2022
HS Lim, E Sohn, YJ Kim, BY Kim… - Natural Product …, 2022 - journals.sagepub.com
… Normalized data were analyzed using Genowiz 4.0 (Ocimum Biosolutions). The
normalization decides the average intensity of all samples numerically equivalent to the average …
SH Beak, M Baik - Animal Bioscience, 2022 - ncbi.nlm.nih.gov
… The read count data were processed based on the quantile normalization method using
Genowiz ver. 4.0.5.6 (Ocimum Biosolutions, Hyderabad, India). For functional annotation, we
Anti-obesity effect of sulforaphane in broccoli leaf extract on 3T3-L1 adipocytes and ob/ob mice
SS Ranaweera, P Natraj, P Rajan… - The Journal of …, 2022 - Elsevier
… The read count data were processed based on Quantile normalization method using the
Genowiz version 4.0.5.6 (Ocimum Biosolutions, India). The PPI network was analyzed using …
2021
Blue laser-induced selective vasorelaxation by the activation of NOSs
SW Park, S Park, HK Choi, HJ Park, W Yu, HS Kim… - Microvascular …, 2021 - Elsevier
… The RC (Read Count) data were processed based on Global normalization method using
the Genowiz ™ version 4.0.5.6 (Ocimum Biosolutions, India). Gene classification was based
[HTML] Association of protein Z with prediabetes and type 2 diabetes
YU Bae, JH You, NH Cho, LE Kim… - Endocrinology and …, 2021 - ncbi.nlm.nih.gov
… The numerical data were analyzed using the Genowiz 4.0 software (Ocimum Biosolutions,
Indianapolis, IN, USA). After analysis, the data on protein information were annotated using …
[HTML] Restoration of the adipogenic gene expression by naringenin and naringin in 3T3-L1 adipocytes
LA Dayarathne, SS Ranaweera, P Natraj… - Journal of Veterinary …, 2021 - ncbi.nlm.nih.gov
… The RT (read count) data were processed based on the quantile normalization method
using the Genowiz version 4.0.5.6 (Ocimum Biosolutions, India). Gene classification was …
SJ Yin, MW Park, BN Lee, JM Yang… - Journal of …, 2021 - Taylor & Francis
… The numeric data were analyzed using Genowiz 4.0 TM (Ocimum Biosolutions, India). After
… Data were normalized with Genowiz 4.0 TM (Ocimum Biosolutions, India) software. Scatter …
[HTML] Association of protein Z with prediabetes and type 2 diabetes
YU Bae, JH You, NH Cho, LE Kim… - Endocrinology and …, 2021 - ncbi.nlm.nih.gov
… The numerical data were analyzed using the Genowiz 4.0 software (Ocimum Biosolutions,
Indianapolis, IN, USA). After analysis, the data on protein information were annotated using …
2020
SJ Yin, JR Lee, H Kwak, BN Lee, JW Han… - Journal of …, 2020 - Taylor & Francis
… The numeric data were analyzed using Genowiz 4.0™ (Ocimum Biosolutions, India). After …
Data were normalized with Genowiz 4.0™ (Ocimum Biosolutions, India) software. Scatter plot …
ES Lee, EJ Song, YD Nam, TG Nam, HJ Kim… - International Journal of …, 2020 - Elsevier
… The read count data were processed based on the global normalization method using
Genowiz version 4.0.5.6 (Ocimum Biosolutions, Hyderabad, India). Gene classification was based …
HTML] Anti-inflammatory effect of sulforaphane on LPS-stimulated RAW 264.7 cells and ob/ob mice
SS Ranaweera, CY Dissanayake, P Natraj… - Journal of veterinary …, 2020 - ncbi.nlm.nih.gov
… The Read count (RT) data were analyzed based on the Quantile normalization method
using the Genowiz™ version 4.0.5.6 (Ocimum Biosolutions, India). The PPI network was …
SH Beak, M Baik - Animal Bioscience, 2022 - ncbi.nlm.nih.gov
… The read count data were processed based on the quantile normalization method using
Genowiz ver. 4.0.5.6 (Ocimum Biosolutions, Hyderabad, India). For functional annotation, we …
KH Han, AK Kim, MH Kim, DH Kim, HN Go, D Kang… - Tissue and Cell, 2017 - Elsevier
… The numeric data were analyzed with Genowiz 4.0TM (Ocimum Biosolutions, India) and
protein information was annotated by means of the UniProt DB. The phosphorylation ratio was
E You, P Ko, J Jeong, S Keum, JW Kim, YJ Seo… - Cellular and Molecular …, 2020 - Springer
… The Read Count data were processed based on the Global normalization method using
the Genowiz™ version 4.0.5.6 (Ocimum Biosolutions, India). Hierarchical clustering analysis
2019
KH Han, AK Kim, GJ Jeong, HR Jeon… - … journal of stem cells, 2019 - ncbi.nlm.nih.gov
… The data were analyzed using Genowiz 4.0TM (Ocimum Biosolutions, India) and proteins
that were upregulated or downregulated in H-CM compared with N-CM (>1.5 fold) were …
MJ An, DH Kim, CH Kim, M Kim, S Rhee, SB Seo… - Biochemical and …, 2019 - Elsevier
… The RC (Read Count) data were processed based on Quantile normalization method using
the Genowiz™ version 4.0.5.6 (Ocimum Biosolutions, India). Gene classification and gene …
HS Lim, YJ Kim, E Sohn, J Yoon… - Experimental …, 2019 - journals.sagepub.com
… Data normalization was conducted using the Genowiz 4.0 (Ocimum Biosolutions, Gaithersburg,
MD) and determined the average intensity of samples comparable to that of all genes. …
Dexamethasone induces a specific form of ramified dysfunctional microglia
MJ Park, HS Park, MJ You, J Yoo, SH Kim… - Molecular …, 2019 - Springer
… The RT (Read Count) data were processed based on global normalization method using
the Genowiz™ version 4.0.5.6 (Ocimum Biosolutions, India). Gene classification was based on …
2018
Histone demethylase KDM7A controls androgen receptor activity and tumor growth in prostate cancer
KH Lee, S Hong, M Kang, CW Jeong… - … Journal of Cancer, 2018 - Wiley Online Library
… The RT (Read Count) data were processed based on Global normalization method using
the Genowiz ™ version 4.0.5.6 (Ocimum Biosolutions, India). We performed gene clustering …
MK Yadav, JE Vidal, YY Go, SH Kim… - Frontiers in cellular …, 2018 - frontiersin.org
… The microarray data were analyzed using Genowiz 4.0™ (Ocimum Biosolutions,
Hyderabad, India), and normalized with Global LOWESS. The cutoffs for upregulated and …
HS Lim, BY Kim, YJ Kim, SJ Jeong - Behavioural Brain Research, 2018 - Elsevier
… Normalized data were analyzed using Genowiz 4.0 (Ocimum Biosolutions, India). The
