Navigation Links
CoPub Mapper: mining MEDLINE based on search term co-publication

High throughput microarray analyses result in many differentially expressed genes that are potentially responsible for the biological process of interest. In order to identify biological similarities between genes, publications from MEDLINE were identified in which pairs of gene names and combinations of gene name with specific keywords were co-mentioned.

MEDLINE search strings for 15,621 known genes and 3,731 keywords were generated and validated. PubMed IDs were retrieved from MEDLINE and relative probability of co-occurrences of all gene-gene and gene-keyword pairs determined. To assess gene clustering according to literature co-publication, 150 genes consisting of 8 sets with known connections (same pathway, same protein complex, or same cellular localization, etc.) were run through the program. Receiver operator characteristics (ROC) analyses showed that most gene sets were clustered much better than expected by random chance. To test grouping of genes from real microarray data, 221 differentially expressed genes from a microarray experiment were analyzed with CoPub Mapper, which resulted in several relevant clusters of genes with biological process and disease keywords. In addition, all genes versus keywords were hierarchical clustered to reveal a complete grouping of published genes based on co-occurrence.

The CoPub Mapper program allows for quick and versatile querying of co-published genes and keywords and can be successfully used to cluster predefined groups of genes and microarray data.


'"/>

Source:BMC Bioinformatics


Page: 1

Related biology news :

1. Determining The Fate Of Cells In The Human Body
2. Stanford/Packard scientists data-mining technique strikes genetic gold
3. Mayo Clinic collaboration mining of ancient herbal text leads to potential new anti-bacterial drug
4. New nanotechnology able to examine single molecules, aiding in determining gene expression
5. Study warns deep-sea mining may pose serious threat to fragile marine ecosystems
6. Breakthrough Microarray-based Technology for the Study of Cancer
7. An entropy-based gene selection method for cancer classification using microarray data
8. Towards precise classification of cancers based on robust gene functional expression profiles
9. Robot-based system developed at Carnegie Mellon detects life in Chiles Atacama desert
10. Canada approves marijuana-based pain spray
11. Major new UNC-based drinking water study suggests pregnancy fears may be overstated
Post Your Comments:
*Name:
*Comment:
*Email:
TAG: CoPub Mapper mining MEDLINE based search term publication

