- CELLO v.2.5: subCELlular LOcalization predictor 蛋白亞細(xì)胞定位
訪問(wèn)網(wǎng)址：http://cello.life.nctu.edu.tw/
評(píng)論：是可用工具中表現(xiàn)最好用的星持，可批量提交蛋白序列桂敛。其結(jié)果與PSORT工具高度吻合并思。
CELLO是一個(gè)支持向量機(jī)分類系統(tǒng)。CELLO采用4種序列編碼方案:氨基酸組成（the amino acid composition）炬转、二肽組成（the di-peptide composition）、劃分的氨基酸組成（the partitioned amino acid composition）和基于氨基酸理化性質(zhì)的序列組成（the sequence composition based on the physico-chemical properties of amino acids）。我們綜合運(yùn)用這些分類方案掩完，取得最優(yōu)結(jié)果。
文章是2006年發(fā)表的：Yu CS, Chen YC, Lu CH, Hwang JK: Prediction of protein subcellular localization. Proteins: Structure, Function and Bioinformatics 2006, 64:643-651.
有新文章準(zhǔn)備中硼砰，待發(fā)表且蓬。
- PSORT 訪問(wèn)網(wǎng)址：http://psort1.hgc.jp/form.html 可用于植物蛋白序列的亞細(xì)胞定位
評(píng)測(cè)：其結(jié)果與**CELLO v.2.5吻合度很高审残。缺點(diǎn)明顯：只能提交一條菠秒。
- PSORTb 訪問(wèn)網(wǎng)址：https://www.psort.org/psortb/
適用范圍：主要用于真菌和原核生物的蛋白亞細(xì)胞定位預(yù)測(cè)。最新版本v3.0.2.
- TargetP2.0 訪問(wèn)網(wǎng)址：https://services.healthtech.dtu.dk/service.php?TargetP-2.0
蛋白亞細(xì)胞定位幕随，可以區(qū)分 mitochondrial, chloroplastic, secretory pathway, or other豹障。
評(píng)論：介紹看著不錯(cuò)冯事，但無(wú)法使用。2022-02-18幾天血公，用網(wǎng)頁(yè)自帶的例子無(wú)法正常運(yùn)行昵仅。
TargetP-2.0 server通過(guò)判斷蛋白序列中是否存在對(duì)應(yīng)的肽段，來(lái)判斷蛋白的亞細(xì)胞定位累魔，這些肽段包括:信號(hào)肽(signal peptide, SP)岩饼、線粒體轉(zhuǎn)運(yùn)肽(mitochondrial transit peptide, mTP)、葉綠體轉(zhuǎn)運(yùn)肽(chloroplast transit peptide, cTP)或類囊體腔內(nèi)轉(zhuǎn)運(yùn)肽(thylakoid luminal transit peptide, lTP)薛夜。對(duì)于預(yù)測(cè)含有肽段的區(qū)域籍茧，還可預(yù)測(cè)潛在的酶切位點(diǎn)。
- PSORT. https://www.psort.org/
提供了亞細(xì)胞定位預(yù)測(cè)工具集合的鏈接梯澜。
PSORT.org provides links to the PSORT family of programs for subcellular localization prediction as well as other datasets and resources relevant to localization prediction. The page is currently hosted by the Brinkman Laboratory at Simon Fraser University, and our goal is to provide an open-source resource centre for researchers interested in subcellular localization prediction.
- SignalP5.0 訪問(wèn)網(wǎng)址：https://services.healthtech.dtu.dk/service.php?SignalP-5.0
The SignalP工具可以預(yù)測(cè)Archaea, Gram-positive Bacteria, Gram-negative Bacteria and Eukarya中的蛋白是否存在信號(hào)肽寞冯，以及蛋白中的酶切位點(diǎn)（cleavage sites）的位置。 SignalP 5.0 可以區(qū)分三種類型的信號(hào)肽：
- Sec/SPI: "standard" secretory signal peptides transported by the Sec translocon and cleaved by Signal Peptidase I (Lep)
- Sec/SPII: lipoprotein signal peptides transported by the Sec translocon and cleaved by Signal Peptidase II (Lsp)
- Tat/SPI: Tat signal peptides transported by the Tat translocon and cleaved by Signal Peptidase I (Lep)
SignalP 5.0的預(yù)測(cè)是基于 deep convolutional and recurrent neural network architecture including a conditional random field.
- SignalP6.0 訪問(wèn)網(wǎng)址：https://services.healthtech.dtu.dk/service.php?SignalP
The SignalP工具可以預(yù)測(cè)Archaea, Gram-positive Bacteria, Gram-negative Bacteria and Eukarya中的蛋白是否存在信號(hào)肽晚伙，以及蛋白中的酶切位點(diǎn)（cleavage sites）的位置吮龄。 SignalP 6.0 可以區(qū)分五種類型的信號(hào)肽：
- Sec/SPI: "standard" secretory signal peptides transported by the Sec translocon and cleaved by Signal Peptidase I (Lep)
- Sec/SPII: lipoprotein signal peptides transported by the Sec translocon and cleaved by Signal Peptidase II (Lsp)
- Tat/SPI: Tat signal peptides transported by the Tat translocon and cleaved by Signal Peptidase I (Lep)
- Tat/SPII: Tat lipoprotein signal peptides transported by the Tat translocon and cleaved by Signal Peptidase II (Lsp)
- Sec/SPIII: Pilin and pilin-like signal peptides transported by the Sec translocon and cleaved by Signal Peptidase III (PilD/PibD)
SignalP 6.0的預(yù)測(cè)是基于 transformer protein language model with a conditional random field for structured prediction.
評(píng)論：如果只做單純的亞細(xì)胞定位，不建議使用SignalP.