normalization makes the average intensity of all samples numerically equivalent to the average …
Licochalcone A attenuates acne symptoms mediated by suppression of NLRP3 inflammasome
G Yang, HE Lee, SH Yeon, HC Kang… - Phytotherapy …, 2018 - Wiley Online Library
… The RT (Read Count) data were processed based on Quantile normalization method
using the Genowiz ™ version 4.0.5.6 (Ocimum Biosolutions, Hyderabad, India). …
2017
KH Han, AK Kim, GJ Jeong, HR Jeon… - … journal of stem cells, 2019 - ncbi.nlm.nih.gov
… The data were analyzed using Genowiz 4.0TM (Ocimum Biosolutions, India) and proteins
that were upregulated or downregulated in H-CM compared with N-CM (>1.5 fold) were
S Singh, D Singh, S Kumar - Process Biochemistry, 2017 - Elsevier
… 288 bp of CsPPO. In addition, codons were optimized for the expression of CsPPO synin E. coli using OptGene™ (Ocimum Biosolutions, USA) as mentioned in supplementary data (Supplementary Fig. 1). CsPPO syn was synthesized …
JH Yim, JM Yun, JY Kim, SY Nam… - International Journal of …, 2017 - Taylor & Francis
… , the normalization data were analyzed using Genewiz 4.0™ (Ocimum Biosolution, India). All
… The numerical data were analyzed using Genexiz 4.0™ (Ocimum Biosolutions, India). After …
Save Cite Cited by 9 Related articles All 3 versions
JS Suh, HJ Lee, H Nam, BS Jo, DW Lee, JH Kim… - Biochemical and …, 2017 - Elsevier
… The numeric data were analyzed using Genowiz 4.0TM (Ocimum Biosolutions, Hyderabad,
India). Phosphorylation ratio was calculated as below. phosphorylation ratio = phospho …
[HTML] Characteristics of a regulator of G-protein signaling (RGS) rgsC in Aspergillus fumigatus
Y Kim, IB Heo, JH Yu, KS Shin - Frontiers in microbiology, 2017 - frontiersin.org
… Loess normalization and selection of fold-changed genes were performed using GenoWiz
4.0 (Ocimum biosolutions, India). The data is available in the Gene Expression Omnibus (GEO…
An ultra-effective method of generating extramultipotent cells from human fibroblasts by ultrasound
YS Lee, H Heo, J Lee, SU Moon, WY Jung, YK Park… - Biomaterials, 2017 - Elsevier
… The RC (Read Count) data were processed based on the quantile normalization method
using Genowiz ™ version 4.0.5.6 (Ocimum Biosolutions, India). Gene classification was based
KH Han, AK Kim, MH Kim, DH Kim, HN Go, D Kang… - Tissue and Cell, 2017 - Elsevier
… The numeric data were analyzed with Genowiz 4.0TM (Ocimum Biosolutions, India) and
protein information was annotated by means of the UniProt DB. The phosphorylation ratio was …
NK Soni - Asian Journal of Pharmaceutics (AJP): Free full …, 2017 - asiapharmaceutics.info
… Microarray data analysis was done by Genowiz software. Mycobacterium sp. data were
taken from GEO database (NCBI-DataSet Record GDS326) to focus on the DNA repair …
JH Yim, JM Yun, JY Kim, IK Lee… - Journal of Radiation …, 2017 - academic.oup.com
… The numerical data were analyzed using Genowiz 4.0 TM (Ocimum Biosolutions, India).
After these analyses, the protein information was annotated using the UniProt database. The …
An ultra-effective method of generating extramultipotent cells from human fibroblasts by ultrasound
YS Lee, H Heo, J Lee, SU Moon, WY Jung, YK Park… - Biomaterials, 2017 - Elsevier
… The RC (Read Count) data were processed based on the quantile normalization method
using Genowiz ™ version 4.0.5.6 (Ocimum Biosolutions, India). Gene classification was based …
V Jain, B Das - PloS one, 2017 - journals.plos.org
… Bioinformatic analysis was carried out using Genowiz ™ ver. 4.0 (Ocimum Biosolutions,
Hyderabad, India) software. In the present study, for GO analysis, the data from Gene Ontology …
Cdon deficiency causes cardiac remodeling through hyperactivation of WNT/β-catenin signaling
MH Jeong, HJ Kim, JH Pyun, KS Choi… - Proceedings of the …, 2017 - National Acad Sciences
… The RT (read count) data were processed based on the quantile normalization method
using Genowiz version 4.0.5.6 (Ocimum Biosolutions). …
[HTML] Development of zebrafish medulloblastoma-like PNET model by TALEN-mediated somatic gene inactivation
J Shim, JH Choi, MH Park, H Kim, JH Kim, SY Kim… - Oncotarget, 2017 - ncbi.nlm.nih.gov
… The RT (Read Count) data were processed based on Quantile normalization method
using the Genowiz ™ version 4.0.5.6 (Ocimum Biosolutions). Cytoscape (version 2.7, http://www.…
Transforming growth factor-β promotes liver tumorigenesis in mice via up-regulation of snail
H Moon, HL Ju, SI Chung, KJ Cho, JW Eun, SW Nam… - Gastroenterology, 2017 - Elsevier
… The RT (Read Count) data were processed based on Quantile normalization method
using the Genowiz version 4.0.5.6 (Ocimum Biosolutions, Hyderabad, India). Gene functional …
2016
HJ Hwang, SH Jung, HC Lee, NK Han… - Oncology …, 2016 - spandidos-publications.com
… The obtained numerical data were analyzed using Genowiz 4.0™ (Ocimum Biosolutions,
Indianapolis, IN, USA). Following analysis, the protein data were annotated using UniProt DB (…
S Lee, J Jang, H Jeon, J Lee, SM Yoo, J Park… - Journal of …, 2016 - Springer
… The numeric data were analyzed using Genowiz 4.0TM (Ocimum Biosolutions). The array
data were deposited in NCBI’s Gene Expression Omnibus (GEO) and can be accessed by
MG Jung, SS Kim, JH Yu, KS Shin - PLoS One, 2016 - journals.plos.org
… Loess normalization and selection of fold-changed genes were performed using GenoWiz
4.0 (Ocimum biosolutions, India). The data is available in the Gene Expression Omnibus (GEO…
KM Lee, M Lee, J Lee, SW Kim, HG Moon, DY Noh… - Oncotarget, 2016 - ncbi.nlm.nih.gov
… The numeric data were analyzed using the Genowiz 4.0 software (Ocimum Biosolutions,
India), and protein data were annotated using the UniProt DB (www.uniprot.org). …
2015
Process for designing diverged, codon-optimized large repeated dna sequences
DJ Merlo, I Larrinua, S Bevan - US Patent App. 14/415,115, 2015 - Google Patents
… sequence according to predetermined parameters. In particular embodiments, the computer-implemented software program may be OPTGENE™ (available from Ocimum Biosolutions). A sample amino acid repeat sequence.
MS Lee, JH Kim, JS Lee, SJ Yun, WJ Kim, H Ahn… - PLoS …, 2015 - journals.plos.org
… The numeric data were analyzed using Genowiz 4.0 (Ocimum Biosolutions, India). Global
normalization was used for data analysis. A 2-class t-test or paired t-test was performed to …
S Kim, Y Yoon, KH Choi - PloS one, 2015 - journals.plos.org
… The microarray data were normalized and analyzed using Genowiz 4.0 (Ocimum
Biosolutions, India). Total 5544 genes were analyzed, and among these, the comparative …
DK Sung, YS Chang, SY Ahn, SI Sung, HS Yoo… - PloS one, 2015 - journals.plos.org
… All genes meeting the cut-off criteria were further analyzed by hierarchical clustering and
K-means clustering using the GENOWIZ Data Mining Tool (Ocimum Biosolutions, India). For …
MK Yadav, YY Go, SW Chae, JJ Song - PLoS One, 2015 - journals.plos.org
… All data normalization and the selection of differentially expressed genes were performed
using GenoWiz 4.0 (Ocimum Biosolutions, India). Genes were filtered by removing flag-out …
S Muthulakshmi, AK Chakrabarti… - Journal of physiology and …, 2015 - Springer
… Genowiz microarray data analysis was employed with pathway analysis tool (Ocimum
Biosolutions, Hyderabad, India) for the data analysis of microarray experiments. Genes with …
[HTML] Deoxycytidine production by a metabolically engineered Escherichia coli strain
JS Kim, BS Koo, HH Hyun… - Microbial cell …, 2015 - microbialcellfactories.biomedcentral …
… Microarray data analysis was carried out by Genowiz 4.0™ (Ocimum Biosolutions, India).
The mean signal intensity values of the duplicate spots were averaged (A value = [(Cy5 signal …
[HTML] Role of AcsR in expression of the acetyl-CoA synthetase gene in Vibrio vulnificus
MJ Kim, J Kim, HY Lee, HJ Noh, KH Lee, SJ Park - BMC microbiology, 2015 - Springer
… Normalization was carried out using global loess algorithm [60] using Genowiz 4.0 TM (Ocimum
Biosolutions). The averages of the normalized ratios were calculated by dye-normalized
2014
WA Laviña, H Shahsavarani, A Saidi… - Journal of bioscience …, 2014 - Elsevier
… Gene enrichment analysis using Genowiz The microarray data were analyzed for distinctive
expression using Genowiz 4.0 (Ocimum Biosolutions, India). Replicated gene values were …
SJ Yin, D Park, YX Si, HY Chung, YD Park… - Process Biochemistry, 2014 - Elsevier
… Sample normalization was performed with Genowiz 4.0™ (Ocimum Biosolutions, India)
software. … Data were normalized with Genowiz 4.0™ (Ocimum Biosolutions, India) software. …
2013
HS Heo, E Kim, SM Jeon, EY Kwon, SK Shin, H Paik… - Molecules and …, 2013 - Springer
… 1. Clustering of hepatic gene transcripts For clustering of hepatic gene transcripts, the Self-Organizing Map (SOM) algorithm (Quackenbush, 2001) was applied. We used Genowiz (Ocimum Biosolutions, India) with the SOM tool to arrange all data samples …Cited by 8 Related articles
WA Laviña, M Sugiyama, Y Kaneko… - Journal of bioscience and …, 2013 - Elsevier
… All strains were cultivated in YPDA media and calcium treatment was done by supplementing the YPDA medium with 0.3 M CaCl 2 . Four independent DNA microarray data were analyzed using Genowiz (Ocimum Biosolutions) …
P Sharma, H Lata, DK Arya, AK Kashyap… - Journal of Biological …, 2013 - ASBMB
… Hybridized chips were scanned using an Affymetrix 428TMArray scanner at three different PMT gains, and the images were analyzed using Genowiz software (Ocimum Biosolutions). Analysis was performed to detect differentially expressed genes among the groups …Cited by 27 Related articles
P Nair, A Misra, A Singh, AK Shukla, MM Gupta… - PLoS …, 2013 - journals.plos.org
… chip. Hybridized chips were scanned using Affymetrix 428TM Array Scanner at three different PMT gains (40, 50 and 60) and the data was analyzed using Genowiz software (Ocimum Biosolutions, Hyderabad). Image analysis …
WA Laviña, H Shahsavarani, A Saidi, M Sugiyama… - 2013 - researchgate.net
… was performed in triplicates. Gene enrichment analysis using Genowiz The microarray data were analyzed for distinctive expression using Genowiz 4.0 (Ocimum Biosolutions, India). Replicated gene values were combined …
Decreased defense gene expression in tolerance versus resistance to Verticillium dahliae in potato
HH Tai, C Goyer, D De Koeyer, A Murphy… - Functional & integrative …, 2013 - Springer
… Analysis of microarray data. Microarray data were analyzed using the Genowiz 4.0 software (Ocimum Biosolutions, Gaithersburg, MD, USA). Double channel analysis of 07506-01 and 12120-03 data was done using print-tip loess normalization with a smoothing factor of 0.1 … Cited by 11
P Shyamsunder, P Vidyasekar, AR Shukla, S Mohan… - Gene, 2013 - Elsevier
… The statistical analysis was carried out using R package and the biological analysis was carried out using Genowiz software (Ocimum Biosolutions, USA) and Gene Spring GX 10 (Agilent Technologies, USA). 2.5. Gene ontology analysis … Cited by 14 Related articles
BR Oh, WK Hong, SY Heo, M Joe, JW Seo… - Journal of industrial …, 2013 - Springer
… expression ratios (reference vs. test) were obtained. Microarray data analysis was performed using Genowiz 4.0 (Ocimum Biosolutions, Hyderabad, India). Global lowess was used for data analysis with normalization. The cut-offs for …Cited by 6 Related articles
[HTML] Escherichia coli YmdB regulates biofilm formation independently of its role as an RNase II modulator
