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Substrates for helicase assays generated by PCR

Jae-Ho Shin, John N. Reeve & Zvi Kelman
Copyright information:Taken from "Use of a restriction enzyme-digested PCR product as substrate for helicase assays"Nucleic Acids Research 2005;33(1):e8-e8.Published online 13 Jan 2005PMCID:PMC546180.© 2005, the authors © A PCR product and its restriction fragment derivatives are shown. PCR reactions were performed as described in Materials and Methods with P-labeled primer, and products were purified using the QIAquick PCR purification kit (Qiagen) (lane 1) and digest with PstI (lane 2), EcoRI (lane 3) and SmaI (lane 4)...

Additional file 1: of Cold atmospheric plasma and silymarin nanoemulsion synergistically inhibits human melanoma tumorigenesis via targeting HGF/c-MET downstream pathway

Manish Adhikari, Neha Kaushik, Bhagirath Ghimire, Bhawana Adhikari, Sanjula Baboota, Abdulaziz Al-Khedhairy, Rizwan Wahab, Su-Jae Lee, Nagendra Kaushik & Eun Choi
Figure S1. Total cellular damage effects of the SN and CAP treatment of SK-MEL-5 cells. (TIF 133 kb)

Additional file 1: of Cold atmospheric plasma and silymarin nanoemulsion synergistically inhibits human melanoma tumorigenesis via targeting HGF/c-MET downstream pathway

Manish Adhikari, Neha Kaushik, Bhagirath Ghimire, Bhawana Adhikari, Sanjula Baboota, Abdulaziz Al-Khedhairy, Rizwan Wahab, Su-Jae Lee, Nagendra Kaushik & Eun Choi
Figure S1. Total cellular damage effects of the SN and CAP treatment of SK-MEL-5 cells. (TIF 133 kb)

Additional file 3: of Corrupted DNA-binding specificity and ectopic transcription underpin dominant neomorphic mutations in KLF/SP transcription factors

Melissa Ilsley, Stephen Huang, Graham Magor, Michael Landsberg, Kevin Gillinder & Andrew Perkins
Figure S3. 4sU-labeled RNA Enrichment. Validation by qRT-PCR of 4sU-RNA isolation from total RNA. Samples used for RNA-seq analysis were validated for enrichment of primary transcript (4sU-labeled) relative to mature Hprt (A) and E2f2 (B) transcripts. (JPG 305 kb)

Additional file 3: of Corrupted DNA-binding specificity and ectopic transcription underpin dominant neomorphic mutations in KLF/SP transcription factors

Melissa Ilsley, Stephen Huang, Graham Magor, Michael Landsberg, Kevin Gillinder & Andrew Perkins
Figure S3. 4sU-labeled RNA Enrichment. Validation by qRT-PCR of 4sU-RNA isolation from total RNA. Samples used for RNA-seq analysis were validated for enrichment of primary transcript (4sU-labeled) relative to mature Hprt (A) and E2f2 (B) transcripts. (JPG 305 kb)

Additional file 4: of Corrupted DNA-binding specificity and ectopic transcription underpin dominant neomorphic mutations in KLF/SP transcription factors

Melissa Ilsley, Stephen Huang, Graham Magor, Michael Landsberg, Kevin Gillinder & Andrew Perkins
Figure S4. Gene Set Analysis of KLF1-E339K-ER DEGs. Gene signatures from the analysis of K1-E339K-ER cells versus K1 were tested using the gene set analysis toolkit on the KEGG pathway using Entrez IDs (Additional file 6: Table S2). Significant enrichment (FDRâ

Additional file 4: of Corrupted DNA-binding specificity and ectopic transcription underpin dominant neomorphic mutations in KLF/SP transcription factors

Melissa Ilsley, Stephen Huang, Graham Magor, Michael Landsberg, Kevin Gillinder & Andrew Perkins
Figure S4. Gene Set Analysis of KLF1-E339K-ER DEGs. Gene signatures from the analysis of K1-E339K-ER cells versus K1 were tested using the gene set analysis toolkit on the KEGG pathway using Entrez IDs (Additional file 6: Table S2). Significant enrichment (FDRâ

Additional file 2: of Corrupted DNA-binding specificity and ectopic transcription underpin dominant neomorphic mutations in KLF/SP transcription factors

