Course Materials

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Poster presentation on Aug13 from 1pm-330pm in Steinman Hall Lobby 140st Convent Ave  120k v. 1 Aug 11, 2009, 12:03 PM Yuying Gosser
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Microarray technology  1715k v. 1 Aug 6, 2009, 6:26 AM Yuying Gosser
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Final_project_instruction  69k v. 1 Aug 6, 2009, 6:12 AM Yuying Gosser
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Common errors in annotation from WU  1039k v. 1 Oct 16, 2009, 11:06 AM Yuying Gosser
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contig13txt  55k v. 1 Jul 28, 2009, 11:25 AM Yuying Gosser
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D.virilis genome manuscript from WashU  2183k v. 2 Nov 2, 2009, 7:10 AM Alvin Lu
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lecture_1_outline  39k v. 1 Jan 28, 2010, 8:12 PM Yuying Gosser
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MIT_bioengineering_101_website  28k v. 1 Aug 3, 2009, 6:02 AM Yuying Gosser
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  204k v. 1 May 8, 2009, 10:18 AM Alvin Lu
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Review for the morning class  44k v. 1 Aug 10, 2009, 6:41 AM Yuying Gosser
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  220k v. 1 Nov 12, 2010, 9:12 AM Yuying Gosser
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Brass_0810_2009_prime_time_lecture  785k v. 2 Aug 5, 2009, 11:06 PM Yuying Gosser
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GT-AG splicing site signature  56k v. 2 Oct 23, 2009, 3:20 PM Yuying Gosser
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Annotation Procedure  28k v. 2 Mar 27, 2009, 5:54 PM Yuying Gosser
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Control Fosmid 23   8k v. 4 Apr 24, 2009, 11:05 AM Alvin Lu
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  9k v. 2 Mar 27, 2009, 6:15 PM Yuying Gosser
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Lecture 6 - Demo, sequence from D. Virilus Chromosome 10 from goose.wustl.edu  45k v. 2 Mar 27, 2009, 5:55 PM Yuying Gosser
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Lecture 5 - Example fosmid 12 seq unmasked  37k v. 2 Mar 27, 2009, 6:01 PM Yuying Gosser
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Lecture 5 - Example fosmid 12 - masked  37k v. 2 Mar 27, 2009, 6:01 PM Yuying Gosser
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Lecture 10 - example of fosmid 23  1k v. 2 Mar 27, 2009, 6:01 PM Yuying Gosser
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Lecture 4 Notes - Blast Exercise 1  1010k v. 2 Mar 27, 2009, 6:08 PM Yuying Gosser
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Annotation Report of Derecta contig 9 and 23 from Mariam Meghdari   1050k v. 2 May 8, 2009, 8:19 AM Yuying Gosser
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gene_annotation_tutorial  2714k v. 2 Dec 12, 2009, 2:50 PM Yuying Gosser
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Lecture 5 - Student Annotation Report  694k v. 2 Mar 27, 2009, 6:08 PM Yuying Gosser
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Lecture 9 - ****MUST READ**** include a synteny analysis in your report.  304k v. 2 Mar 27, 2009, 6:11 PM Yuying Gosser
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Illustration of evidence based annotation  824k v. 2 Mar 27, 2009, 5:54 PM Yuying Gosser
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***(7 genes, lvl.3) Oct 08 Submitted Aug 09Mao Hu Jackie Lee  (check isoform), Ka Lau + Renei Blair   93k v. 17 Mar 26, 2010, 12:38 PM Yuying Gosser
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*** (4 genes, lvl.2) Antoine Wreh + Chizoba Anagboso  78k v. 6 Mar 26, 2010, 12:43 PM Yuying Gosser
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***(1 gene, lvl.1) March 09 Submitted Aug 09Jimin Yu, Brooklyn Technical High School  (check isoform), Ka Lau + Ulysses Campos   74k v. 17 Mar 26, 2010, 12:38 PM Yuying Gosser
