears to live here now https://github.com/NBISweden/GAAS/blob/master/annotation/knowledge/gxf.md
Comment: How do I compare degree and betweenness centrality for different PPI networks? by Istvan Albert 87k
I am not all that knowledgeable of Cytoscapes features and scripting capabilities, but if it does not support that operation you can expo…
Comment: Creating reference genome for mapping and then selecting by Istvan Albert 87k
you would get the counts as you would get them in any other case, how do you know something maps to chromosome 1 of human genome? Because i…
Traffic: 1314 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6