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3D digital download of giant Glen Rose dinosaur track is roadmap for saving at-risk natural history resources

Paleontologists propose the new term “digitype” for full-resolution three-dimensional digital models that preserve and archive endangered fossils

Portable laser scanning technology allows researchers to tote their latest fossil discovery from the field to the lab in the form of lightweight digital data stored on a laptop. But sharing that data as a 3D model with others requires standard formats that are currently lacking, say paleontologists at Southern Methodist University.

The SMU researchers used portable laser scanning technology to capture field data of a huge 110 million-year-old Texas dinosaur track and then create to scale an exact 3D facsimile. They share their protocol and findings with the public — as well as their downloadable 145-megabyte model — in the online scientific journal Palaeontologia Electronica.

The model duplicates an actual dinosaur footprint fossil that is slowly being destroyed by weathering because it’s on permanent outdoor display, says SMU paleontologist Thomas L. Adams, lead author of the scientific article. The researchers describe in the paper how they created the digital model and discuss the implications for digital archiving and preservation. Click here for the download link.

“This paper demonstrates the feasibility of using portable 3D laser scanners to capture field data and create high-resolution, interactive 3D models of at-risk natural history resources,” write the authors.

“3D digitizing technology provides a high-fidelity, low-cost means of producing facsimiles that can be used in a variety of ways,” they say, adding that the data can be stored in online museums for distribution to researchers, educators and the public.

SMU paleontologist Louis L. Jacobs is one of the coauthors on the article.

“The protocol for distance scanning presented in this paper is a roadmap for establishing a virtual museum of fossil specimens from inaccessible corners across the globe,” Jacobs said.

Paleontologists propose the term “digitype” for digital models
Scientists increasingly are using computed tomography and 3D laser scanners to produce high-quality 3D digital models, say Adams and his colleagues, including to capture high-resolution images from remote field sites.

SMU’s full-resolution, three-dimensional digital model of the 24-by-16-inch Texas footprint is one of the first to archive an at-risk fossil, they say.

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To book a live or taped interview with Thomas Adams in the SMU News Broadcast Studio call News and Communications at 214-768-7650 or email news@smu.edu.

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The SMU paleontologists propose the term “digitype” for such facsimiles, writing in their article “High Resolution Three-Dimensional Laser-scanning of the type specimen of Eubrontes (?) Glenrosensis Shuler, 1935, from the Comanchean (Lower Cretaeous) of Texas: Implications for digital archiving and preservation.”

Laser scanning is superior to other methods commonly used to create a model because the procedure is noninvasive and doesn’t harm the original fossil, the authors say. Traditional molding and casting procedures, such as rubber or silicon molds, can damage specimens.

But the paleontologists call for development of standard formats to help ensure data accessibility.

“Currently there is no single 3D format that is universally portable and accepted by all software manufacturers and researchers,” the authors write.

Digitype is baseline for measuring future deterioration
SMU’s digital model archives a fossil that is significant within the scientific world as a type specimen — one in which the original fossil description is used to identify future specimens. The fossil also has cultural importance in Texas. The track is a favorite from well-known fossil-rich Dinosaur Valley State Park, where the iconic footprint draws tourists.

The footprint was left by a large three-toed, bipedal, meat-eating dinosaur, most likely the theropod Acrocanthosaurus. The dinosaur probably left the footprint as it walked the shoreline of an ancient shallow sea that once immersed Texas, Adams said. The track was described and named in 1935 as Eubrontes (?) glenrosensis. Tracks are named separately from the dinosaur thought to have made them, he explained.

“Since we can’t say with absolute certainty they were made by a specific dinosaur, footprints are considered unique fossils and given their own scientific name,” said Adams, a doctoral candidate in the Roy M. Huffington Department of Earth Sciences at SMU.

The fossilized footprint, preserved in limestone, was dug up in the 1930s from the bed of the Paluxy River in north central Texas about an hour’s drive southwest of Dallas. In 1933 it was put on prominent permanent display in Glen Rose, Texas, embedded in the stone base of a community bandstand on the courthouse square.

