Assignment 6: Motif Findinggenetics.wustl.edu/bio5488/files/2017/03/Assignment-6-Review-.pdf ·...

Assignment6:MotifFindingBio54882/24/173/24/17!!

ReviewJ

Assignment6:Motiffinding• Input• Promotersequences• PWMsofDNA-bindingproteins

• Goal• FindputativebindingsitesinthesequencesbyscanningthesequencesformatchestothePWM

• Output• Listofthelocationsandscoresofputativebindingsites

PWM Putativebindingsequence

Promoter

AssignmentTODOs

• DeterminethehighestaffinitybindingsiteforeachPWM• CalculatebyhandorwriteascriptJ

• Commenttheexistingcode• Commenttheuser-definedfunctionswithfunctiondocstrings

• Modifythescripttoscanthereversecomplementoftheinputsequence• Modifythescriptonlyreporthitsthathavescoresaboveagiventhreshold

• Scanpromoters(n=2)tofindputativebindingsitesforeachDNA-bindingprotein(n=2)

• Answerfollow-upquestions

TFScoringMatrix

Indexing

• Indexingissomewhatarbitrary;howeverit’simportanttofollowconventions:• Thestartpositionofafeatureissmallerthanthestopposition• Thecoordinatesarerelativetotheforwardstrand

UseToyDataSets!!!

Position

Lookatourexamples/instructionssoyougiveustherightanswersJ

Assignment 6: Motif Findinggenetics.wustl.edu/bio5488/files/2017/03/Assignment-6-Review-.pdf ·...

Documents

Motif Motif Batik

Kuliah 4 motif dan-atraksi-wisata-motif

Copy of Assignment 4 - genetics.wustl.edugenetics.wustl.edu/bio5488/files/2019/02/Copy-of-Assignment-4.pdfWhy copy paste if you can just call a function? You can provide functions

Population Genetics I. Bio5488 - 2016

BAB II METODE PERANCANGAN A. Analisa Permasalahan · dijadikan satu dan dipisah dengan sekat, misalnya motif parang, motif Kawung, motif kembang kacang, motif truntum, motif kembangan,

astadasahastra.files.wordpress.com€¦ · Web viewMisalnya motif sawat melambangkan penguasa tinggi, motif naga melambangkan air, motif burung melambangkan angin. Motif Sawat

yogyakartatourismus.files.wordpress.com€¦ · Web view{Dari kiri motif batik motif serangga (Kupu-kupu dan capung), motif fauna (Rusa dan ayam), motif flora (Anggur) Tempat-tempat

Motif discovery Tutorial 5. Motif discovery –MEME –MAST –TOMTOM –GOMO –PROSITE Multiple sequence alignments and motif discovery

DAKON SEBAGAI IDE DASAR DALAM PENCIPTAAN MOTIF … · Gambar XLII : Motif Tumpal II..... 43 Gambar XLIII : Motif Dakon Kawung ..... 43 Gambar XLIV : Motif Bunga Kecik

TRAWLER: de novo regulatory motif discovery pipeline for ... · The Gat1 motif does not occur often multiple times per sequence. Hap1 motif Hsf1 motif The Hap1 motif occurs multiple

MOTIF · diartikan sebagai kekuatan yang terdapat dalam diri ... C. Teori Motif ... Motif sosial Motif sosial merupakan motif kompleks,

Bio5488 Lawson2019 lecture1

Perancangan Film dokumenter “ Motif Batik Mbakaurepository.uksw.edu/bitstream/123456789/8836/3/T1_692009054_Full... · seperti motif bunga matahari, motif biji kopi, dan motif daun

Perbedaan antara motif batik klasik dan motif batik

Move, Hlm 17 Motif Print kian Menarik - ftp.unpad.ac.id · memiliki ciri khas sendiri, misalnya motif gayo, motif pucuk rebung, motif pintu Aceh, bunga melati, dan beragam motif lainnya

motif à chevroncharles.hamel.free.fr/.../motif%20%E0%20chevron.pdf · · 2011-08-0418L 8B (2 BT) motif à chevron Since Michel. Title: Microsoft Word - motif à chevron.docx Author:

Motif-motif Batik Indonesia

MASA: Motif-Aware State Assignment in Noisy Time Series DataMASA departs from these methods in two respects. Firstly, MASA allows subse-quences within a motif to have variable length

MASA: Motif-Aware State Assignment in Noisy Time Series Data · 2019-06-25 · state assignment, we update our state model. By iterating between these two steps, MASA uses motifs

KARMA Motif Using the Remote Mode – Motif XF/XS