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http://gander.wustl.edu/cgi-bin/hgTracks?db=Dere3&position=fosmid42 Claimed Oct09 (4 genes lvl 2) - Noah (Fall 2009), Cheryl Mazzeo + Emad Gems  78k v. 7 Mar 26, 2010, 12:44 PM Yuying Gosser
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Claimed Spring 2009 - Lvl 2, 3 genes predicted (check isoform) Leslie Guadron + Hilda Adjokatcher  4795k v. 7 Mar 26, 2010, 12:39 PM Yuying Gosser
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http://gander.wustl.edu/cgi-bin/hgTracks?db=Dere2&position=contig32 Claimed Oct09 (4 genes lvl 2) Olivia Plante  111k v. 5 Mar 26, 2010, 12:45 PM Yuying Gosser
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http://gander.wustl.edu/cgi-bin/hgTracks?db=Dere2&position=contig34 Claimed Oct09 (4 genes lvl 2) Alen Sajan Malliath  111k v. 5 Mar 26, 2010, 10:52 AM Yuying Gosser
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http://gander.wustl.edu/cgi-bin/hgTracks?db=Dere2&position=contig28 Aug2006 assembly (3 genes lvl 2) Claimed Oct09 Anna Kazatskaya (Fall 2009), Leslie Guadron + Hilda Adjokatcher  60k v. 12 Mar 26, 2010, 12:46 PM Yuying Gosser
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http://gander.wustl.edu/cgi-bin/hgTracks?db=Dere2&position=contig31 Aug2006 assembly (4 genes lvl 2) claimed October 2009, Jane Akhuetie + Paloma Reyes  50k v. 9 Mar 26, 2010, 12:48 PM Yuying Gosser
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http://gander.wustl.edu/cgi-bin/hgTracks?db=Dere2&position=contig33 Aug2006 assembly (3 genes lvl 2) Claimed Oct09 Leslie Guadron + Hilda Adjokatcher  46k v. 8 Mar 26, 2010, 12:41 PM Yuying Gosser
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http://gander.wustl.edu/cgi-bin/hgTracks?db=Dere2&position=contig35 Aug2006 assembly (3 genes lvl 2) Claimed Oct 09 Drew + Joseph  56k v. 10 Mar 26, 2010, 12:40 PM Yuying Gosser
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http://gander.wustl.edu/cgi-bin/hgTracks?db=Dere2&position=contig4 Aug2006 assembly (3 genes lvl 2) Claimed Oct09 Salman Akhter (check isoform), Alen Sajan Malliath  46k v. 11 Mar 26, 2010, 12:40 PM Yuying Gosser
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Gene annotation report form MUST READ!!!  32k v. 6 Mar 26, 2010, 12:27 PM Yuying Gosser
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Clustalw EXERCISE EXAMPLE  34k v. 2 Oct 16, 2009, 12:19 PM Yuying Gosser
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multiple sequence alignment and homology modeling exercise  24k v. 3 Mar 26, 2010, 12:34 PM Yuying Gosser
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  2k v. 3 Mar 26, 2010, 12:31 PM Yuying Gosser
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  2k v. 3 Mar 26, 2010, 12:31 PM Yuying Gosser
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BLAST exercise (BLASTn and results analysis)  35k v. 2 Oct 16, 2009, 12:19 PM Yuying Gosser
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CLUSTALW EXERCISE EXAMPLE 2  2k v. 2 Oct 16, 2009, 12:19 PM Yuying Gosser
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*** (4 genes, lvl.2) July 09  60k v. 4 Mar 26, 2010, 12:26 PM Yuying Gosser
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*** (4 genes, lvl.2) July 09  97k v. 4 Mar 26, 2010, 12:26 PM Yuying Gosser
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*** (4 genes, lvl.1) July 09  70k v. 4 Mar 26, 2010, 12:26 PM Yuying Gosser
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*** (3 genes, lvl.1) July 09  55k v. 4 Mar 26, 2010, 12:26 PM Yuying Gosser
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*** (3 gene, lvl.1) March 09  46k v. 8 Mar 26, 2010, 12:26 PM Yuying Gosser
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*** (4 genes, lvl.1) July 09  53k v. 4 Mar 26, 2010, 12:26 PM Yuying Gosser
