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:9/1/2014)... in the U.S. undergoes a battery of tests designed ... disease. Thousands of children born in the developing world, ... from the disease each year. , A.J. Kumar ... of those deaths. , A Post-Doctoral Fellow in ... George Whitesides, the Woodford L. and Ann A. Flowers ...
(Date:9/1/2014)... nucleotidethe basic building block of DNAcould initiate fragile X syndrome, the ... The Journal of Cell Biology . ... gene on the X chromosome called fragile X mental retardation ... 360 men carry a so-called premutation, in which a series of ... is slightly longer than normal. These repeats are prone to even ...
(Date:9/1/2014)... As nocturnal animals, bats are perfectly adapted to a life ... between the reflected echoes to measure distance to obstacles or ... different echo delays. A study carried out by researchers at ... that this map dynamically adapts to external factors. , ... bat flies in too close to an object, the number ...
Breaking Biology News(10 mins):Faster, cheaper tests for sickle cell 2Faster, cheaper tests for sickle cell 3A nucleotide change could initiate fragile X syndrome 2Zooming in for a safe flight 2
... are labeled a “night owl?report more pathological symptoms related ... for their nocturnal sleeplessness by extending their time in ... time, according to a study published in the April ... (JCSM). , The study, authored by Jason C. Ong, ...
... Southwestern Medical Center have found a new method for ... the most common acute infections in children. , ... by tracking down the virus or bacteria causing it. ... virus may not be present in the blood or ...
... Institutes of Health have discovered how a defect in ... several genes interact to create myelin, a fatty coating ... reliability of their electrical signals. , The discovery ... These disorders can affect the peripheral nervous system—the nerves ...
Cached Biology News:'Night owls' report more insomnia-related symptoms 2Infection detectives use disease 'fingerprints' to track common infections in children 2Infection detectives use disease 'fingerprints' to track common infections in children 3Researchers discover gene crucial for nerve cell insulation 2Researchers discover gene crucial for nerve cell insulation 3
(Date:9/2/2014)... Sept. 2, 2014 Orexigen Therapeutics, Inc. (Nasdaq: ... Patent and Trademark Office (PTO) has issued a patent ... for weight loss. NB32 is a fixed-dose combination of ... U.S. Patent No. 8,815,889 claims methods for treating insulin ... patent expires in 2024. If NB32 is approved for ...
(Date:9/2/2014)... SEATTLE , Sept. 2, 2014 /PRNewswire/ - Oncothyreon Inc. (Nasdaq: ... , M.D., President and Chief Executive Officer, will present at ... Conference in New York on Tuesday, ... A live and archived webcast of the presentation will be ... the "News & Events" section. About Oncothyreon ...
(Date:9/2/2014)... Sept. 2, 2014 /PRNewswire/ - BIOREM Inc. (TSXV: BRM) ("Biorem" or ... The orders consist of three large odour control systems for ... "These orders are consistent with the market resurgence ... Bruijns , President and CEO. "After a difficult period of ... now beginning to see sales growth. Our lower cost structure, ...
(Date:9/2/2014)... 2, 2014  Spherix Incorporated (SPEX) -- an intellectual property development ... property, today announced that the United States Patent & ... in the month of August that are part of ... The issued patents are: , U.S.RE45,065 ... 19, 2014; and , U.S.RE45,095 issued August 26, ...
Breaking Biology Technology:Orexigen Expands NB32 Intellectual Property Portfolio With New U.S. Patent 2Orexigen Expands NB32 Intellectual Property Portfolio With New U.S. Patent 3Orexigen Expands NB32 Intellectual Property Portfolio With New U.S. Patent 4United States Patent & Trademark Office Issues Three New Standard Essential Patents to Spherix 2
... Third Wave Technologies is appointing more new ... to a press release. , ,Maneesh Arora, 37, will become ... has held senior positions in marketing and operations for the ... 35, will be vice president of finance. , ,John Bellano, ...
... investments in 2005 added up to more than $19 million ... report released on Wednesday. , ,The investor tax credits offered ... start to officially track the volume of investments by individuals. ... picture we've had of what's going on in the individual ...
... of financing is vital to a biotech company (it is ... "biotech" in the broadest sense) companies are continually faced with ... development cycle, this week's article will focus on venture capital ... on VC financing results from Burrill and Company's data. Burrill's ...
Cached Biology Technology:State tracks more angel investment, at least $19M last year 2U.S. VC funding flat in 2005 while life science funding grows 2U.S. VC funding flat in 2005 while life science funding grows 3U.S. VC funding flat in 2005 while life science funding grows 4
Request Info...
FITC~Bovine Serum Albumin...
, Premium quality synthesis and purification , You provide the sequence, we'll do the rest , Rigorous quality control , Your choice of purification method, amount and format , Available annealed...
... siRNA service provides the premium quality siRNAs ... Custom siRNAs can be readily ordered online ... sequence, or by providing the sense and ... Silencer Validated and Silencer ...
Biology Products: