'Biological replicates' presentation slideshows

Case Study I: Two-Sample Analysis

Case Study I: Two-Sample Analysis. Ru-Fang Yeh October 23, 2004 Genentech Hall Auditorium, Mission Bay, UCSF. Biological question. Experimental design. Microarray experiment. Failed. Quality Measurement. Image analysis. Preprocessing. Normalization. Pass. Sample/Condition

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First Thesis Advisor Committee Meeting

First Thesis Advisor Committee Meeting. Alejandro Reyes TAC members. DEXSeq, detecting differential usage of exons using RNA-seq. Exon usage and RNA-seq. Exon usage allows expansion of the eukaryotic proteome: Alternative first exons ( promoter )

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Genetic interactions

Genetic interactions. Wolfgang Huber EMBL Genome Biology Unit & EBI 23.9.2009. Complex traits. Do not follow Mendelian inheritance and result from multiple alleles Responsible alleles contribute different amounts to phenotype

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Design of Micro-arrays

Design of Micro-arrays. Lecture Topic 6. Experimental design. Proper experimental design is needed to ensure that questions of interest can be answered and that this can be done accurately , given experimental constraints, such as cost of reagents and availability of mRNA.

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Statistical Issues in the Design of Microarray Experiments

Statistical Issues in the Design of Microarray Experiments . Lara Lusa U.O. Statistica Medica e Biometria Istituto Nazionale per lo Studio e la Cura dei Tumori, Milano NETTAB 2003 Bologna, 28th November 2003. Outline. Biostatistics and microarrays Study objectives

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Rotation Tests - Computing exact adjusted p-values in multiresponse experiments

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Searching for TRAF6 in Aiptasia pallida

Searching for TRAF6 in Aiptasia pallida. Daryl Khaw Dr. Virginia Weis Department of Zoology. Purpose of Research in the Weis Lab. http://placestovisitbeforeidie.tumblr.com/. http://www.solcomhouse.com/coralreef.htm. Aiptasia pallida. Clonal reproduction Easily cultured in labs

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Chris Rhodes, Nicki Harmon Loyola Marymount University Department of Biology BIOL 368, 12/07/11

Differential expression of genes involved in metabolic and regulatory pathways in oxygen-limited M. smegmatis. Chris Rhodes, Nicki Harmon Loyola Marymount University Department of Biology BIOL 368, 12/07/11. Outline.

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Keynote Topics: 1. Human genome annotations: emergence of non-coding transcripts

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qPCR verification

qPCR verification. Samples: Each two biological replicates were chosen from time points d0(virgin), d17 and d19 Normalization: Several reference (housekeeping) genes were evaluated. Uxt was the only one with stable expression over all samples

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qPCR of Reprogramming Candidates

qPCR of Reprogramming Candidates. Samples: Each two biological replicates were used from time points d0(virgin), d10, d15, d17 and d19 Normalization: Samples are normalized to Uxt Values given are relative expression values (controlateral control/cleared) in log2 Notes:

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Root

12. OsGSTF12. OsGSTF17. 10. 8. 6. 4. 2. 0. YL. P1. P2. P3. P4. P5. P6. S1. S2. S3. S4. S5. ML. Ovary. Stigma. Root. SAM. YL. YL. YL. P1. P1. P1. P2. P2. P2. P3. P3. P3. P4. P4. P4. P5. P5. P5. P6. P6. P6. S1. S1. S1. S2. S2. S2. S3. S3. S3.

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Supplemental Figure 1

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Figure_SupFig1

sh RBFOX1. Figure_SupFig1. nt . A. B . RBFOX1. sh RBFOX1. shGFP. C. ?-actin. RBFOX1. AVG 1.00 0.17 SEM 0.34 0.14. ?-actin. AVG 0.76 1.00 0.38 SEM 0.17 0.11 0.08 Pval 0.32 - 1x10 -4. Supplemental Figure 1. RNA-interference knockdown of RBFOX1 .

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Additional File 7. Targeted K562s biological replicates B & C.

Additional File 7. Targeted K562s biological replicates B & C.

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Additional file Figure S2 . RT- qPCR verification of microarray data .

Additional file Figure S2 . RT- qPCR verification of microarray data . All genes except FIE and At5g10150 are PRC2 targets. Data is the mean of three biological replicates for QRT-PCR. De-regulation compared to wildtype is shown.

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1471-2164-14-292-s8

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1471 2180 11 85 s2

A. B. C.

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