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*** (4 genes, lvl.1) July 09  52k v. 4 Mar 26, 2010, 12:26 PM Yuying Gosser
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*** (4 genes, lvl.1) July 09  60k v. 4 Mar 26, 2010, 12:26 PM Yuying Gosser
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  200k v. 2 Mar 27, 2009, 6:00 PM Yuying Gosser
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  487k v. 2 Mar 27, 2009, 6:00 PM Yuying Gosser
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Lecture 2 Notes - Paper Experiment (DNA sequence assembly)  325k v. 2 Mar 27, 2009, 6:05 PM Yuying Gosser
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Sanger DNA sequencing method  68k v. 2 Jul 27, 2009, 9:35 PM Yuying Gosser
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Two ways to sequence a genome  97k v. 2 Oct 16, 2009, 12:18 PM Yuying Gosser
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Lecture 2 Notes - Whole Genome Shotgun Sequencing  45k v. 2 Mar 27, 2009, 6:05 PM Yuying Gosser
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  123k v. 2 Mar 27, 2009, 6:12 PM Yuying Gosser
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  2395k v. 3 Mar 27, 2009, 6:12 PM Yuying Gosser
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Mass spectrometry and proteomics---by Cristina Clement  3297k v. 2 Mar 27, 2009, 6:04 PM Yuying Gosser
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  70k v. 2 Mar 27, 2009, 6:04 PM Yuying Gosser
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***(3 genes, lvl.1) March 09 Submitted Aug 09 Simone Alston  (Off GEP website)  83k v. 20 Mar 26, 2010, 10:48 AM Yuying Gosser
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***(4 genes, lvl.2) July 09 Submitted Aug 09Michael Ruan, Stuyvesant High School ‘10Md Azfar Basunia, Cardozo High School ‘10  (OFF GEP website)  93k v. 13 Mar 26, 2010, 10:48 AM Yuying Gosser
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***(2 genes, lvl.1) March 09 Submitted Aug 09 Sara Providence MACAULAY SUMMER SCHOLARS ACADEMY  (OFF GEP website)  80k v. 19 Mar 26, 2010, 10:49 AM Yuying Gosser
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*** (4 genes, lvl.2) July 09  68k v. 8 Mar 26, 2010, 10:50 AM Yuying Gosser
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http://gander.wustl.edu/cgi-bin/hgTracks?db=Dere3&position=fosmid31 Claimed Oct09 (6 genes lvl 2)  91k v. 3 Mar 26, 2010, 10:50 AM Yuying Gosser
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http://gander.wustl.edu/cgi-bin/hgTracks?db=Dere3&position=fosmid33 Claimed Oct09 (6 genes lvl 2) - Daphne & Sara  84k v. 6 Mar 26, 2010, 10:50 AM Yuying Gosser
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***(4 genes, lvl.2) July 09 Submitted Aug 09Joshua Higgins   (OFF GEP website)   77k v. 11 Mar 26, 2010, 10:48 AM Yuying Gosser
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http://gander.wustl.edu/cgi-bin/hgTracks?db=Dere3&position=fosmid40 Claimed Oct09 (6 genes lvl 2)  98k v. 5 Mar 26, 2010, 10:50 AM Yuying Gosser
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Claimed Spring 2009 - Lvl 2, 3 genes predicted (OFF GEP website)  1709k v. 6 Mar 26, 2010, 10:48 AM Yuying Gosser
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***(2 genes, lvl.1) Oct 08 Submitted Aug 09 Jack Li, Macaulay College Summer Academy   (OFF GEP website)  4502k v. 16 Mar 26, 2010, 10:48 AM Yuying Gosser
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***(1 gene, multiple isoforms) (OFF GEP website)   1125k v. 9 Mar 26, 2010, 10:48 AM Yuying Gosser
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http://gander.wustl.edu/cgi-bin/hgTracks?db=Dere2&position=contig34 Claimed Oct09 (3 genes lvl 2) Jaeseung  131k v. 5 Mar 26, 2010, 10:50 AM Yuying Gosser
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http://gander.wustl.edu/cgi-bin/hgTracks?db=Dere2&position=contig37 Aug2006 assembly (2 genes lvl 1) Claimed Oct 09 Zeng  51k v. 11 Mar 26, 2010, 10:51 AM Yuying Gosser
