Huge genetic-screening effort helps pinpoint roots of breast cancer

Heidi Ledford in Nature:

A massive study of nearly 4,000 variants in a gene associated with cancer could help to pinpoint people at risk for breast or ovarian tumours. The information is sorely needed: millions of people have had their BRCA1 gene sequenced. Some variations in the DNA sequence of BRCA1are linked to breast and ovarian cancer; others are thought to be safe. But the effects of most variants are unknown, leaving patients and physicians alike at a loss to interpret the results. The study, published on 12 September in Nature1, examined the effects of thousands of such variants on the survival of cells grown in the laboratory. The findings could help physicians to interpret the mutations’ significance. For example, a variant that hampers a cell’s ability to repair DNA in the lab might also be linked to cancer in the clinic.

…The American College of Medical Genetics and Genomics recognizes about 60 genes for which screening might suggest a medical plan to preventor reduce the effects of a disease. Yet often when people find out that their genes include unusual DNA sequences , they are at a loss to interpret that finding. “These variants are nightmarish,” says Alvaro Monteiro, a geneticist at the Moffitt Cancer Center in Tampa, Florida. “The result becomes: ‘Well, you have something, but we just don’t know exactly what it is.’” Assays for genetic causes of hearing loss are a prime example: about half of the people who undergo such testing find out that they carry variants whose significance is unknown, says Heidi Rehm, a geneticist at the Broad Institute of MIT and Harvard in Cambridge, Massachusetts. “It’s a definite challenge in all genetic testing areas,” she says.

More here.

In Pakistan, journalists’ fear and censorship grow even as fatal violence declines

Report from Committee to Protect Journalists:

When CPJ traveled to Karachi, Islamabad, Peshawar, Lahore, and Okara earlier this year, journalists, including freelancers and those from established media companies, painted a picture of a media under siege. Many traced the changes to two events in 2014: a shooting that injured Geo TV anchor Hamid Mir and led to a fallout among media groups and with the military, and the aftermath of a terrorist attack in Peshawar that left over 130 students dead. The military garnered widespread praise for its crackdown on militancy after the school attack, which resulted in a sharp decline of terrorist incidents—and in turn, violence against journalists. Yet the stepped-up activity put the military in position to exert even greater control. The military already wields influence and power in Pakistan, where it is deeply embedded in society, as well as the country’s economic and political systems.

The armed forces are seen widely as an effective institution that holds the nation together, and offers protection. To the east, Pakistan faces India, a far larger and powerful neighbor that is considered hostile, and with whom it has a territorial dispute over Kashmir. To the west is Afghanistan, unstable and with a porous, mountainous border that creates obstacles to security. Internationally, the U.S. has used Pakistan as a staging area for operations in Afghanistan, even as it launches drone strikes against militants on Pakistani territory—an issue of nationalist ire. While the military submits to the formalities of civilian rule, it sees itself as a bulwark against what some view as the chaos of democratic politics. But it remains sensitive to criticism or allegations, such as its apparent support for terrorist groups in neighboring countries, including the Afghan Taliban and Lashkar-e-Taiba, which is accused of staging the 2008 Mumbai terrorist attack.

More here.

Friday Poem

The Latin Deli

Presiding over a formica counter,
plastic Mother and Child magnetized
to the top of an ancient register,
the heady mix of smells from the open bins
of dried codfish, the green plantains
hanging in stalks like votive offerings,
she is the Patroness of Exiles,
a woman of no-age who was never pretty,
who spends her days selling canned memories
while listening to the Puerto Ricans complain
that it would be cheaper to fly to San Juan
than to buy a pound of Bustelo coffee here,
and to Cubans perfecting their speech
of a “glorious return” to Havana–where no one
has been allowed to die and nothing to change until then;
to Mexicans who pass through, talking lyrically
of dólares to be made in El Norte–
……………………………………………….. all wanting the comfort
of spoken Spanish, to gaze upon the family portrait
of her plain wide face, her ample bosom
resting on her plump arms, her look of maternal interest
as they speak to her and each other
of their dreams and their disillusions–
how she smiles understanding,
when they walk down the narrow aisles of her store
reading the labels of packages aloud, as if
they were the names of lost lovers; Suspiros,
Merengues, the stale candy of everyone’s childhood.
……………………………………………….. She spends her days
slicing jamón y queso and wrapping it in wax paper
tied with string: plain ham and cheese
that would cost less at the A&P, but it would not satisfy
the hunger of the fragile old man lost in the folds
of his winter coat, who brings her lists of items
that he reads to her like poetry, or the others,
whose needs she must divine, conjuring up products
from places that now exist only in their hearts–
closed ports she must trade with.

by Judith Ortiz Cofer
from After Atzlan
David R. Godine, publisher, 1992

Thursday, September 13, 2018

Viktor Orbán’s ‘Total Offensive’ on Culture

László Győri at Eurozine:

Film and theatre are not the only cultural sectors to have come into Fidesz’s crosshairs – the offensive was indeed ‘total’. For example, shortly after Orbán assumed power, the National Cultural Fund was restructured. Originally an independent body, it was responsible for distributing subsidies across all cultural sectors. A great advantage of the cultural fund was that it was independent of government. But Orbán subordinated it to a minister and a secretary of state, who henceforth had the power to revise the decisions of the committees responsible for the various cultural sectors. In summer 2010, members of the Cultural Fund’s councils responsible for publishing were replaced with Fidesz sympathizers. The procedure appeared paradoxical. The state created a fund which was charged not only with distributing money, but also with ensuring that decisions be made by qualified representatives. However, the government then intervened to ensure that these qualified, elected experts could not make democratic decisions about the money.

more here.