T Kim, J Lee, K Kim - BMC microbiology, 2013 - bmcmicrobiol.biomedcentral.com
… ratios (reference vs. test sample). Microarray data analysis was performed using Genowiz 4.0™ (Ocimum Biosolutions). Global lowess (Locally weighted scatter plot smoothing) method was used for data normalization. The cut-off … Cited by 7 Related articles All 11 versions
Identification of novel target genes involved in Indian Fanconi anemia patients using microarray
P Shyamsunder, KS Ganesh, P Vidyasekar, S Mohan… - Gene, 2013 - Elsevier
… obtained. The statistical analysis was carried out using the R package and the biological analysis was carried out using Genowiz TM software (Ocimum Biosolutions, USA). 2.4. Functional clustering and gene ontology analysis … Cited by 8 Related articles All 6 versions
2012
[PDF] Functional annotation of expressed sequence tags of Papaver somniferum
A Priya, H Tripathi, DK Yadav, F Khan, V Gupta… - Plant Omics, 2012 - pomics.com
... sequences retrieved from dbEST were cleaned, clustered and assembled through PHRED (Ewing and Green, 1998), RepeatMasker, Cross-Match, PHRAP and CAP3 (Huang and Madan, 1999) softwares with the help of Gencheck software (Ocimum Biosolutions, USA; www …
Gene expression profile of early in vitro biofilms of Streptococcus pneumoniae
MK Yadav, SK Kwon, CG Cho, SW Park… - Microbiology and …, 2012 - Wiley Online Library
… ratios (planktonic vs biofilm samples). Microarray data analysis was carried out by Genowiz 4.0 (Ocimum Biosolutions, Hyderabad, India). Global Lowess was used for data analysis with normalization. The benchmarks for up …Cited by 19 Related articles All 11 versions
HJ Sung, J Kim, Y Kim, SW Jang, J Ko - Molecular biology reports, 2012 - Springer
… Data were analyzed by Genowiz 4.0 TM (Ocimum Biosolutions, Hyderabad, India) and normalized using intensity-dependent global normalization (LOWESS). To categorize the functional annotation of genes, the database of Gene Ontology TM Consortium was applied …Cited by 15 Related articles All 11 versions
The effect of secretory factors of adipose-derived stem cells on human keratinocytes
KM Moon, YH Park, JS Lee, YB Chae, MM Kim… - International journal of …, 2012 - mdpi.com
The beneficial effects of adipose-derived stem cell conditioned medium (ADSC-CM) on skin regeneration have been reported. Although the mechanism of how ADSC-CM promotes skin regeneration is unclear, ADSC-CM contained various growth factors and it is an excellent raw …Cited by 90 Related articles All 16 versions
[PDF] Differential Gene Expression Profile in Essential Hypertension
P Yang - Genetics and Pathophysiology of Essential …, 2012 - intechopen.com
… rats treated with FPTIII kidney Codelink Uniset Rat 1Bioarrays Affymetrix Scanner 428, Imagene and Genowiz softwares by Ocimum Biosolutions (India) and subjected to arsinh transformation 2398 genes were upregulated and …Related articles All 3 versions
KA Schat, J Bingham, JM Butler, LM Chen, S Lowther… - PloS one, 2012 - journals.plos.org
Highly pathogenic H5N1 avian influenza viruses have caused major disease outbreaks in domestic and free-living birds with transmission to humans resulting in 59% mortality amongst 564 cases. The mutation of the amino acid at position 627 of the viral polymerase basic-2 protein …Cited by 39 Related articles All 21 versions
D Frank - 2012 - qspace.library.queensu.ca
… Page 30. ` 19 Microarray analysis Microarray data were analyzed using the Genowiz 4.1 software (Ocimum Biosolutions, Madhapur, Hyderabad). For double channel analysis, data was normalized using print-tip lowess normalization with a smoothing factor of 0.1 …Related articles All 2 versions
S Mukherjee, S Majumdar, VC Vipat… - Virology …, 2012 - virologyj.biomedcentral.com
The Non-Structural (NS1) protein of Influenza A viruses is an extensively studied multifunctional protein which is commonly considered as key viral component to fight against host immune responses. Even though there has been a lot of studies on the involvement of NS1 protein …Cited by 14 Related articles All 19 versions
김승민 - 2012 - s-space.snu.ac.kr
Page 1. 저작자표시-비영리-변경금지 2.0 대한민국 이용자는 아래의 조건을 따르는 경우에 한하여 자유롭게 ● 이 저작물을 복제, 배포, 전송, 전시, 공연 및 방송할 수 있습니다. 다음과 같은 조건을 따라야 합니다: ● 귀하는, 이 저작물의 …
[PDF] Yersiniosis and Food Safety
K Isshiki, RC Ray, D Montet - downloads.hindawi.com
Page 1. Journal of Pathogens Guest Editors: Latiful Bari, Dike O. Ukuku, Kenji Isshiki, Ramesh C. Ray, and Didier Montet Yersiniosis and Food Safety Page 2. Yersiniosis and Food Safety Page 3. Journal of Pathogens Yersiniosis and Food Safety …Related articles
2011
HTML] A review on worldwide essential software resources in pharmacy
PY Mali, SJ Panchal - Chronicles of Young Scientists, 2011 - cysonline.org
... history recording, etc. http://www.applied-maths.com/gelcompar/gelcompar.htm GenchekIt is an integral database system that can used to access, store, organize and retrieve DNA, protein and vector sequences. http://www.ocimumbio ...Related articles All 2 versions Cite
Differentially expressed genes in sensitive and tolerant rice varieties in response to salt-stress
A Pandit, V Rai, TR Sharma, PC Sharma… - Journal of plant …, 2011 - Springer
… genes. The array data were analyzed using GeneChip Operating Software (GCOS 1.2) and Genowiz software (Ocimum Biosolutions, India). Robust multichip average (RMA) algorithm method was used for normalization. Two
Cited by 24 Related articles All 7 versions