The footprint already shows visible damage from erosion, and eventually it will be destroyed by gravity and exposure to the elements, Adams said. The 3D model provides a baseline from which to measure future deterioration, he said.

In comparing the 3D model to an original 1930s photograph made of the footprint, the researchers discovered that some surface areas have fractured and fallen away. By comparing the 3D model with a synthetically altered version, the researchers were able to calculate volume change, which in turn enables reconstruction of lost volume for restoration purposes.

Model comprises 52 scans totaling 2 gigabytes
Adams and his research colleagues took a portable scanner to the bandstand site to capture the 3D images. They employed a NextEngine HD Desktop 3D scanner and ScanStudio HD PRO software running on a standard Windows XP 32 laptop. The scanner and laptop were powered from outlets on the bandstand. The researchers used a tent to control lighting and maximize laser contrast.

Because of the footprint’s size — about 2 feet by 1.4 feet (64 centimeters by 43 centimeters) — multiple overlapping images were required to capture the full footprint.

Raw scans were imported into Rapidform XOR2 Redesign to align and merge them into a single 3D model. The final 3D model was derived from 52 overlapping scans totaling 2 gigabytes, the authors said.

The full-resolution 3D digital model comprises more than 1 million poly-faces and more than 500,000 vertices with a resolution of 1.2 millimeters. It is stored in Wavefront format. In that format the model is about 145 megabytes. The model is free for downloading from a link on Palaeontologia Electronica‘s web site.

3D digital footprint also available as a QuickTime virtual object
A smaller facsimile is also available from the journal as a QuickTime Virtual Reality object. In that format, users can slide their mouse pointer over the 3D footprint image to drag it to a desired viewing angle, and zoom and pan. Click here for the link to the QuickTime video.

Besides the 3D model, included with the Palaeontologia Electronica article is a link to a pdf of the original 1935 scientific article in which SMU geology professor Ellis W. Shuler described and identified the dinosaur that made the track.

Shuler’s article, no longer in print, is “Dinosaur Track Mounted in the Band Stand at Glen Rose, Texas,” published in Field & Laboratory. The clay molds and plaster casts Shuler made of the bandstand track are now lost, Adams said. Click here for the article.

Besides Adams and Jacobs, other co-authors on the article are paleontologists Christopher Strganac and Michael J. Polcyn in the Roy M. Huffington Department of Earth Sciences at SMU.

The research was funded by the Institute for the Study of Earth and Man at SMU. — Margaret Allen

SMU is a private university in Dallas where nearly 11,000 students benefit from the national opportunities and international reach of SMU’s seven degree-granting schools. For more information see www.smu.edu.

SMU has an uplink facility on campus for live TV, radio or online interviews. To speak with Adams or to book him in the SMU studio, call SMU News & Communications at 214-768-7650.

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Health & Medicine Mind & Brain Videos

A new breathing therapy reduces panic and anxiety by reversing hyperventilation

Breakthrough “CART” treatment better than traditional cognitive therapy at altering hyperventilation and panic symptoms

http://www.youtube.com/watch?v=AcQsJnLBWpE

A new treatment program teaches people who suffer from panic disorder how to reduce the terrorizing symptoms by normalizing their breathing.

The method has proved better than traditional cognitive therapy at reducing both symptoms of panic and hyperventilation, according to a new study.

The biological-behavioral treatment program is called Capnometry-Assisted Respiratory Training, or CART, said psychologist and panic disorder expert Alicia E. Meuret at Southern Methodist University in Dallas.

CART helps patients learn to breathe in such a way as to reverse hyperventilation, a highly uncomfortable state where the blood stream operates with abnormally low levels of carbon dioxide, said Meuret, one of the researchers conducting the study.

Hyperventilation, a state of excessive breathing, results from deep or rapid breathing and is common in patients with panic disorders.

Book a live interview

To book a live or taped interview with Alicia Meuret in the SMU News Broadcast Studio call SMU News at 214-768-7650 or email news@smu.edu.