Melissa Ilsley, Stephen Huang, Graham Magor, Michael Landsberg, Kevin Gillinder & Andrew Perkins
Figure S2. Central enrichment of identified PWM. CentriMo analysis of PWM (motif) identified by MEME is found closest to the summit of ChIP-seq peaks for KLF1-E339K-ER (A) and KLF1-ER (B). (JPG 302 kb)

Additional file 1: of Corrupted DNA-binding specificity and ectopic transcription underpin dominant neomorphic mutations in KLF/SP transcription factors

Melissa Ilsley, Stephen Huang, Graham Magor, Michael Landsberg, Kevin Gillinder & Andrew Perkins
Figure S1. Inducible cell lines to study human CDA type IV. Full length western blot of nuclear extracts from cell lines generated in this study as shown in Fig. 1b. The blot shows presence of KLF1-ER in the nucleus after induction of 4-OHT (+) in a K1-ER cell line and 3 independent clones of the K1-E339K-ER cell line. (JPG 645 kb)

Additional file 1: of Corrupted DNA-binding specificity and ectopic transcription underpin dominant neomorphic mutations in KLF/SP transcription factors

Melissa Ilsley, Stephen Huang, Graham Magor, Michael Landsberg, Kevin Gillinder & Andrew Perkins
Figure S1. Inducible cell lines to study human CDA type IV. Full length western blot of nuclear extracts from cell lines generated in this study as shown in Fig. 1b. The blot shows presence of KLF1-ER in the nucleus after induction of 4-OHT (+) in a K1-ER cell line and 3 independent clones of the K1-E339K-ER cell line. (JPG 645 kb)

Additional file 2: of Corrupted DNA-binding specificity and ectopic transcription underpin dominant neomorphic mutations in KLF/SP transcription factors

Melissa Ilsley, Stephen Huang, Graham Magor, Michael Landsberg, Kevin Gillinder & Andrew Perkins
Figure S2. Central enrichment of identified PWM. CentriMo analysis of PWM (motif) identified by MEME is found closest to the summit of ChIP-seq peaks for KLF1-E339K-ER (A) and KLF1-ER (B). (JPG 302 kb)

Additional file 5: of A deficiency in SUMOylation activity disrupts multiple pathways leading to neural tube and heart defects in Xenopus embryos

Michelle Bertke, Kyle Dubiak, Laura Cronin, Erliang Zeng & Paul Huber
Table S2. Gene Lists Constituting the Biological Processes Most Affected by Loss of SUMOylation Activity. (TIF 66126 kb)

Additional file 6: of A deficiency in SUMOylation activity disrupts multiple pathways leading to neural tube and heart defects in Xenopus embryos

Michelle Bertke, Kyle Dubiak, Laura Cronin, Erliang Zeng & Paul Huber
Table S3. Biological Processes Associated with Transcription Factors Identified in Network Building. (TIF 21375 kb)

Additional file 7: of A deficiency in SUMOylation activity disrupts multiple pathways leading to neural tube and heart defects in Xenopus embryos

Michelle Bertke, Kyle Dubiak, Laura Cronin, Erliang Zeng & Paul Huber
Table S4. SUMO Targets Sites and SUMO Interaction Motifs (SIM) in Top Transcription Factors from Network Building. (TIF 21809 kb)

Additional file 7: of A deficiency in SUMOylation activity disrupts multiple pathways leading to neural tube and heart defects in Xenopus embryos

Michelle Bertke, Kyle Dubiak, Laura Cronin, Erliang Zeng & Paul Huber
Table S4. SUMO Targets Sites and SUMO Interaction Motifs (SIM) in Top Transcription Factors from Network Building. (TIF 21809 kb)

Additional file 5: of A deficiency in SUMOylation activity disrupts multiple pathways leading to neural tube and heart defects in Xenopus embryos

Michelle Bertke, Kyle Dubiak, Laura Cronin, Erliang Zeng & Paul Huber
Table S2. Gene Lists Constituting the Biological Processes Most Affected by Loss of SUMOylation Activity. (TIF 66126 kb)

Additional file 6: of A deficiency in SUMOylation activity disrupts multiple pathways leading to neural tube and heart defects in Xenopus embryos

Michelle Bertke, Kyle Dubiak, Laura Cronin, Erliang Zeng & Paul Huber
Table S3. Biological Processes Associated with Transcription Factors Identified in Network Building. (TIF 21375 kb)

Additional file 1: of Prognostic significance of lung radiation dose in patients with esophageal cancer treated with neoadjuvant chemoradiotherapy

