PoTHoS Phyto Transcriptomics by High-throughput Sequencer

Project

Top
Top page of project.
Settings
Configuration of project.
Register members
Control members who could access to data.

Sample

Register files
Submit fastq files (*.fastq.gz) for analysis.
Register samples
Group files into samples.
Register groups
Group samples.
系列登録
登録したサンプルまたはグループを系列にします。
Quality of sample
Display the number of reads derived from the in-line control.

Assemble

Settings
Settings for the assembling of reads.
Result
Summary of the assemble.
Detail of contig
Display the sequence of contig.
Search contigs
Search contigs by using BLAST.
Detect SNPs
Display SNPs observed in contigs.

Annotation

Settings
Configure annotation options.
Result
Summary of Annotation.

Mapping

Settings
Settings for the mapping the reads to the assembled reference.
Summary of Mapping
Show the number of reads, rate for mapping by each sample.
Expression level
Show tag count for each contigs.
Display the mapped image (pile image)
Draw pile image for the reads mapped to contig.

Two samples analysis

比較解析
サンプル間で発現量の比を計算し、遺伝子を絞り込みます。
Scatter plot
Draw scatter plot.

Multi samples analysis

Cluster analysis
Make a cluster of samples based on the expression pattern of contigs.

Two groups analysis

edgeR
Differentical analysis between two groups using edgeR, an R package.

Reference

Nucleotide sequences
Search transcript sequence.
Protein
Search amino acid sequence.
Genome
Show genome sequence.
Blast search
Search sequences registered in PoTHoS by BLAST.
キーワード検索
配列IDまたはアノテーション中の文字列を検索します。
Download
Download nucleotide and amino acid sequences stored in PoTHoS as FASTA format.

Authentication

Login
Please login to show the data under access control.
Registration
Register e-mail address.

Results of in line control

Group Sample name Reads Mapped to control Ratio
x10m12hx10m12h_17,191,68600 ppm
x10m12h_26,724,21800 ppm
x10m6hx10m6h_17,762,28200 ppm
x10m6h_212,988,85700 ppm
x15m12hx15m12h_18,496,77400 ppm
x15m12h_27,957,40800 ppm
x15m12h_35,541,01800 ppm
x15m12h_45,517,19300 ppm
x15m6hx15m6h_15,058,89100 ppm
x15m6h_211,288,30700 ppm
x15m6h_35,538,45000 ppm
x5m12hx5m12h_15,883,16800 ppm
x5m12h_26,301,95600 ppm
x5m12h_35,306,28900 ppm
x5m6hx5m6h_18,075,05800 ppm
x5m6h_29,581,45300 ppm
PGxPG_111,291,15500 ppm
xPG_27,093,04900 ppm
xPG_36,898,28400 ppm
xPG_46,008,30800 ppm
wo12hxwo12h_15,641,26800 ppm
xwo12h_25,361,46500 ppm
xwo12h_31,125,65900 ppm
wo6hxwo6h_16,115,28400 ppm
xwo6h_21,112,68400 ppm
xwo6h_35,805,48500 ppm
xwo6h_4407,57700 ppm