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1CEX catalytic triad  288k v. 2 Mar 26, 2010, 12:30 PM Yuying Gosser
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  181k v. 2 Mar 26, 2010, 12:30 PM Yuying Gosser
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  1481k v. 2 Mar 26, 2010, 12:30 PM Yuying Gosser
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PTGS2.pdb  1656k v. 2 Mar 26, 2010, 12:30 PM Yuying Gosser
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  1305k v. 3 Mar 26, 2010, 12:33 PM Yuying Gosser
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  650k v. 3 Mar 26, 2010, 12:33 PM Yuying Gosser
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Chromosome 10 demo updated  445k v. 2 Mar 20, 2009, 10:10 AM Alvin Lu
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The Gene Gateway Workbook from DOE website - <http://genomics.energy.gov/genegateway/>.  3987k v. 2 Mar 27, 2009, 6:07 PM Yuying Gosser
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Sci280 Syllabus  28k v. 2 Mar 27, 2009, 6:07 PM Yuying Gosser
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Fosmid 34 - 3 genes lvl 1  68k v. 3 Jul 13, 2009, 10:55 AM Alvin Lu
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Lecture 7 - Annotation Project Contig 12 Dot chromosome (4): Species D.erecta   1787k v. 4 Jul 13, 2009, 10:55 AM Alvin Lu
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Lecture 7 - Annotation Project Contig 9 Dot chromosome (4): Species D.erecta  (toy-RA, single isoform)  1081k v. 9 Jan 28, 2010, 11:34 AM Alvin Lu
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Just in case people forget which sequence they picked Summer 09  1k v. 4 Oct 23, 2009, 11:51 AM Alvin Lu
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Mariam's PPT  4204k v. 3 Oct 16, 2009, 9:56 AM Alvin Lu
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the protein_informatics_tutoril  57k v. 2 Jul 14, 2009, 6:04 AM Yuying Gosser
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Biochemistry and Genomics Glossary (alphabet)  138k v. 2 Jul 3, 2009, 12:41 PM Alvin Lu
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Biochemistry and genomics glossary by topic  98k v. 2 Jul 3, 2009, 12:41 PM Alvin Lu
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MIT_OCW_Mol_cloning_Bioinf  69k v. 2 Jul 30, 2009, 6:12 AM Yuying Gosser
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MIT_OCW_cloning_basic  59k v. 2 Jul 30, 2009, 6:12 AM Yuying Gosser
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Codon table  28k v. 3 Jul 3, 2009, 12:41 PM Alvin Lu
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Date: 7/8/2009; Do this in class or for homework.   23k v. 5 Jul 9, 2009, 6:57 AM Alvin Lu
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JCB paper of 1v26pdb which is the template of the homology modeling of ACLS3  1191k v. 2 Jul 27, 2009, 9:34 PM Yuying Gosser
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  797k v. 2 Aug 5, 2009, 11:10 PM Yuying Gosser
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protein structure reference online book content  113k v. 2 Jul 21, 2009, 5:44 PM Yuying Gosser
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Sci280 review (outline)  42k v. 2 Jul 3, 2009, 12:43 PM Alvin Lu
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Summer 2009 - Lecture 1  2956k v. 3 Jul 7, 2009, 7:08 AM Alvin Lu
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Summer 2009 - Lecture 2   1073k v. 2 Jul 7, 2009, 7:08 AM Alvin Lu
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Lecture4 Protein structure determination methods X-ray crystallography and NMR  3546k v. 2 Jul 21, 2009, 5:44 PM Yuying Gosser
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Lecture on non-coding RNA gene silening RNA structure modeling and siRNA design  2456k v. 2 Jul 27, 2009, 9:34 PM Yuying Gosser
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