(Date:3/20/2015)... 2015 Research and Markets ( http://www.researchandmarkets.com/research/rswjb4/hand_geometry ) ... Global Strategic Business Report" report to their offering. ... in US$ Thousands. The report provides separate comprehensive analytics for ... , Europe , Asia-Pacific ... of World. Annual estimates and forecasts are provided ...
(Date:3/20/2015)... 19, 2015 Research and Markets ( http://www.researchandmarkets.com/research/vkzvcs/iris_biometrics ... - Global Strategic Business Report" report to their offering. ... Biometrics in US$ Thousands. The report provides separate comprehensive analytics ... Japan , Europe , ... Latin America . Annual estimates ...
(Date:3/18/2015)... -- As mobile payments become more prevalent amongst ... apps continue to be introduced into the market place at ... industry in focus today are:  NXT-ID, Inc. (NASDAQ: ... ), Apple Inc. (NASDAQ: AAPL ), Google Inc. ... FB ) NXT-ID, Inc. (NASDAQ: ...
Breaking Biology News(10 mins):Hand Geometry - Global Strategic Business Report 2015: An Essential Security Component for both Government & Enterprise Sector 2Hand Geometry - Global Strategic Business Report 2015: An Essential Security Component for both Government & Enterprise Sector 3Hand Geometry - Global Strategic Business Report 2015: An Essential Security Component for both Government & Enterprise Sector 4Iris Biometrics - Global Strategic Business Report 2015: System & Network Access Control - A Robust Market Opportunity in the Offing 2Iris Biometrics - Global Strategic Business Report 2015: System & Network Access Control - A Robust Market Opportunity in the Offing 3Iris Biometrics - Global Strategic Business Report 2015: System & Network Access Control - A Robust Market Opportunity in the Offing 4Iris Biometrics - Global Strategic Business Report 2015: System & Network Access Control - A Robust Market Opportunity in the Offing 5Revolutionary Smart Wallet & Mobile Payment Choices Change the Game for Consumers - Company Begins Shipping Newest Digital Wallet to Customers 2Revolutionary Smart Wallet & Mobile Payment Choices Change the Game for Consumers - Company Begins Shipping Newest Digital Wallet to Customers 3Revolutionary Smart Wallet & Mobile Payment Choices Change the Game for Consumers - Company Begins Shipping Newest Digital Wallet to Customers 4Revolutionary Smart Wallet & Mobile Payment Choices Change the Game for Consumers - Company Begins Shipping Newest Digital Wallet to Customers 5Revolutionary Smart Wallet & Mobile Payment Choices Change the Game for Consumers - Company Begins Shipping Newest Digital Wallet to Customers 6
... with businesses in Munich, Germany and Ann Arbor, Michigan ... at the National Institute on Aging, National Institutes of ... stem (ES) cells. , In their work they first ... and qRT-PCR methods. Then they employed extensive DNA promoter ...
... the media agree that prolonged jogging raises people,s spirits. ... called endorphins, are the cause of this. But in ... at the Technische Universitt Mnchen and the University of ... driven runners high. In an imaging study they were ...
... Attempting U.S. ... Entry, ... the U.S. Department of Homeland Security (DHS) is,expanding the operation of their ... charged with securing the more than 95,000 miles of,America,s coastline," said Rear ...
Cached Biology News:The myth of runner's high revisited with brain imaging 2The myth of runner's high revisited with brain imaging 3DHS Expands Biometrics-at-Sea Program to the Florida Straits 2
(Date:5/4/2015)... , May 4, 2015   Intrexon Corporation ... first quarter 2015 financial results after the market closes ... conference call that day at 5:30 PM ET to ... The conference call may be accessed by ... to join the "Intrexon Conference Call."  Participants may also ...
(Date:5/4/2015)... Marianjoy Rehabilitation Hospital has ... hand impairments by acquiring the Armeo®Spring arm and ... site. , Secured through grant support of a ... option for patients with upper extremity weakness or ... of just four Illinois providers offering treatment with ...
(Date:5/1/2015)... N.C. (PRWEB) May 01, 2015 ... Charlotte (UNC Charlotte) spin-out company, announced that Pinku Mukherjee, ... the UNC Board of Governors’ highest faculty honor. ... to humanity’s welfare , for her innovative research and ... Max Gardner Award represents a crowning moment in my ...
(Date:5/1/2015)... 2015 Pfenex Inc. (NYSE MKT: PFNX), ... of biosimilar therapeutics including high value and difficult ... quarter 2015 financial results will be released on ... market. At 8:30 am Eastern Time, Pfenex management will ... results and provide a business update. A press release ...
Breaking Biology Technology:Intrexon to Announce First Quarter 2015 Financial Results on Monday, May 11, 2015 2Marianjoy Acquires Armeo®Spring Arm and Hand Rehabilitation Exoskeleton at Oakbrook Terrace Facility 2OncoTAb CSO Awarded the University of North Carolina’s O. Max Gardner Award 2Pfenex To Report First Quarter 2015 Results and Provide Business Update on Thursday, May 14, 2015 2
... ATLANTA, March 24 GeoVax Labs, Inc. (OTC,Bulletin Board: ... company, is very pleased to announce the addition of ... 2008. Current President/CEO,and company co-founder Don Hildebrand remains as ... to be heavily involved in company,development, growth and expansion ...
... An information technology,revolution is improving cancer ... according to Supportive Oncology Services, Inc. (SOS), ... PROs are self-,assessments that measure any aspect ... the patient without any interpretation by the ...
... be Used as Biomarkers, for Diagnosing the Primary Tumor Site in Patients With ... ... That Will be the Basis of a CUP Diagnostic Test That Will be ... by a CLIA-certified lab in the US in 2008, Approximately 70,000 Patients in ...
Cached Biology Technology:GeoVax Further Strengthens Management Team 2GeoVax Further Strengthens Management Team 3GeoVax Further Strengthens Management Team 4GeoVax Further Strengthens Management Team 5Patient-Reported Outcomes (PROs) Improve Cancer Treatment -- Experts Agree 2Patient-Reported Outcomes (PROs) Improve Cancer Treatment -- Experts Agree 3Accurate Identification of Tumor Origin Using MicroRNAs is Published by Rosetta Genomics' Scientists and Collaborators in Nature Biotechnology 2Accurate Identification of Tumor Origin Using MicroRNAs is Published by Rosetta Genomics' Scientists and Collaborators in Nature Biotechnology 3Accurate Identification of Tumor Origin Using MicroRNAs is Published by Rosetta Genomics' Scientists and Collaborators in Nature Biotechnology 4Accurate Identification of Tumor Origin Using MicroRNAs is Published by Rosetta Genomics' Scientists and Collaborators in Nature Biotechnology 5
... Solid phase reagent ... purification; Easy & unique ... Compatible with detergents and ... & recover non-envelop viruses ...
Mouse monoclonal [N7519] to NR0B2 ( Abpromise for all tested applications). Antigen: E.coli expressed recombinant full length protein (Human) NR0B2 Entrez Gene ID: 8431 Swiss Protein ID: ...
Ubiquitin Related I Sampler Kit 10 mu g each...
Rabbit polyclonal to BCA1 ( Abpromise for all tested applications). Antigen: Generated using E.coli expressed mouse BCA1. Entrez GeneID: 10563 SWISS Protein ID: O43927...
Biology Products: