pardis sabeti

pardis sabeti 2


intro’d to Pardis here (resonating with: rna\ness; www ness; io dance ness; .. et al):

tedwomen may 2015 – How we’ll fight the next deadly virus

we’re bonded through a shared humanity

one ness

take 99 diff viruses and show trail of virus.. contact tracing.. mutation tracing… diagnostics/vacciness based on that.. have to recalibrate…

hannah epperson et al…. living off the imperfections in the looping

i could have worked in silo.. submitted paper.. et al.. that’s the way the status quo works.. that wasn’t going to work… we just published to web and said.. help us.. and help came…

5 min the amount of human capacity is amazing.. can you imagine .. instead of being frightened of each other.. we all said.. let’s do this…

so many opportunities get missed..

6 min – the data has still not come.. we are still waiting.. tweaking away in silos.. rather than working together… we can’t accept that.

i need you to wake up ness – for (blank)’s sake….

ebola like all threats to humanity .. it’s fueled by mistrust/distraction/division.. when we build barriers amongst ourselves.. fight amongst ourselves.. the virus thrives…

i hope that we work together..

kenema – clear like a river, translucent, open to the public gaze.. we had to work openly/share/work together…

we have the tech and the capacity.. but we can only do it if we do it together and with joy..

pardis sabeti

let us not let the world be defined by destruction wrought by one virus.. but illuminated by billions of hearts/minds working in unity.


2012 – written by Seth Mnookin

the conversation in the car segues to music, as it often does with Sabeti. Besides being an award-winning scientist, she’s the lead singer and bass player in the indie rock band Thousand Days, which has released four albums. “I have no innate sense of flux or flow or spatial cadence,” she says, explaining why the melodies in Thousand Days songs “go all over the place.” (Still, the band, which can sound like a spikier, more energetic version of 10,000 Maniacs, received an honorable mention in a Billboard World Song Competition.) “I have no sense of structure.”

or maybe you do..

antifragility – an art ist.. stigmergy/whimsy/natural style..

her recent work to understand the genetic factors that influence individual human responses to diseases like malaria, as well as her genetic analyses of pathogens to pinpoint potential weaknesses, could potentially lead to new approaches to treating, and perhaps eradicating, deadly scourges.Beyond that, Sabeti says she wants to show the world that the best way to produce top-flight scientific work is to nurture researchers’ humanity and empathy—and have fun.

late 1990s, when she was an undergraduate advisee at MIT. “She had this boundless optimism that she could make [MIT] a better place,” he says. And so, along with being class president, playing varsity tennis, serving as a teaching assistant and publishing original research, Sabeti started MIT’s Freshman Leadership Program. The five-day curriculum—focusing on “inclusivity, empowerment, value defining and leadership skill building”—is still going strong.

“She was able to create this just through sheer force of will,” Lander says. “She has this force of will and a caring about making the world a better place, really fixing the world.”


Pardis Sabeti was born in Tehran, Iran, in 1975, where her father, Parviz, was a high-ranking official in the shah’s government. Two years later, on the cusp of the Iranian revolution, the Sabeti family fled to the United States, eventually settling in Florida. “My father took one of the toughest jobs in the government because he cared about his nation more than himself,” Pardis says. “His courage and conviction have always driven me to want to make a difference.”


Sabeti was convinced that there was a way to pinpoint when more recent changes in the human genome had occurred and that this knowledge could lead to breakthroughs in fighting disease. Specifically, she wanted to use the makeup of neighborhoods of genes (called haplotypes) to determine if a specific gene variation (called an allele) in a given neighborhood had recently come to prominence in a population because it conferred an evolutionary advantage. This should be possible, she thought, by using the never-ending process of genetic recombination—the breaking and rejoining of DNA strands—as a kind of clock to measure how long ago a given mutation had swept through a population.


If a widespread mutation had appeared recently—…—fewer recombination events would have occurred since it was introduced. As a result, the mutated version of that allele should be on a stretch of DNA that was more or less identical for everyone in a population. If the mutation had appeared a longer time ago, recombination would dictate that the area around the mutated allele would have gone through more random recombination events and it would be on a stretch of DNA that was more varied across the population.


It was a radical approach: Instead of using existing tools to analyze new data, she was trying to develop new tools to use on available data.


