Behind the bespoke cells of immunotherapy

From Nature:

It seemed like a very promising cancer immunotherapy lead. CHO Pharma, in Taiwan, had discovered that it was possible to target solid tumours with an antibody against a cell-surface glycolipid called SSEA-4.1 This antigen is present during embryonic development, but not seen on human cells again — until they turn into cancer cells.2 The company turned to Lan Bo Chen, a recently retired Harvard pathologist, to help develop this work into an anti-cancer therapy for solid tumours. “It is highly reasonable to imagine that we can use SSEA-4, overexpressed on cancer cells, as a target for CAR-T,” says Chen, now in his role as senior technology advisor for CHO Pharma.

CAR-T therapy works by genetically engineering a person’s own T cells in such a way that they recognize and attack cancer cells. This involves creating a chimeric antigen receptor (CAR) from an antibody against a target on the cell. But CAR-T therapy was designed for blood cancers so it needs several adaptations to make it suitable for the treatment of solid tumours.3 The cells need to be directed to the site of the tumour, survive in the tumour’s local microenvironment, and act only on tumour cells, not on healthy cells nearby.

But, when Chen tried to create CAR-T cells against SSEA-4, he hit a few obstacles. First it took him a long time to get his hands on a humanized SSEA-4 antibody suitable for adaptation. When he finally had one, he still had to find a way to turn that antibody into a CAR. And then to insert the CAR into a human T cell using lentiviral transduction.

More here.

Friday, December 10, 2021

Why Stories Are Like Taking Drugs

Jonathan Gottschall in Literary Hub:

According to the English poet and philosopher Samuel Taylor Coleridge (1772-1834), enjoyment of fiction requires a “willing suspension of disbelief”—a conscious decision. We say to ourselves, “Well, I know this story about Beowulf battling Grendel is hooey, but I’m going to switch off my skepticism for a while so I can enjoy the ride.”

But that’s not how it works. We don’t will our suspension of disbelief. If the story is strong, if the teller has style and craft, our suspension of disbelief just happens to us. Think of the metaphors we commonly use to describe what stories feel like. Narrative transportation is always something don’t to us, not by us. It’s a force we’re subject to, not something we control.

We think of storytellers as metaphorical bruisers who overpower us and hold us down—they hookgriprivet, and transfix.

More here.

Revisiting the “Tsar Bomba” nuclear test

Jennifer Ouellette in Ars Technica:

The detonation of the first nuclear bombs over Hiroshima and Nagasaki in August 1945 is seared into our collective memory, and the world has been haunted by the prospect of a devastating nuclear apocalypse ever since. Less well-known but equally significant from a nuclear arms race standpoint was the Soviet Union’s successful detonation of a hydrogen “superbomb” in the wee hours of October 30, 1961.

Dubbed “Tsar Bomba” (loosely translated, “Emperor of Bombs”), it was the size of a small school bus—it wouldn’t even fit inside a bomber and had to be slung below the belly of the plane. The 60,000-pound (27 metric tons) test bomb’s explosive yield was 50 million tons (50 megatons) of TNT, although the design had a maximum explosive yield of 100 million tons (100 megatons).

More here.

A Monthly Ritual of Selflessness Has Transformed Rwanda

Tolu Olasoji in Reasons to be Cheerful:

Jean Luc remembers how, when he was very young, his parents would leave their house in Kimihurura, a neighborhood of Kigali, once a month in a good mood. He didn’t know what they were smiling about.

“I would always eavesdrop on my parents whenever they came [back] from it,” he says. “It always seemed like something that brightened their Saturdays.”

Now 21 years old, it brightens Luc’s Saturdays, too.

Luc, along with just about every able-bodied Rwandan aged 18 to 65, participates in the monthly activity known as “Umuganda,” a Kinyarwanda word that means “coming together in common purpose.” On the last Saturday of every month, from 8 to 11 a.m., Rwandans across the country gather together to partake in community improvement projects. In Luc’s neighborhood, this has meant trimming back bushes that attract malaria-spreading mosquitoes, and making sure roads are clear of trash and debris. “It not only ensured that we have a clean environment,” he says, “but also had a long-run positive effect on our health and physical wellbeing. And you know what they say, a healthy nation leads to a wealthy nation.”

More here.

Purgatorio, Purgatorio, Purgatorio

Cynthia Haven at The Book Haven:

Purgatory seems to be on people’s minds this year – we have several new translations of Dante’s canticle to consider in time for Christmas. Fortunately, we have Dantista Robert Pogue Harrison to do the considering for us in the current holiday issue of the New York Review of Books.

Your choices: a Graywolf Purgatorio translated by poet Mary Jo Bang, another translation by Scottish poet and psychoanalyst D.M. Black (with a preface by Harrison himself – read about it here) from New York Review Books, and finally After Dante: Poets in Purgatory: Translations by Contemporary Poets edited by Nick Havely with Bernard O’Donoghue and published by Arc in Yorkshire. Harrison gives especial attention to a different kind of translation, from words into art: Illustrations for Dante’s Inferno by the late Rachel Owen, edited by David Bowe and published by Oxford’s Bodleian Library.

more here.

Remember The Time Mario Vargas Llosa Punched Gabriel García Márquez?

Walker Caplan at Lit Hub:

Today in 1982, Gabriel García Márquez received the Nobel Prize for “his novels and short stories, in which the fantastic and the realistic are combined in a richly composed world of imagination, reflecting a continent’s life and conflicts.” Twenty-eight years later, Mario Vargas Llosa would win for “his cartography of structures of power and his trenchant images of the individual’s resistance, revolt, and defeat.” This double win could have been a source of joy for both of them; the two were longtime friends, and Vargas Llosa wrote his doctoral thesis on One Hundred Years of Solitude. Alas, in both 1982 and 2010, the two weren’t on speaking terms—because in 1976, a romantic scandal led Vargas Llosa to sucker punch Márquez in the face at a movie screening, ending their relationship.

more here.

America’s origin stories abound with complexities

Barbara Spindel in The Christian Science Monitor:

“An argument without end” is how Joseph J. Ellis characterizes history in “The Cause: The American Revolution and Its Discontents, 1773-1783,” one of several notable fall releases on America’s Revolutionary War era. Like “The Cause,” new works by historians H.W. Brands and Woody Holton and novelist Matthew Pearl, making his nonfiction debut, are evidence that when it comes to the story of America’s origins, the argument continues to evolve. These books look beyond the Founding Fathers to consider early American history from a fascinating range of perspectives.

The title of Ellis’ engaging military and political history derives from the name that the colonists gave their rebellion against the British Empire. The conflict was not, at first, referred to as a revolution: The colonists’ original demands, to be accorded their full rights as British citizens, were hardly revolutionary. The changing meaning of The Cause, which eventually came to encompass independence, was reflected in Thomas Paine’s visionary and transformative 1776 pamphlet “Common Sense,” which shifted the conversation from British rights to natural rights.

The author deftly examines how that broader meaning, with its expansive view of freedom and liberty, could coexist with the denial of the rights of enslaved people and Native Americans. The American republic, he observes, “was born betraying the principles it claimed to be founded on.”

More here.

Democracy as a Complex Adaptive System

Steven Novella in NeuroLogica:

What do economics, biological evolution, and democracy have in common? They are all complex adaptive systems. This realization reflects one of the core strengths of a diverse intellectual background – there are meaningful commonalities underlying different systems and areas of knowledge. In fact, science and academia themselves are complex adaptive systems that benefit from diversity of knowledge and perspective. All such systems benefit from diversity, and suffer when that diversity is narrowed, possibly even fatally.

recent collection of studies focuses on American democracy as a complex adaptive system, and explores the mathematical underpinnings of how democracies behave and change over time in response to specific variables. Some of the insights are not surprising, but the research adds mathematical rigor to these phenomena. For example, you will likely not be surprised to learn that social media echochambers (what they call “epistemic bubbles”) lead to increased polarization of political views. But how, exactly, does this happen? What various researchers found is that when we obtain our political news from a network of like-minded people several things happen. First, the group tends to narrow over time in terms of political diversity. This happens because those who are considered “not pure enough” are ejected from the network, or leave because they feel less welcome. Further, people within the network tend to get access to less and less political news total, and the news they are exposed to is increasingly polarized. This doesn’t happen when such networks do not routinely share political news to begin with.

The core problem, therefore, seems to be the diversity of sources of information. Similar networks of people, in fact, can have a moderating effect on individual members, if the group maintains a diversity of sources of information reflecting a diversity of political opinions. Further, a healthy moderating effect is supported by individual members exploring outside the group for sources of information.

These patterns follow similar mathematical trends to other very different phenomena in other complex adaptive systems. For example, such trends tend to be non-linear, meaning the more extreme they get the more the trend accelerates. Further, there seems to be tipping points of no return. Once such information networks are radicalized beyond a certain point there may be no way back. Their models indicate that Republicans are likely already beyond this tipping point, while Democrats are rapidly approaching it.

What, then, can be done?

More here.

Friday Poem

October

My wife sits reading in a garden chair
Pope’s Moral Essays by the failing light,
As Leaves turn epileptic in the air
And through the woods some poachers, and the night.

Pope’s natural habitat: a bullet rips
The homespun silence and the volume slips,
But catching it she finds her place in time
And never drops the stitches of a rhyme.

Braving the season in the name of wit,
She holds each couplet in such close esteem
No maniac can put a hole in it.
The year’s in tatters, but she makes a seam;

The house is civil, though the wood’s insane,
And man’s the missing link who lets the chain-
Of-being shake. It’s hanging by a hair.
My wife is reading in a garden chair.

by Barry Spacks
from
Strong Measures
Harper Collins, 1986

Thursday, December 9, 2021

A Dazzling Synthesis: On Amitav Ghosh’s “The Nutmeg’s Curse”

Delia Falconer in the Sydney Review of Books:

For Ghosh, our insistence on carrying on as normal in the face of the unthinkable is the enabling madness at the centre of modernity’s addiction to extraction and consumption.  At a time in which ‘the wild has become the norm,’ and ‘freak’ events such as tornadoes are becoming more common, he wrote, we are suffering in the ‘West’ from a ‘crisis of imagination’.

American-based Ghosh—academically trained with a doctorate from Oxford in anthropology—is an eloquent synthesiser and his book, which began as a series of 2015 lectures for the University of Chicago, drew on many of the major ideas bubbling in this field. Historian Dipesh Chakrabarty was the earliest to lay out, in a ground-breaking 2009 paper, the potential of this new epoch, in which human activity has become the planet’s driving force, to also destabilise the very pillars of humanist thought, incuding the distinction between natural and human history. Philosopher Tim Morton had written about the sticky unthinkability of huge changes like global heating across time and space; while other writers, like Robert Macfarlane had described the uncanniness of our moment as once long-scale change accelerates around us. Perhaps most closely informing Ghosh’s project was the galvanising argument, put forward by philosopher Bruno Latour in 2014, that the Earth, agitated by global heating, really was speaking to us.

More here.

Why did we wait so long for the bicycle?

Jason Crawford in Roots of Progress:

The bicycle, as we know it today, was not invented until the late 1800s. Yet it was a simple mechanical invention. It would seem to require no brilliant inventive insight, and certainly no scientific background.

Why, then, wasn’t it invented much earlier?

I asked this question on Twitter, and read some discussion on Quora. People proposed many hypotheses, including:

    • Technology factors. Metalworking improved a lot in the 1800s: we got improved iron refining and eventually cheap steel, better processes for shaping metal, and ability to make parts like hollow tubes. Wheel technology improved: wire-spoke (aka tension-spoked) wheels replaced heavier designs; vulcanized rubber (1839) was needed for tires; inflatable tires weren’t invented until 1887. Chains, gears, and ball bearings are all crucial parts that require advanced manufacturing techniques for precision and cost.
    • Design iteration. Early bicycles were inconvenient and dangerous. The first version didn’t even have pedals. Some versions didn’t have steering, and could only be turned by leaning. (!) The famous “penny-farthing” design, with its huge front wheel, made it impossible to balance with your feet, was prone to tipping forward on a hard stop, and generally left the rider high in the air, all of which increased risk of injury. It took decades of iteration to get to a successful bicycle model.

More here.

East of Zionism: In 1900 my grandfather’s generation imagined a modernising Arab world, multireligious and progressive. What happened?

Ussama Makdisi in Aeon:

My paternal grandfather Anis was born an Ottoman subject in 1885 but died an Arab citizen. He passed away in 1977 at the age of 92, two years into Lebanon’s civil war. Raised in Tripoli when all the Arab East lay under Ottoman sovereignty, and educated in American mission schools that dotted the Empire in its last century, Anis Khoury Makdisi became a distinguished professor of Arabic at the American University of Beirut. Best known for his works on Arabic literature, he was known as ‘Ustadh Anis’ – a teacher of generations of students of Arabic in the Middle East’s most renowned modern university. He was also a proud member of the Arabic language academies of Cairo and of Damascus, institutions that embodied a modern age of coexistence that shaped the Arab Muslims, Christians and Jews of my grandfather’s generation.

More here.

Creating a Better Leaf

Elizabeth Kolbert in The New Yorker:

This story begins about two billion years ago, when the world, if not young, exactly, was a lot more impressionable. The planet spun faster, so the sun rose every twenty-one hours. The earliest continents were forming—Arctica, for instance, which persists as bits and pieces of Siberia. Most of the globe was given over to oceans, and the oceans teemed with microbes.

Some of these microbes—the group known as cyanobacteria—had mastered a peculiarly powerful form of alchemy. They lived off sunlight, which they converted into sugar. As a waste product, they gave off oxygen. Cyanobacteria were so plentiful, and so good at what they did, that they changed the world. They altered the oceans’ chemistry, and then the atmosphere’s. Formerly in short supply, oxygen became abundant. Anything that couldn’t tolerate it either died off or retreated to some dark, airless corner. One day, another organism—a sort of proto-alga—devoured a cyanobacterium. Instead of being destroyed, as you might expect, the bacterium took up residence, like Jonah in the whale. This accommodation, unlikely as it was, sent life in a new direction. The secret to photosynthesis passed to the alga and all its heirs.

A billion years went by. The planet’s rotation slowed. The continents crashed together to form a supercontinent, Rodinia, then drifted apart again. The alga’s heirs diversified.

One side of the family stuck to the water. Another branch set out to colonize dry land. The first explorers stayed small and low to the ground. (These were probably related to liverworts.) Eventually, they were joined by the ancestors of today’s ferns and mosses. There was so much empty space—and hence available light—that plants, as one botanist has put it, found terrestrial life “irresistible.” They spread out their fronds and began to grow taller. The rise of plants made possible the rise of plant-eating animals. During the Carboniferous period, towering tree ferns and giant club mosses covered the earth, and insects with wingspans of more than two feet flitted through them.

More here.

All the Biomass on Earth

Iman Ghosh in Nautilus:

Our planet supports approximately 8.7 million species, of which over a quarter live in water. But humans can have a hard time comprehending numbers this big, so it can be difficult to really appreciate the breadth of this incredible diversity of life on Earth. To fully grasp this scale, we draw from research from “The biomass distribution on Earth,” by Yinon M. Bar-On, Rob Phillips, and Ron Milo to break down the total composition of the living world, in terms of its biomass, and where we fit into this picture.

Why Carbon?

A “carbon-based life form” might sound like something out of science fiction, but that’s what we and all other living things are. Carbon is used in complex molecules and compounds—making it an essential part of our biology. That’s why biomass, or the mass of organisms, is typically measured in terms of carbon makeup. In our visualization, one cube represents 1 million metric tons of carbon, and every thousand of these cubes is equal to 1 Gigaton (Gt C). Here’s how the numbers stack up in terms of biomass of life on Earth:

Ghosh_BREAKER-CHART1

Plants make up the overwhelming majority of biomass on Earth. There are 320,000 species of plants, and their vital photosynthetic processes keep entire ecosystems from falling apart. Fungi is the third most abundant type of life—and although 148,000 species of fungi have been identified by scientists, it’s estimated there may be millions more.

More here.

On Robert Lowell

Rosanna Warren at Salmagundi:

Robert Lowell is, for me, the inescapable elder poet, and Day by Day is the inescapable book. It is where you go if you want to see where American poetry last set into major balance an art fully aware of its traditions and an experimental openness to unliterary raw material. Leaving behind the ruck and rubble of Notebook and History, it steps beyond the Cyclopean masonry blocks of the unrhymed sonnets of The Dolphin and ventures into irregular but adamantine shapes of feeling and thought. The smashed sonnets may suggest the smashed life or lives the book loosely recounts: aging friends, dead friends, dead parents, are summoned; a marriage is chronicled in its dilapidations; mental breakdown sends the suffering speaker once again to a hospital. From these wreckages and from the wreck of stricter verse form, Lowell has saved the aphoristic essentials, and broken through to poetic renewal in the very recognition of failure. Sacrifice, truly executed, earns recompense, and these poems do.

more here.

Devi: Seeing and Believing

Devika Girish at The Current:

A pair of kohl-lined eyes bores through the screen in the first few moments of Satyajit Ray’s Devi (1960), as the blank visage of a clay idol of Goddess Durga—held in close-up behind the opening credits—acquires bold, painted features. In Hindu myth, Durga and her wrathful avatar, Kali, are both forms of Devi, the all-powerful Mother Goddess. When the camera pulls away from the idol to reveal a village celebration of Durga Puja, the melodic strings of the score giving way to the diegetic din of bells and fireworks, it’s as if the legend of the Mother Goddess has been reified: the world has come into boisterous being around her.

The scene is both an anomaly in Ray’s work, with its gothic shadings, and a kind of signature shot. Often in the Bengali auteur’s lyrical, literary films, a set of curious eyes leads us into a world, and into a nascent point of view. Think of our introduction to Apu in Pather Panchali (1955), Ray’s triumphant debut feature and the first entry in The Apu Trilogy: Apu’s sister, Durga, pries one of his eyes open through a hole in his blanket to wake him up for school.

more here.