Navigation Links
UF scientists encounter holes in tree of life, push for better data storage
Date:9/3/2013

request information, or attempt to reproduce the sequence alignments and analyses, which is extremely labor intensive.

"There are ambiguities with the alignments, you have to make certain judgment calls, and so an alignment that I do is not going to be the same as an alignment that somebody else does," said lead author Bryan Drew, a postdoctoral researcher in UF's biology department. "It's hard to assess a publication's validity in a lot of cases if you don't have access to the alignments. To me, that's the biggest problem with all of this."

Challenges include complicated mechanisms for uploading data and inconsistencies between journals some require or strongly recommend data be stored in an online database and others do not, Drew said. The most widely used, publicly accessible databases include GenBank, TreeBASE and Dryad. Most journals require DNA sequences be deposited in GenBank, but comparatively few require the sequence alignments to be publicly archived. When study co-authors emailed researchers to obtain missing information, a majority did not respond, and the co-authors were rarely successful in retrieving the data.

"A lot of the authors I contacted said their data was in TreeBASE, but they were unaware of the next step needed after acceptance by the journal the researchers didn't know they had to go back into TreeBASE and actually make the data available to the public," Drew said.

Elizabeth Kellogg, a professor in the department of biology at the University of Missouri-St. Louis who was not involved with the study, said she is not surprised about the large amount of missing information.

"They're absolutely right that when people are publishing papers, you want to document your results as much as you can," Kellogg said. "But many journals aren't requiring that extra step, so some researchers are only submitting the minimum to have their studies published. "There are databases for archiving, but some of their i
'/>"/>

Contact: Doug Soltis
dsoltis@botany.ufl.edu
352-273-1963
University of Florida
Source:Eurekalert

Page: 1 2 3

Related biology news :