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“We found that with CART it’s the therapeutic change in carbon dioxide that changes the panic symptoms — and not vice versa,” Meuret said.

CART: Breathing exercises twice a day
During the treatment, patients undergo simple breathing exercises twice a day. A portable capnometer device supplies feedback during the exercises on a patient’s CO2 levels. The goal of these exercises is to reduce chronic and acute hyperventilation and associated physical symptoms. This is achieved by breathing slower but most importantly more shallowly. Contrary to lay belief, taking deep breaths actually worsens hyperventilation and symptoms.

“Most panic-disorder patients report they are terrified of physical symptoms such as shortness of breath or dizziness,” Meuret said. “In our study, cognitive therapy didn’t change respiratory physiology, but CART did effectively reduce hyperventilation. CART was proved an effective and powerful treatment that reduces the panic by means of normalizing respiratory physiology.”

The findings, “Respiratory and cognitive mediators of treatment change in panic disorder: Evidence for intervention specificity,” appeared in the Journal of Consulting and Clinical Psychology. Meuret, who developed CART, is an assistant professor in the Department of Psychology at SMU and co-directs the department’s Stress, Anxiety and Chronic Disease Research Program. The Beth & Russell Siegelman Foundation funded the research.

CART breathing a proven biological therapy
The study pitted CART against a conventional cognitive therapy treatment, or CT. Traditional CT teaches patients techniques aimed at helping them change and reverse catastrophic thoughts in order to reduce fear and panic.

In the CART-CT study, 41 patients were assigned to complete either a CART or CT treatment program for panic disorder and agoraphobia, a fear of being trapped with no means of escape or help.

Both treatment programs were equally effective in reducing symptoms, said Meuret. But CART was the only treatment to physiologically alter panic symptoms by actively reversing hyperventilation in the patients. Cognitive therapy didn’t change the respiratory physiology, said Meuret.

Treatment helps patients address terror associated with panic
The study is the second randomized control trial to measure CART’s effectiveness. By reversing hyperventilation, patients reported a new ability to reduce panic symptoms by means of changing their respiration.

With CT, Meuret said, if a patient reports shortness of breath, the therapist challenges the assumption by asking how often the person actually has suffocated during a panic attack, then hopes that will reverse the patient’s thinking.

“I found that process very challenging for some of my patients because it acknowledges the symptom but says it’s not a problem,” Meuret said.

“CART, however, tells us a patient’s CO2 is very low and is causing many of the symptoms feared, but it can also show how to change these symptoms through correct breathing. There has been an assumption that if people worry less about symptoms it will also normalize their physiology, but this study shows that this is not the case,” she said. “Hyperventilation remains unchanged, which could be a risk factor for relapse down the road. Apart from hyperventilation being a symptom generator, it is an unhealthy biological state associated with negative health outcomes.”

Broader study planned to measure CART
The researchers plan to branch out with their studies on CART by taking the program into the community, particularly to ethnic minorities. They believe CART is a more universally understood treatment due to its physical exercises — as opposed to cognitive therapy’s more intellectual methods — and therefore more accessible to a broader range of people with varying levels of education and different cultural backgrounds. Ongoing studies will test the efficacy of CART in patients with asthma and fear of blood.

Co-authors of the study at SMU were David Rosenfield, associate psychology professor, and psychology graduate students Anke Seidel and Lavanya Bhaskara. Stefan G. Hofmann, psychology professor at Boston University, was also an author on the paper. The research was funded by the Beth & Russell Siegelman Foundation. — Austin Reed

SMU is a private university in Dallas where nearly 11,000 students benefit from the national opportunities and international reach of SMU’s seven degree-granting schools. For more information see www.smu.edu.

SMU has an uplink facility on campus for live TV, radio or online interviews. To speak with Dr. Meuret or to book an interview with her in the SMU studio, call SMU News & Communications at 214-768-7650.