DK Kim, SJ Hong, JH Bae, N Yim, ES Jin… - Biotechnology and …, 2011 - Springer
… sample). Microarray data analysis was carried out by Genowiz 4.0TM (Ocimum Biosolutions,India). Global LOWESS was used for data analysis with normalization. The benchmarks for up-regulated and down-regulated genes in hybridization were 2.0 and 0.5-fold, respectively …Cited by 30 Related articles All 7 versions
MS GEIER, TM CROWLEY - 22 nd ANNUAL AUSTRALIAN POULTRY … - researchgate.net
… Statistical tests were carried out using Genowiz Version 4.0. 5.3 (Ocimum Biosolutions) to determine all genes that were differentially expressed (p= 0.01) between the groups under consideration, either high and low AME groups or good and poor FCR groups …Related articles All 3 versions
S Mukherjee, VC Vipat, AC Mishra… - Virology …, 2011 - virologyj.biomedcentral.com
… Data Analysis. Microarray data analysis was carried out with GENOWIZ Microarray data and pathway analysis tool (Ocimum Biosolutions, Hyderabad, India). Replicated values for genes were merged and median values of the expression ratios were considered for the dataset …Cited by 27 Related articles All 19 versions
R Wenne, L Handschuh, A Pocwierz-Kotus… - Marine Biology …, 2011 - Taylor & Francis
… After normalization (double-channel normalization between arrays based on subtraction of control probe mean, followed by log2-transformation) using Genowiz 4.0 software (Ocimum Biosolutions), the probe intensity data was analysed using R (http:// www.R-project.org; R …Cited by 3 Related articles All 5 versions
CS Vasamsetty, SR Peri, AA Rao, K Srinivas… - International Journal of …, 2011 - ijetch.org
… expressed genes. ACKNOWLEDGMENT The authors acknowledge Ocimum Biosolutions, Hyderabad, India for analysis of the microarray data using their proprietary microarray analysis tool Genowiz. REFERENCES [1] John …
Related articles All 3 versions
S Johanningsmeier - 2011 - repository.lib.ncsu.edu
Page 1. ABSTRACT JOHANNINGSMEIER, SUZANNE DUNN. Biochemical Characterization of Fermented Cucumber Spoilage using Non-targeted, Comprehensive, Two-dimensional Gas Chromatography-Time-of-Flight Mass …
2010
Retrotransposon expression in ethanol-stressed Saccharomyces cerevisiae
D Stanley, S Fraser, GA Stanley… - Applied microbiology and …, 2010 - Springer
… reference pool (Gasch et al. 2000). Following hybridisation, the glass slides were scanned using a GenePix-Pro 4000B scanner and analysed using Genowiz™ 4.0.2.1 software (Ocimum Biosolutions). The original data from this
Cited by 16 Related articles All 19 versions
Transcriptional changes associated with ethanol tolerance in Saccharomyces cerevisiae
D Stanley, PJ Chambers, GA Stanley… - Applied microbiology …, 2010 - Springer
… Following hybridisation, the glass slides were scanned using a GenePix 4000B scanner and analysed using Genowiz™ 4.0.2.1 software (Ocimum Biosolutions). Microarray data were normalised prior to statistical analysis using a print tip Lowess (Yang et al …
Cited by 41 Related articles All 19 versions
AK Chakrabarti, VC Vipat, S Mukherjee… - Virology …, 2010 - virologyj.biomedcentral.com
… Grid alignment was done using gene annotation files and raw data were extracted into MS EXCEL. Data Analysis. Data was analyzed using GENOWIZ Microarray and Pathway analysis tool (Ocimum Biosolutions, Hyderabad, India)
Cited by 58 Related articles All 20 versions
Immunomodulatory cytokines determine the outcome of Japanese encephalitis virus infection in mice
SM Biswas, S Kar, R Singh… - Journal of medical …, 2010 - Wiley Online Library
… Data Analysis Data were analyzed using Genowiz Microarray and Pathway analysis tool (OcimumBiosolutions, Hyperabad, India). Replicated genes were merged and median values of the expression ratios of these repli- cated genes were further considered for the dataset … Cited by 35 Related articles All 8 versions
VC Sekhar, AA Rao, PS Rao… - 2010 3rd International …, 2010 - ieeexplore.ieee.org
… is under progress. ACKNOWLEDGMENT The Authors Acknowledges Ocimum Biosolutions, Hyderabad, India. For analysis of the microarray data using their proprietary microarray analysis tool Genowiz. REFERENCES [I] M …Related articles All 2 versions
D Verma, A Kanagaraj, S Jin, ND Singh… - Plant biotechnology …, 2010 - Wiley Online Library
Skip to Main Content … Cited by 114 Related articles All 12 versions
R Pardo, M Molina-Calavita, G Poizat, G Keryer… - Molecular brain, 2010 - Springer
… pARIS-htt was engineered based on the cDNA of full-lengh human htt using OptGene (Ocimum
Biosolutions, Hyderabad, India) gene optimizing tool. Gene synthesis was performed by …
2009
D Biswas, SK Gupta, G Sindhwani… - BMC research …, 2009 - biomedcentral.com
... of Biochemistry, University of Delhi, India. To sense the SNPs in the selected DNA sequences, multiple sequence alignment was performed using built in interface for ClustalW[8] in Genchek software version 2.4.1.5 from Ocimum Biosolutions. ...Cited by 10 Related articles All 12 versions Cite
[HTML] BMC research notes Volume: 2 ISSN: 1756-0500 ISO Abbreviation: BMC Res Notes Publication Date: 2009
D Biswas, SK Gupta, G Sindhwani, A Patras - Detail: - biomedsearch.com
... of Biochemistry, University of Delhi, India. To sense the SNPs in the selected DNA sequences, multiple sequence alignment was performed using built in interface for ClustalW [8 ] in Genchek software version 2.4.1.5 from Ocimum Biosolutions. ...Related articles
