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mRNA-seq (NGS) me te ira tohutoro

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mRNA-seq (NGS) me te ira tohutoro

He taputapu paerewa te RNA-seq puta noa i ngā pūtaiao koiora me ngā pūtaiao hua whenua, e hono ana i te āputa i waenga i ngā ira me ngā proteome. Ko tōna kaha kei te kimi i ngā tuhinga hou me te ine i ō rātou whakaaturanga i roto i te whakamātautau kotahi. He whānuitia te whakamahinga mō ngā rangahau whakatairite i te tuhinga, e whakamārama ana i ngā ira e pā ana ki ngā āhuatanga rerekē, pērā i te whakatairite i ngā mutants ki ngā momo-mohoao, te whakaatu rānei i te whakaaturanga ira i raro i ngā āhuatanga motuhake. Ka whakauruhia e te BMKCloud mRNA (Tohutoro) APP te ine whakaaturanga, te tātari whakaaturanga rerekētanga (DEG), me ngā tātari hanganga raupapatanga ki roto i te paipa bioinformatics mRNA-seq (NGS) me te whakakotahi i ngā kaha o ngā pūmanawa rite, e whakarite ana i te watea me te ngāwari ki te whakamahi. Ka taea e ngā kaiwhakamahi te tuku ake i ā rātou raraunga RNA-seq ki te kapua, kei reira te Taupānga e tuku ana i tētahi otinga tātari bioinformatic whānui, kotahi-mutu. Hei tāpiri, ka whakatairanga i te wheako kiritaki, e tuku ana i ngā mahi whaiaro kua whakaritea ki ngā hiahia motuhake o ngā kaiwhakamahi. Ka taea e ngā kaiwhakamahi te whakatakoto tawhā me te tuku i te kaupapa paipa mā rātou anō, tirohia te pūrongo tauwhitiwhiti, tiro i ngā raraunga/hoahoa me te keri raraunga katoa, pērā i: te kōwhiringa ira ūnga, te whakarōpū mahi, te hoahoa, me ētahi atu.

Ngā hua whakaaturanga
Te keri raraunga
Te whakaritenga kawemai
Tātaritanga matua
Tohutoro
Ngā hua whakaaturanga

Te keri raraunga

Te whakaritenga kawemai

Pūhara:Illumina, MGI
Rautaki:RNA-Seq
Tahora: Ngā raraunga kua oti te whakarite, kua ma.
Momo whare pukapuka:kāore he aho, he aho tuatahi, he aho tuarua rānei
Te roa o te pānui:150 bp
Momo kōnae:*.fastq, *.fq, *.fastq.gz, *.fq.gz rānei. Kahono aunoa i ngā kōnae .fastq kia rite ki ō rātou ingoa kōnae,hei tauira, kua honoa a *_1.fastq ki a *._2.fastq.
Te maha o ngā tauira:Kāore he herenga mō te mahao ngā tauira, engari ka piki ake te wā tātari i te mea ka nui haere te maha o ngāka tipu haere ngā tauira.
Te nui o ngā raraunga e taunakitia ana:6G mō ia tauira

Tātaritanga matua
Ngā taputapu tātari matua me ngā taputapu mōhiohio koiora o te mRNA-seq (Tohutoro)te paipa e whai ake nei:
1. Mana Whakahaere Kounga Raraunga Mata:
•Te tango i ngā raupapa kounga-iti, ngā raupapa urutau,me ētahi atu;
•Ngā Utauta: te paipa i whakawhanakehia i roto i te whare;
2. Te whakataurite i ngā raraunga ki tētahi ira tohutoro:
•Te whakataurite i ngā pānui ki tētahi pūnaha honohono-mōhio ki teira tohutoro.
•Ngā Utauta:HISAT2, ngā taputapu sam
3. Tātaritanga kounga whare pukapuka:
•Whakauruhia te tātari roa, te tātari raupapatanga kua whakakīia, me ētahi atu;
•Ngā Utauta:ngā taputapu sam;
4. Tātaritanga hanganga raupapatanga:
•Tātari hononga rerekē, arotautanga hanganga ira,te matapae ira hou, me ētahi atu;
•Ngā Utauta:Here aho, whakataurite, GATK,TAIMANE, InterProScan, meHMMER.
5. Tātaritanga rerekētanga o te whakapuakanga:
•Te tirotiro DEG, te tātari hononga-tahi, te mahite whakarei ake;
Ngā hua tirohanga rerekē;
RmeSEGseq, DESeq2, ggplot2, DEXSeq
Tohutoro
1. Kim, Daehwan me ētahi atu. “Te whakarārangi ira i runga i te kauwhata me tete whakawhaiaro ira tangata me te HISAT2 me te HISAT-ira tangata."TaiaoHangarau koiora37 (2019): 907 - 915.
2. McKenna, Aaron me ētahi atu. “Te Kete Utauta Tātari Ira: heAnga MapReduce mō te tātari i te DNA o te whakatupuranga e whai ake neite raupapatanga raraunga.”Te rangahau ira20 9 (2010): 1297-303.
3. Li, Heng me ētahi atu. “Te whakatakotoranga o te Whakaritenga Raupapa/Mahere meNgā taputapu SAM.Pūtaiao Koiora25 (2009): 2078 - 2079.
4. Perțea, Mihaela et al. "Ka taea e StringTie te whakapai akete hanga anō i tētahi transcriptome mai i ngā pānui RNA-seq.”TaiaoHangarau koiora33 (2015): 290-295.
5. Love, Michael I. et al. “Te aromatawai i te huringa o te kopa me tete horapa mō ngā raraunga RNA-seq me te DESeq2.”IraKoiora15 (2014): n. whārangi.
6. Eddy, Sean R.. “Ngā Rapunga HMM Kōtaha Whakateretere.”PLoS Koiora Rorohiko7 (2011): n. whārangi.

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