1. Scientists discover new bat species in West Africa
2. Worlds scientists, researchers and nutrition experts convene to explore the benefits of mushrooms
3. Now hear this: Scientists discover compound to prevent noise-related hearing loss
4. NIH scientists describe how anthrax toxins cause illness, death
5. UCLA scientists receive $2 million grant to improve quality of donor livers for transplant
6. Cancer scientists discover novel way gene controls stem cell self-renewal
7. UK & USA scientists collaborate to design crops of the future
8. Scientists uncover the secret life of frozen soils
9. Tufts scientists develop new early warning system for cholera epidemics
10. Cattle can be a source of MRSA in people, scientists find
11. LLNL scientists make new discoveries in the transmission of viruses between animals and humans
Post Your Comments:
*Name:
*Comment:
*Email:
(Date:3/26/2015)... , March 26, 2015 ... family, social, recreation and athletic club, today announced it ... to allow freedom of movement for members and staff, ... "Following a comprehensive process, we selected FST,s IMID Access ... and convenience for our members and staff, in addition ...
(Date:3/24/2015)... , March 24, 2015   NexID Biometrics ... with critical security-authentication needs, today announced the beginning of ... (FFD) solution. The company, based in ... at the three-day Connect:ID Expo, which began here today ... NexID said version 2.0 of its SDK boosts the ...
(Date:3/23/2015)... 2015   HOYOS Labs , a leading global ... that the Company will demonstrate multiple biometrics-based technologies under ... at Connect:ID on March 23 through 25, 2015, in ... highlight the IEEE Biometric Open Protocol Standard; free biometrics-based ... access control system. BOPS was invented by HOYOS Labs ...
Breaking Biology News(10 mins):Granite Club First Private Club in North America to Implement FST Biometrics Secure Access Solution, as Part of Multi-million Dollar Expansion 2NexID Begins Shipments Of Version 2.0 Fake-Finger-Detection Solution 2HOYOS Labs to Showcase Host of Biometrics Technologies at Connect:ID in Washington, D.C. 2HOYOS Labs to Showcase Host of Biometrics Technologies at Connect:ID in Washington, D.C. 3
... of years ago, humans began scrubbing off and discarding ... white kernel beneath. Now, for the first time, scientists ... rice processing, called rice bran, significantly lowers blood pressure ... The team reports their findings in the March 8 ...
... gnawing its way into a carcass and staying inside to feed ... Columbia (Canada) believe the Hagfish's gruesome method of feeding may cause ... build up of CO2 produced by the fish, which could explain ... up to 7% CO2 (350 × that found in normal air). ...
... with Affymetrix, Inc., have designed a chip ?the GeneChip® ... suggest ways to better manage them. By helping determine ... citrus ?genes that are associated with taste, acidic content ... to researchers for rectifying existing problems and making improvements ...
Cached Biology News:How nice, brown rice: Study shows rice bran lowers blood pressure in rats 2UCR researchers design chip that can improve citrus varieties 2UCR researchers design chip that can improve citrus varieties 3
(Date:4/16/2015)... OSAKA, Japan , April 16, 2015 ... of Kyoto University and Takeda Pharmaceutical Company Limited ... to develop clinical applications of induced pluripotent stem ... mellitus, neurological disorders and cancer immunotherapy. The "Takeda-CiRA ... designed to expedite multiple research projects for drug ...
(Date:4/16/2015)... Francisco, CA (PRWEB) April 16, 2015 ... scheduled to report first quarter results on Thursday, April ... announcement, Cytokinetics’ senior management will host a conference call ... financial results and the company’s outlook for the future. ... can be accessed from the homepage and in the ...
(Date:4/16/2015)... (PRWEB) April 16, 2015 Proove ... Buzz of BIO Contest for the 2015 ... (BIO), the 2015 BIO International Convention will take place ... Pennsylvania. During the Buzz of BIO contest, industry leaders ... see present at the conference. The community voting period ...
(Date:4/16/2015)... 2015 Regis Technologies looks forward to ... Cancer Research (AACR) annual meeting. Regis will exhibit at ... Saturday, April 18, in Philadelphia and running through April ... of the oldest and largest organization focused on cancer ... and partners with survivors to promote awareness and research ...
Breaking Biology Technology:CiRA and Takeda Enter 10-year Collaboration on iPS Cell Research 2CiRA and Takeda Enter 10-year Collaboration on iPS Cell Research 3Cytokinetics to Announce First Quarter Results on April 30, 2015 2Cytokinetics to Announce First Quarter Results on April 30, 2015 3Proove Bisociences to Participate in the Buzz of BIO at the 2015 BIO International Convention 2Proove Bisociences to Participate in the Buzz of BIO at the 2015 BIO International Convention 3Regis Technologies Joins American Association for Cancer Research Annual Meeting 2
... A. Mirkin has mass-produced the 2008 Summer Olympics logo -- ... centimeter of space. , Mirkin and his colleagues printed ... a new printing technique, called Polymer Pen Lithography (PPL), that ... device. , The PPL technique, to be published Aug. ...
... 14 Keck Graduate Institute,(KGI) in collaboration with ... center, announced the launch of its new Certificate ... fellows. KGI has,secured funding to allow a limited ... the program with scholarships that will cover tuition., ...
... (Nasdaq: NLTX ), today announced financial results for the ... loss for the three months ended June 30, 2008 was ... $0.11 per share, for,the same period of 2007. Net operating ... million or $0.28 per share compared to $2.2 million,or $0.16 ...
Cached Biology Technology:Northwestern chemists take gold, mass-produce Beijing Olympic logo 2City of Hope Helps KGI Launch New Management Training Program for Scientists 2City of Hope Helps KGI Launch New Management Training Program for Scientists 3Nile Therapeutics, Inc. Reports 2008 Second Quarter Financial Results 2Nile Therapeutics, Inc. Reports 2008 Second Quarter Financial Results 3Nile Therapeutics, Inc. Reports 2008 Second Quarter Financial Results 4