IF Benter, H Canatan, M Benboubetra, MHM Yousif… - Vascular …, 2009 - Elsevier
..supplier (GE Healthcare). Data analysis was performed using Imagene and Genowiz softwares by Ocimum Biosolutions (India) and subjected to arsinh transformationas described by Huber et al. (2002). The Benjamini and Cited by 24 Related articles
A systematic approach to understanding bacterial responses to oxygen using Taverna and Webservices
S Maleki-Dizaji, M Rolfe, P Fisher… - … Conference on Biomedical …, 2009 - Springer
… (ie GeneSpring, GenoWiz) that can provide links to data- bases that define pathways, functional …Hybridisation took place to Ocimum OciChip K-12 V2 microarrays (Ocimum; Hydera- bad, India) at 42 °C overnight and washed according to the manufacturers instructions …Cited by 7 Related articles
[PDF] Transcriptional Activation of p53 gene and stabilization of p53 by its Amino-Terminus Domain
AK Sharma - 2009 - ir.inflibnet.ac.in
… information management system. Genowiz ™ incorporates an entire army of analysis tools for the efficient analysis of microarray data. Ocimum also provides analyses that are not required as a part of this study. A list of services provided in the microarray realm can be found at …Related articles
[PDF] Generation and characterisation of ethanol-tolerant saccharomyces cerevisiae mutants
D Stanley - 2009 - vuir.vu.edu.au
Page 1. \ v;l \.TIOM AMD CHARACISRISA. jmm wBS Page 2. GENERATION AND CHARACTERISATION OF ETHANOL-TOLERANT Saccharomyces cerevisiae MUTANTS A thesis submitted for the degree of DOCTOR OF PHILOSOPHY By DRAGANA STANLEY …Related articles All 3 versions
STATISTICAL ANALYSIS IDENTIFIES GENES IN PROSTATE CANCER
M Vidhya - International Journal of Medical Engineering and …, 2009 - Inderscience
... microarray data obtained for the normal and malignant samples for 8,900 genes was taken and it was analysed to identify the genes that are differently expressed in tumour samples in comparison to the normal samples from tissues and cell lines using the tool Genowiz™ 3.1. ...Related articles - All 7 versions
Application of Data Mining Algorithms in Pharmaceutical Research and Development
KV Balakin… - Pharmaceutical Data Mining, 2009 - Wiley Online Library
... ac.uk/microarray/maxd/ A data warehouse and visualization environment for genomic expression data Genowiz ™ http://www.ocimumbio.com/ web/default.asp A comprehensive multiplatform package for tracking and analyzing Gene Expressions data ...Related articles - All 3 versions
S Mukherjee, VC Vipat, AC Mishra, SD Pawar… - Virol J, 2011 - biomedcentral.com
... Grid align- ment was done by gene annotation files and raw data were extracted into MS EXCEL[15]. Data Analysis Microarray data analysis was carried out with GENO- WIZ Microarray dataand pathway analysis tool (Oci- mum Biosolutions, Hyderabad, India). … Cited by 6 - Related articles - View as HTML - All 9 versions
A Systematic Approach to Understanding Bacterial Responses to Oxygen Using Taverna and Webservices
S Maleki-Dizaji, M Rolfe, P Fisher… - … Conference on Biomedical …, 2009 - Springer
... 23 _____ (ie GeneSpring, GenoWiz) that can provide links to data- bases that define pathways, functional categories and gene ontologies. Many ...Cited by 1 - Related articles - All 3 versions
New approach to Genomics Experients Taking Advantage of Virtual Laboratory System
L Handschuh, M Lawenda, P Stępniak… - … Methods In Science …, 2009 - man.poznan.pl
... Raw data in a text file (csv, gpr or similar) are then submitted to normaliza- tion, filtration and high-level analysis, using sophisticated software (eg R Bioconductor, Multi Experiment Viewer, Gene Spring, Genowiz). Result reports are saved as text or graphic files (eg pdf, jpg). ...Cited by 3 - Related articles - View as HTML - All 2 versions
2008
[PDF] Subtype selectivity in phosphodiesterase 4 (PDE4): a bottleneck in rational drug design
RD Design - Current Pharmaceutical Design, 2008 - 203.199.182.73
Page 1. 3854 Current Pharmaceutical Design, 2008,14, 3854-3872 Subtype Selectivity in Phosphodiesterase 4 (PDE4): A Bottleneck in Rational Drug Design P. Srivani1, D. Usharani2'3, Eluvathingal D. Jemmis2'" and G. Narahari ...Cited by 22 Related articles All 9 versions Cite
Design of microarray probes for detection of mutations
P Almeida, L Carreto, JL Oliveira - … , 2008. BIOTECHNO'08. …, 2008 - ieeexplore.ieee.org
... efficiency and robustness, ie finding the best set of probes for specific hybridization conditions [4]. Several software packages already exist to assist on the design of microarray probes: AlleleID [5], Oligowiz [6], Gencheck [7], Oligo ... [7] OcimumBiosolutions, "GenChek," GenChek. ...Cited by 1 Related articles All 4 versions Cite
Visual software tools for bioinformatics
T Arndt - Journal of Visual Languages & Computing, 2008 - Elsevier
... View Within Article. Genchek [7] (available for Linux, Mac, Windows and Unix) is a comprehensive software suit. It has support for several operations on DNA and proteins. ... Gencheck is shown in Fig. 10. ...Cited by 4 Related articles All 2 versions Cite
Y Takahara, M Takahashi, QW Zhang… - World journal of …, 2008 - ncbi.nlm.nih.gov
... The gene expression data were subjected to hierarchical clustering analysis using Genowiz™ software (Ocimum Biosolutions). ... All genes in Figure Figure11 were subjected to hierarchical clustering analysis using Genowiz™. ...