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ABC 8: Minnesota mine could yield secrets of the universe to SMU professor

The search for mysterious dark matter at an abandoned mine in Minnesota is the subject of “Minnesota mine could yield secrets of the universe to SMU professor,” which first aired Nov. 24 on WFAA Channel 8 in Dallas.

WFAA reporter Jonathan Betz interviewed SMU scientist Jodi Cooley, an assistant professor of experimental particle physics in the SMU Physics Department.

Cooley is a member of the collaboration on the Cryogenic Dark Matter Search (CDMS II) experiment.

The experiment is located deep in the Soudan Underground Laboratory in the abandoned Soudan Underground Mine in a national park in Minnesota.

Cooley was part of a scientific group of experimental particle physicists who earlier reported in the journal Science that they couldn’t rule out that they may have seen a glimpse of dark matter.

Physicists have been searching for dark matter — the substance that makes up most of the matter in the universe — for decades.

Read the full story.

EXCERPT:

By Jonathan Betz
WFAA

SOUDAN, Minnesota — It’s invisible, but people still look for it.
It’s cosmic, but confusing.

We’re talking about “dark matter.” Find it, and it’s worth millions.

For SMU physicists that — and curiosity — make it worth the search.

SMU professor Jodi Cooley tries to teach how the universe works. Still, it’s a subject even she doesn’t fully understand.

“I’ve always been attracted to things that are hard or difficult,” she said. “If people say, ‘It can’t be done,’ I’ve always said, ‘Really? Are you sure? I’m going to go do it!'”

It’s a drive that sends her to extremes.

Twice a year, Professor Cooley embarks on a journey that she hopes will take her to the farthest reaches of the universe.

That quest is by way of Soudan, Minnesota — a four-hour drive north of Minneapolis. It’s a place where the skies open to land untouched by developers, and tiny towns forged a century ago by people working underground.

It’s those old iron mines that now draw the country’s top minds to this remote location.

“We’re on the cutting edge,” Cooley said. “We’re trying things nobody has tried to do.”
Her day starts before the sun rises, traveling deep underground using the same elevator the original miners took in the 1920s.

It’s a bone-rattling three-minute drop in complete darkness, taking Cooley 2,000 feet under the earth’s surface.

And it is a striking case of old meets new, where the most sophisticated technology known to man is found in a mine that was dug in the late 1800s.

Read the full story.

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Fossils & Ruins Researcher news SMU In The News Videos

BBC Radio: PaleoAngola project unearths ancient vertebrate fossils

BBC Radio covered the research in Angola of SMU paleontologists Louis L. Jacobs and Michael J. Polcyn.

Journalist Louise Redvers in August interviewed Jacobs and Polcyn, both members of the Projecto PaleoAngola team.

A professor in Dedman College’s Roy M. Huffington Department of Earth Sciences, Jacobs joined SMU’s faculty in 1983.

Besides Angola, Jacobs also does field work in Mongolia. His book, “Lone Star Dinosaurs” (1999, Texas A&M University Press) was the basis of an exhibit at the Fort Worth Museum of Science and History that traveled the state. He consulted on the new exhibit, Mysteries of the Texas Dinosaurs, which opened in 2009.

In the laboratory, Jacobs’ research utilizes advanced imaging and stable isotope techniques to investigate paleoenvironmental, biogeographic and phylogenetic issues of the Mesozoic and Cenozoic eras.

Polcyn is director of the Visualization Laboratory in SMU’s Department of Earth Sciences and an SMU adjunct research associate.

A world-recognized expert on the extinct marine reptile named Mosasaur, his research interests include the early evolution of Mosasauroidea and adaptations in secondarily aquatic tetrapods. Polcyn’s research also includes application of technology to problems in paleontology.

Listen to the podcast:

http://www.youtube.com/watch?v=Uic2WosjxWM

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Culture, Society & Family Mind & Brain Technology Videos

Practicing assertiveness skills on virtual-reality “dates” may help women prevent sexual victimization

avatar-01-web.jpgIt’s a stormy night when a young man offers a young college woman a ride home. First he makes friendly small-talk. But then he becomes sexually aggressive and angry.