Jhen-Bin Lin, Li-Chung Hung, Ching-Yuan Cheng, Yu-An Chien, Chou-Hsien Lee, Chia-Chun Huang, Tsai-Wei Chou, Ming-Huei Ko, Yuan-Chun Lai, Mu-Tai Liu, Tung-Hao Chang, Jie Lee & Yu-Jen Chen
Figure. S1. Figure showing the isodose line of 20â Gy (outlined in yellow) and 5â Gy (outlined in blue) in radiotherapy planning. Esophageal cancer is outlined in green and the prescribed dose is 48â Gy. (TIF 1748 kb)

Additional file 2: of Impact of blood glucose levels on the accuracy of urinary N-acety-β-D-glucosaminidase for acute kidney injury detection in critically ill adults: a multicenter, prospective, observational study

Lin Wang, Yujun Deng, Yiling Zhai, Feng Xu, Jinghua Li, Danqing Zhang, Lu Gao, Yating Hou, Xin OuYang, Linhui Hu, Jie Yuan, Heng Ye, Ruibin Chi & Chunbo Chen
Figure S1. Concentration of uNAG for non-diabetic patients stratified according to admission serum glucose. (TIF 327 kb)

Additional file 2: of Impact of blood glucose levels on the accuracy of urinary N-acety-β-D-glucosaminidase for acute kidney injury detection in critically ill adults: a multicenter, prospective, observational study

Lin Wang, Yujun Deng, Yiling Zhai, Feng Xu, Jinghua Li, Danqing Zhang, Lu Gao, Yating Hou, Xin OuYang, Linhui Hu, Jie Yuan, Heng Ye, Ruibin Chi & Chunbo Chen
Figure S1. Concentration of uNAG for non-diabetic patients stratified according to admission serum glucose. (TIF 327 kb)

Additional file 1: of Prognostic significance of lung radiation dose in patients with esophageal cancer treated with neoadjuvant chemoradiotherapy

Jhen-Bin Lin, Li-Chung Hung, Ching-Yuan Cheng, Yu-An Chien, Chou-Hsien Lee, Chia-Chun Huang, Tsai-Wei Chou, Ming-Huei Ko, Yuan-Chun Lai, Mu-Tai Liu, Tung-Hao Chang, Jie Lee & Yu-Jen Chen
Figure. S1. Figure showing the isodose line of 20â Gy (outlined in yellow) and 5â Gy (outlined in blue) in radiotherapy planning. Esophageal cancer is outlined in green and the prescribed dose is 48â Gy. (TIF 1748 kb)

Additional file 3: of Transcriptional analysis of renal dopamine-mediated Na+ homeostasis response to environmental salinity stress in Scatophagus argus

Maoliang Su, Jianan Zhou, Zhengyu Duan & Junbin Zhang
Figure S3. GO classification of unigenes. The results for ‘biological process (BP)’, ‘cellular component (CC)’ and ‘molecular function (MF)’ terms were summarized. (TIF 1925 kb)

Additional file 1: of Transcriptional analysis of renal dopamine-mediated Na+ homeostasis response to environmental salinity stress in Scatophagus argus

Maoliang Su, Jianan Zhou, Zhengyu Duan & Junbin Zhang
Figure S1. Length distribution of unigenes. Consensus sequence lengths ranged from 250 bp to greater than 2000 bp. The number of unigenes for each length range is indicated above each column. Unigenes with an average length of 250 bp were the most abundant (135,879), whereas unigenes with an average length of 1590 bp were the least abundant (2735). Sequences longer than 2000 bp were grouped together. The number of sequences decreased as length increased. (TIF 1027 kb)

Additional file 2: of Transcriptional analysis of renal dopamine-mediated Na+ homeostasis response to environmental salinity stress in Scatophagus argus

Maoliang Su, Jianan Zhou, Zhengyu Duan & Junbin Zhang
Figure S2. Characteristics of the homology search for Illumina sequences against the NCBI-NR database. Species distribution is shown as a percentage of the total homologous sequences with an E-value â ¤1e-6. All proteins in the NCBI-NR database were used in the homology search. The best sequence hits were selected for analysis. (TIF 87320 kb)

Additional file 4: of Transcriptional analysis of renal dopamine-mediated Na+ homeostasis response to environmental salinity stress in Scatophagus argus

Maoliang Su, Jianan Zhou, Zhengyu Duan & Junbin Zhang
Figure S4. Eukaryotic orthologous group (KOG) classification of the assembled unigenes in S. argus. (TIF 22535 kb)

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