Cited by 11 - Related articles - BL Direct - All 8 versions
P Priyadarsiny, SK Khattar, R Malik… - The Journal of …, 2008 - J-STAGE
... Hierarchi- cal analysis and self-organizing maps were used to cluster the genes in different groups. Furthermore, gene annota- tion and pathway analysis was carried out using Genowiz software. RESULTS AND DISCUSSION ...Cited by 3 - Related articles - BL Direct - All 7 versions
NKF Chen, J San Wong, IHC Kee, SH Lai… - PloS one, 2008 - dx.plos.org
... All statistical tests and the area under the curve (AUC) were calculated with GraphPad Prism (GraphPad Software Inc., USA). Cluster analysis of GeneChip® data was performed using algorithms in Genowiz (Ocimum Biosolutions Ltd., India). P<0.05 was considered significant. … Cited by 10 - Related articles - Cached - All 9 versions
NKF Chen, J San Wong, IHC Kee, SH Lai, CH Thng… - PLoS …, 2008 - journals.plos.org
BackgroundCurrent gene- and cell-based therapies have significant limitations which impede widespread clinical application. Taking diabetes mellitus as a paradigm, we have sought to overcome these limitations by ex vivo electrotransfer of a nonviral insulin expression vector into … Cited by 25 Related articles All 14 versions
Y Takahara, M Takahashi, QW Zhang… - World journal of …, 2008 - ncbi.nlm.nih.gov
… This calculation was performed using SPSS (SPSS Inc., IL, USA). The gene expression data were subjected to hierarchical clustering analysis using Genowiz™ software (Ocimum Biosolutions). Pathway analysis of PCR data …Cited by 31 Related articles All 9 versions
Gene expression microarray data analysis demystified
PC Roberts - Biotechnology annual review, 2008 - Elsevier
Skip to main content Skip to article Elsevier logo: Journals & Books. Create accountSign in. Sign inCreate account. Journals & Books. Help. Download PDFDownload. Share. Cited by 36 Related articles All 4 versions
Microarray Data Analysis Tool (MAT)
S Selvaraja - 2008 - rave.ohiolink.edu
Page 1. MICROARRAY DATA ANALYSIS TOOL (MAT) A Thesis Presented to The Graduate Faculty of The University of Akron In Partial Fulfillment of the Requirements for the Degree Master of Science Sudarshan Selvaraja December, 2008 Page 2. ii … Related articles All 3 versions
[PDF] Establishment of yeast platform for isoprenoid production
MA Asadollahi - Lyngby, Denmark: Technical University of Denmark, 2008 - orbit.dtu.dk
… Kiran also helped me with utilizing the OptGene software for the in silico metabolic … However, expression of geraniol synthase of Ocimum basilicum in yeast gave rise to the biosynthesis …
2007
R Lapointe, K Tanaka, WE Barney, JB Whitfield… - Journal of …, 2007 - Am Soc Microbiol ... University of Kentucky. The DNA sequences were first edited to remove vector sequences and then assembled using either SeqMan II (Lasergene DNAStar) or Genchek v. 2061 (Ocimum Biosolutions). Contigs were built using ...
Cited by 40 Related articles BL Direct All 8 versions Cite
< i> Pisum sativum contains a factor with strong homology to eIF5B
S Rasheedi, S Ghosh, M Suragani, N Tuteja… - Gene, 2007 - Elsevier
... Multiple sequence alignments and phylogenetic tree analysis were performed by CLUSTALW version1.74 (Thompson et al., 1994) and Genchek™ sequence analysis software package (Ocimum Biosolutions, India). Hydrophilicity ...Cited by 2 Related articles All 6 versions Cite
Shared and species-specific features among ichnovirus genomes
K Tanaka, R Lapointe, WE Barney, AM Makkay… - Virology, 2007 - Elsevier
... The DNA sequences were first edited to remove vector sequences and then assembled using either SeqMan II (Lasergene DNAStar) or Genchek v. 2061 (OcimumBiosolutions). Contigs were built with a minimum of 50 nt overlap ...Cited by 36 Related articles All 4 versions Cite
Automatic design of microarray probes for mutations detection
PRSG Almeida - 2007 - ria.ua.pt... 26 3.3. Genchek ..... 26 3.4. ... 27 Figure 3.2- OligoWiz software. .... 28 Figure 3.3 -
Genchek software..... 28 Figure 3.4 - OligoDesign software. ...Related articles All 2 versions
Analysis of expression data: an overview
A Grewal, P Lambert, J Stockton - Current protocols in human …, 2007 - Wiley Online Library
… X. DecisionSite for Microarray Analysis (Spotfire). X. X. Expressionist (GeneData). X. X. X.