Can she get out of this situation without getting hurt?

While this could be a real experience for many women, in this case it’s virtual reality. The purpose is role-playing in a psychology laboratory at Southern Methodist University in Dallas.

Although realistic and scary, the role-playing is nevertheless a safe way to teach assertiveness skills to young women so they can resist sexual victimization, according to new research.

Read: “Can Virtual Reality Teach College Women Sexual Coercion and Rape-Resistance Skills
Read: “Extreme reality: Women avoid sexual assault in virtual zone

A pilot project in which women practiced assertiveness skills reduced sexual victimization considerably, say researchers Ernest Jouriles, Renee McDonald and Lorelei Simpson, psychologists in SMU’s Department of Psychology.

The researchers tracked participants in the assertiveness program over three months and found that women in a control group were sexually victimized at twice the rate of those who had practiced the skills.

New research in which women practice their newly learned skills on a virtual-reality “date” holds promise for making the program even stronger.

Jouriles, McDonald and Simpson will present the research in November at the annual conference of the Association for Behavioral and Cognitive Therapies.

Between 25 percent and 50 percent of American women will experience sexual coercion or sexual assault during their lifetime, according to the U.S. Department of Justice. Those in their teens and early 20s are at particularly high risk, research shows.

The toll on victims ranges from depression and anxiety to drug abuse, psychiatric symptoms and chronic medical conditions.

“Sexual assault prevention programs for young women are widely available,” says Jouriles, professor and chairman of the SMU Department of Psychology. “However, only a few have been scientifically evaluated. Although some of these programs have been shown to change young women’s knowledge and attitudes about sexual assault, they have not generally been shown to prevent actual assaults.”

mcdonald.jpg
SMU psychologists Ernest Jouriles and Renee McDonald.

Jouriles and McDonald designed the virtual reality program in collaboration with students and faculty at The Guildhall, SMU’s graduate-level video-game design program. They worked with Simpson to develop the assertiveness training program and are currently using the virtual-reality technology to enhance women’s practice experiences when they learn assertiveness skills.

To participate, a young woman wears a head-mounted display and earphones that allow her to navigate a make-believe sexually risky environment. It immerses her in a setting that feels genuinely threatening. She faces off against an avatar controlled by a live male actor, who delivers the dialogue and controls the speech and actions of the virtual date.

The department’s 10-foot-by-12-foot laboratory room is furnished with two adjoining bucket seats and a couch to replicate either the front seat of a car or a party setting.

Similar to a multi-player, interactive video game, the sophisticated head-mounted display streams computer-generated, 3D images. The perspective is first-person, which tracks and changes with the wearer’s head position. Earphones surround the wearer with the sounds of pounding rain and music from the car radio.

simpson.jpg
SMU psychologist Lorelei Simpson.

The woman experiences the make-believe environment from a seat next to the avatar. In a 10- to 12-minute role-play, the actor challenges the young woman’s assertiveness by gradually escalating the conversation from small-talk and flirtation to verbal sexual coercion and anger. The avatar’s lips move in sync with the actor’s speech, and his facial expressions and movements, such as changing the radio station and drinking beer, make the virtual interaction more natural.

Research by Jouriles and McDonald published in 2009 found that young women who practiced navigating the virtual reality environment had a stronger negative reaction to the sexual threat than did participants in conventional role-playing without virtual reality technology.

Although the study didn’t evaluate the reason for that difference, Jouriles and McDonald hypothesized that the virtual environment makes it easier for participants to become immersed in role-play. It’s possible that women in a conventional role-playing environment feel more self-conscious or that the situation is more artificial than women interacting with an avatar, which results in more guarded responses, they said.

McDonald is an associate professor. Simpson is an assistant professor.

Related links:
SMU Profile: Ernest Jouriles and Renee McDonald
Ernest Jouriles
Renee McDonald
Lorelei Simpson
SMU Department of Psychology
SMU Guildhall
Dedman College of Humanities and Sciences