“I was just charting my path in my own weird ways.”

idiosyncratic jargon ness

“I was just sort of beside myself with excitement,” she says. “It’s a really exciting moment when you know something about the whole world that no one else does. I wanted to call somebody, but didn’t know anybody I felt comfortable calling at 3 a.m.”

ray et al

For the first time, researchers could look for evidence of positive selection by testing common haplotypes even if they didn’t have “prior knowledge of a specific variant or selective advantage.” By applying this approach to pathogens, there was the possibility of identifying how diseases had evolved to outwit the human immune response or develop drug resistance—knowledge that would open up new avenues to combating disease.


Wayne Gretzky. “He was asked, ‘Why are you always where the action is?’ And he responded, ‘I don’t skate to where the puck is, I skate to where the puck is going to be.’ That’s the reason she’s able to make all of these fundamental contribution


“I realized that I had become interested in a [virus that has]…very few people working on it,” she says. “In order to do that I just had to figure out how to do it myself.”

quiet enough.. to get deep enough


Emerging Disease or Emerging Diagnosis?” She and her co-authors speculate that Ebola and Lassa might not be emerging diseases at all, but instead represent the “emerging diagnosis of a disease that has long been common but overlooked” and had “interacted with humans for far longer than generally thought.”….. If the LARGE gene mutation common in West Africa was selected for because it helped humans resist infection with Lassa virus, mimicking changes caused by the gene could pave the way for treatments, or perhaps even a Lassa vaccine.

rna\ness et al


recent marriage to John Rinn, an assistant professor of stem cell and regenerative biology at Harvard. … a specialist in RNA genetic material, …an avid snowboarder …..Sabeti’s initial approach to computational genomics was assumed to be a waste of time, as was Rinn’s early work on large intervening non-coding RNAs, or LINCs.


jan 2018 piece

Compelling piece from @PardisSabeti on how 2 scientific fields made major course corrections: one (social psych) attacked its scientists’ integrity; the other (genomics) “returned to an agnostic baseline” w/o recrimination & advanced its people + ideas.

Original Tweet:

Good science requires a spirit of collaboration, not domination.

By and large, leaders in my field consciously chose to evolve through greater rigor and collaboration rather than by “gotcha.” We engaged other geneticists as if they came from an honest place. We returned to an agnostic baseline, rather than one of irrational loyalty to — or abnegation of — previous research conducted under earlier norms. We updated the literature incrementally, shared data, and worked together to establish standards. The field continually corrected itself..t

assume good.. save energy

As a scientist, I am interested in seeing how rigorous investigations shed light on psychological phenomena, including power posing. It will require more effort to elucidate the mechanisms by which power posing affects people..t

science of people ness

We may finally have the tools, data, and perspective to answer questions that affect all of us so intimately — but only if the revolution holds itself to the same high scientific standards that it promotes, rather than shunning so many researchers that none are left to explore these fundamental questions..t 

as it could be

ie: hlb via 2 convos that io dance.. as the day..[aka: not part\ial.. for (blank)’s sake…]..  a nother way


find/follow Pardis:

link twitter

Associate professor using computational genomics towards understanding and impacting infectious disease. Follow the lab

wikipedia small

Pardis C. Sabeti (Persian: پردیس ثابتی‎‎) (born December 25, 1975) is an Iranian-Americancomputational biologist,medical geneticist and evolutionary geneticist, who developed a bioinformatic statistical method which identifies sections of the genome that have been subject to natural selection and an algorithm which explains the effects of genetics on the evolution of disease.

In 2014, Sabeti headed a group which used advanced genomic sequencing technology to identify a single point of infection from an animal reservoir to a human in the Ebola outbreak in West Africa. RNA changes suggests that the first human infection was followed by exclusive human to human transmissions.


Sabeti is a full professor in the Center for Systems Biology and Department of Organismic and Evolutionary Biology at Harvard University and on the faculty of the Center for Communicable Disease Dynamics at the Harvard School of Public Health, and is a senior associate member at the Broad Institute.

Sabeti also is the current host of the educational series “Against All Odds: Inside Statistics” sponsored by Annenberg Learner. Her show is included in many high school statistics curriculums, such as the Statistics 1 course


a nother way via self talk as data

let’s do this firstfree art-ists.