GeneSpring (Agilent Technologies). X. X. Genowiz (Ocimum Biosolutions). X. X. RMAExpress 0.4.1 (Bolstad, 2006). X. S+ArrayAnalyzer (Insightful). X. X. X. X. TeraGenomics (IMC). X. X … Cited by 24 Related articles All 7 versions
J Kirby, PR Heath, PJ Shaw, FC Hamdy - Advances in clinical chemistry, 2007 - Elsevier
Skip to main content …
[PDF] Data Integration and Analysis: P. falciparum Microarray Data as a Case Study
R Rao, A Sivakumar, G Rao - bioinformatics.cs.vt.edu
… 6.ACKNOWLEDGMENTS We would like to thank Dr. Sandhya Kiran, Mr. JP Mehta and Ms. Madhuri for critical comments. We would also like to thank Ocimum Biosolutions Ltd. for their technical support and the Genowiz team for their encouragement. Page 5 … Related articles All 3 versions
23 Visualization of Protein Microarray Data
K Clancy - Functional Protein Microarrays in Drug Discovery, 2007 - books.google.com
… s Page 442. # GeneX Genowiz Longhorn Array Database LIMaS (Laboratory Information … net Ocimum Biosolutions Section of Molecular Genetics and Microbiology, Institute for Cellular and Molecular Biology, University of Texas at Austin Mammalian Genetics Unit, Harwell UK …Related articles
CJ Martyniuk, ER Gerrie, JT Popesku, M Ekker… - Aquatic toxicology, 2007 - Elsevier
... 2.4. Microarray analysis and gene categorization. Raw intensity data were analyzed using GenoWiz™. To normalize the microarray data, we log 2 transformed raw expression data and used the double channel normalization function in Genowiz. ...Cited by 40 - Related articles - All 9 versions
[HTML] Software-MIAME-FGED
N Abeygunawardena - 2007 - mged.org
... included! If you'd like to be informed of new developments as they occur, please join the maxd_announce mailing list."; Genowiz™ - A comprehensive multi platform package for tracking and analyzing Gene Expressions data. ...Cached
[CITATION] 23 Visualization of Protein Microarray Data
K Clancy - Functional protein microarrays in drug discovery, 2007 - CRC
J Kirby, PR Heath, PJ Shaw… - Advances in clinical chemistry, 2007 - Elsevier
... Gene Sight, BioDiscovery. Expressionist, Gene Data. Chip Inspector, Genomatix. Teragenomic,IMC. JMP microarray, SAS. Genowiz, Ocimum Biosolutions. Genomics Suite, Partek. Resolver,Rosetta. Decision Site, Spotfire. Avadis, Strand Genomics. Freeware. …Cited by 15 - Related articles - BL Direct - All 5 versions
2006
Analysis of expression data: an overview
A Grewal, P Lambert, J Stockton - Current protocols in human …, 2007 - Wiley Online Library
… X. DecisionSite for Microarray Analysis (Spotfire). X. X. Expressionist (GeneData). X. X. X. GeneSpring (Agilent Technologies). X. X. Genowiz (Ocimum Biosolutions). X. X. RMAExpress 0.4.1 (Bolstad, 2006). X. S+ArrayAnalyzer (Insightful). X. X. X. X. TeraGenomics (IMC). X. X … Cited by 24 Related articles All 7 versions
R Lapointe, K Tanaka, WE Barney, JB Whitfield… - Journal of …, 2007 - Am Soc Microbiol
… The DNA sequences were first edited to remove vector sequences and then assembled
using either SeqMan II (Lasergene DNAStar) or Genchek v. 2061 (Ocimum Biosolutions). …
J Kirby, PR Heath, PJ Shaw, FC Hamdy - Advances in clinical chemistry, 2007 - Elsevier
Skip to main content …Cited by 31 Related articles All 6 versions
[PDF] Data Integration and Analysis: P. falciparum Microarray Data as a Case Study
R Rao, A Sivakumar, G Rao - bioinformatics.cs.vt.edu
… 6.ACKNOWLEDGMENTS We would like to thank Dr. Sandhya Kiran, Mr. JP Mehta and Ms. Madhuri for critical comments. We would also like to thank Ocimum Biosolutions Ltd. for their technical support and the Genowiz team for their encouragement. Page 5 … Related articles All 3 versions
23 Visualization of Protein Microarray Data
K Clancy - Functional Protein Microarrays in Drug Discovery, 2007 - books.google.com
… s Page 442. # GeneX Genowiz Longhorn Array Database LIMaS (Laboratory Information … Ocimum Biosolutions Section of Molecular Genetics and Microbiology, Institute for Cellular andMolecular Biology, University of Texas at Austin Mammalian Genetics Unit, Harwell UK …
[PDF] DATA INTEGRATION AND ANALYSIS: P. FALCIPARUM MICROARRAY DATA AS A CASE STUDY
R Rao, A Sivakumar… - bioinformatics.cs.vt.edu
... In this paper, we explore further insights into published P. falciparum microarray data using the application Genowiz™. ... The genes involved in various steps of the pathway have been traced to their various clusters generated by using Genowiz™ SOM. ...Related articles - View as HTML - All 3 versions
E McLucas, H Gallagher, Y Rochev… - … Research Part A, 2006 - Wiley Online Library
... analysis. Genowiz software and MAVI software (Ocimum Biosolutions) were then used to generate fold increases or decreases induced by the two different drug concentrations relative to the values generated for the polymer alone. ...Cited by 3 - Related articles - BL Direct - All 6 versions
Data Mining in Gene Expression Data Analysis: A Survey
J Han… - Processing and managing complex data for …, 2006 - books.google.com
Page 392. Data Mining in Gene Expression Data Analysis: A Survey 375 Chapter XII Data Mining in Gene Expression Data Analysis: A Survey Jilin Han, University of Oklahoma, USA Le Gruenwald, University of Oklahoma, USA ...Related articles
2005
Growth of Indian biotech companies, in the context of the international biotechnology industry
U Palnitkar - Journal of commercial biotechnology, 2005 - ingentaconnect.com
... Ocimum Biosolutions Labronica Inc., USA Global marketing of Biotracker-LIMS United Bioinformatics Inc., Canada Marketing rights for Gencheck and Biotracker Hospital for JointDiseases Orthopaedic Institute (HJD), New York Research into musculoskeletal disease using ...Cited by 5 Related articles All 7 versions Cite
SE Ouakfaoui, B Miki - The Plant Journal, 2005 - Wiley Online Library
