We think you have liked this presentation. If you wish to download it, please recommend it to your friends in any social system. Share buttons are a little bit lower. Thank you!
Presentation is loading. Please wait.
supports HTML5 video
Published byKaylee Bird
Modified over 4 years ago
A B Supplementary Fig 1. RNA-seq data Mapping with Tophat/BowtieGet lincRNA probe list (Exclusive) Detect differentially expressed lincRNA Query lincRNA expression value UCSC database (affyU133Plus2, knownGene) Affymetrix microarray data (GENT database) Run Cufflinks with -G option (affyU133Plus.gtf from UCSC) Intersection by probe ID Putative differentially expressed lincRNA RNA-seq data Mapping with Tophat/Bowtie Assembling by Cufflinks without -G option UCSC database (affyU133Plus2, knownGene) Count reads on 200bp bins Get intergenic transcripts (Exclusive) Detect differentially expressed bins Select putative transcripts sharing genomic position Putative differentially expressed lincRNA
Supplementary Fig 2.
Supplementary Fig 3. 236118_at ch7_138 chr18: chr7: NT_1 NT_1 NT_2 NT_2 Tumor_1 Tumor_1 Tumor_2 Tumor_2 Tumor_3 Tumor_3 SNU484 SNU484 SNU601 SNU601 SNU668 SNU668
236118_at SNU-620 SNU-216 SNU-484 SNU-668 KATOIII MKN-1 AGS AK123079Supplementary Fig 4. 236118_at SNU-620 SNU-216 SNU-484 SNU-668 KATOIII MKN-1 AGS AK123079 BM742401 b-actin
ch7_138 chr7:138357000-138360000 R AK UP UP_AK098156_F + AK098156_RSupplementary Fig 5. ch7_138 chr7: R AK UP UP_AK098156_F + AK098156_R UP2_AK098156_F + AK098156_R ZC3HAViL_F + AK098156_R UP2 AK098156_F + AK098156_R ZC
Supplementary Fig 6. Breast GSE6532 GSE9195 GSE20711 rfs rfs mfs ovs p = 0.326 p = 0.045 p = 0.009 p = 0.257 Lung adenocarcinoma Multiple Myeloma Melanoma GSE31210 GSE2658 GSE19234 ovs ovs mfs p = p = 0.428 p = 0.383
A B C Supplementary Fig 7. MKN-1 siControl siRNA #1 siRNA #2 AK098156b-actin B Relative intensity C # of colonies colony size
A B Cell viability BM742401 control BM742401 b-actin C Colony formingSupplementary Fig 8. A B Cell viability BM742401 control BM742401 intensity b-actin C Colony forming control BM742401
Supplementary Fig 9. AGS Migration assay Control BM742401
Supplementary Fig 10. Invasion assay MKN-1 Control BM742401
Supplementary Fig 11. RT-PCR Immunoblot assay BM742401 control BM742401 control MMP9 236118_at MMP9 b-actin b-actin qRT-PCR ELISA p= 0.864 p = 0.631 DCt conc. (pg/ml) control BM742401
Supplementary Figure 1. Caspase 8 expression and activation and Fas expression in NSCLC and normal lung cell lines. A Western blot analysis of DR4 and.
Actin PEA Hey KOC-7c OVCA420 OVCA432 OVTOKO RMG-1 SKOV3.ip1 Supplementary Fig. S1. Expression level of endogenous PEA-15 in ovarian cancer cell.
Fig. S1 HUVECs HDFNs HUVECs HDFNs Transwell CM Relative total length ** * control 200ng/ml400ng/ml TIMP-1 100ng/ml * ** GFP WT Mutant TIMP-1 TIMP-1 **
Supplemental Fig. 1. Type-specific distribution of GO terms (GOSlim, Biological Processes, Cellular Component, Molecular Function assigned to each type.
RNA-seq library prep introduction
Serial Analysis of Gene Expression Velculescu, V., Zhang, L., Vogelstein, B. Kinzler, K. (1995) Science.
Supplementary Fig. 1. Transcriptome analysis of MENX-associated pituitary adenomas and and comparison with human studies. Control samples from wild-type.
RNA-Seq based discovery and reconstruction of unannotated transcripts
Supplementary Figure 1. AB Supplementary Figure 1. L1 and Alu retrotransposition assay. A. Schematic of L1 retrotransposition plasmid (L1). ORF1 and ORF2.
IMGS 2012 Bioinformatics Workshop: RNA Seq using Galaxy
Small RNA Analysis Gene 760 Jun Lu, PhD
Ovarian Cancer: How Basic Research Can Lead to New Opportunities for Early Detection and Treatment.
Gene regulation in cancer 11/14/07. Overview The hallmark of cancer is uncontrolled cell proliferation. Oncogenes code for proteins that help to regulate.
WT Hras G12V WT+TPA Hras G12V +TPA Hras G12V +TPA H&EKi67 Supplementary Fig 1: H&E and IHC staining for Ki67 in sections of mouse skin and papilloma from.
Transcriptomics Jim Noonan GENE 760.
RNA-Seq based discovery and reconstruction of unannotated transcripts in partially annotated genomes 3 Serghei Mangul*, Adrian Caciula*, Ion.
1 April, 2005 Chapter C4.1 and C5.1 DNA Microarrays and Cancer.
RNA-seq Analysis in Galaxy
mRNA-Seq: methods and applications
Supplementary Figure S1
© 2018 SlidePlayer.com Inc. All rights reserved.