Inside Susan Sontag’s Extensive FBI File

JPat Brown, B. C. D. Lipton, and Michael Morisy at Literary Hub:

The Bureau had received credible evidence regarding Sontag’s trip to Hanoi—a feature in Esquire describing her experiences talking to leading figures of the North Vietnamese government, including Prime Minister Pham Van Dong, that would later be adapted into the book Trip to Hanoi.

Though the New York office did produce a comprehensive report on the origins of the article and all of Sontag’s previous antiwar activity (citing a total of nine informants, whose names remain redacted) within the two week deadline, the investigation into Sontag stretched on for another two years. A 1971 memo from the Department of State confirmed that Sontag hadn’t sought or received permission for her travel to North Vietnam, and another memo from what appears to be French intelligence was passed on from the CIA.

more here.

On Alcohol and Art

Rozalind Dineen at the TLS:

It would be uncool, priggish, unthinking to care too much about the artist’s intoxication. Torments require relief and expression: numbing and utterance; alcohol and art. You can’t unpick the work from the circumstances of its creation, nor should you want to. In 1975, the critic Lewis Hyde tried caring about Berryman. A few years after the poet’s death, Hyde published an essay, an angry blast against the romanticization of the inebriated artist. When Hyde read The Dream Songs he didn’t hear the genius so much as “the booze talking”. “Its tone is a moan that doesn’t revolve.” Hyde seemed to believe – unfashionably – that Berryman’s work would have been better had he been sober.

In The Recovering, Leslie Jamison returns to this myth of whiskey and ink, as a writer, an academic and an alcoholic. When, a few years sober herself, Jamison read Hyde on Berryman, she “whispered a secret ‘Amen’”. She wanted “to believe that giving up booze didn’t mean giving up electricity, and Hyde was suggesting that the fruits of alcoholic composition weren’t glorious but deeply compromised”.

more here.

The Strange History of Myers-Briggs and the Birth of Personality Testing

Jennifer Szalai in the New York Times:

Merve Emre’s new book begins like a true-crime thriller, with the tantalizing suggestion that a number of unsettling revelations are in store. Early in “The Personality Brokers: The Strange History of Myers-Briggs and the Birth of Personality Testing,” she recalls the “low-level paranoia” she started to feel as she researched her subject: “Files disappear. Tapes are erased. People begin to watch you.” Archival gatekeepers were by turns controlling and evasive, acting like furtive trustees of terrible secrets. What, she wanted to know, were they trying to hide?

It takes a while to realize that Emre has gotten you hooked under arguably false pretenses, but what she finally pulls off is so inventive and beguiling you can hardly begrudge her for it. The revelations she uncovers are less scandalous than they are affecting and occasionally (and delightfully) bizarre. Emre, a professor of English at Oxford, wrote a previous book on the surge of readers in postwar America, and she knows that a story is inextricable from how it’s told. “The Personality Brokers” is history that reads like biography that reads like a novel — a fluid narrative that defies expectations and plays against type.

More here.

Fake miniatures depicting Islamic science have found their way into the most august of libraries and history books. How?

Nir Shafir in Aeon:

As I prepared to teach my class ‘Science and Islam’ last spring, I noticed something peculiar about the book I was about to assign to my students. It wasn’t the text – a wonderful translation of a medieval Arabic encyclopaedia – but the cover. Its illustration showed scholars in turbans and medieval Middle Eastern dress, examining the starry sky through telescopes. The miniature purported to be from the premodern Middle East, but something was off.

Besides the colours being a bit too vivid, and the brushstrokes a little too clean, what perturbed me were the telescopes. The telescope was known in the Middle East after Galileo developed it in the 17th century, but almost no illustrations or miniatures ever depicted such an object. When I tracked down the full image, two more figures emerged: one also looking through a telescope, while the other jotted down notes while his hand spun a globe – another instrument that was rarely drawn. The starkest contradiction, however, was the quill in the fourth figure’s hand. Middle Eastern scholars had always used reed pens to write. By now there was no denying it: the cover illustration was a modern-day forgery, masquerading as a medieval illustration.

More here.

The United States Has a National-Security Problem—and It’s Not What You Think

Rajan Menon in The Nation:

So effectively has the Beltway establishment captured the concept of national security that, for most of us, it automatically conjures up images of terrorist groups, cyber warriors, or “rogue states.” To ward off such foes, the United States maintains a historically unprecedented constellation of military bases abroad and, since 9/11, has waged wars in Afghanistan, Iraq, Syria, Libya, and elsewhere that have gobbled up nearly $4.8 trillion. The 2018 Pentagon budget already totals $647 billion—four times what China, second in global military spending, shells out and more than the next 12 countriescombined, seven of them American allies. For good measure, Donald Trump has added an additional $200 billion to projected defense expenditures through 2019.

Yet to hear the hawks tell it, the United States has never been less secure. So much for bang for the buck.

For millions of Americans, however, the greatest threat to their day-to-day security isn’t terrorism or North Korea, Iran, Russia, or China. It’s internal—and economic.

More here.

The new science of psychedelics

Tim Martin in New Statesman:

Seventy-five years ago, in April 1943, the research chemist Albert Hofmann did something distinctly out of scientific character. Impelled by what he later called a “peculiar presentiment”, he resolved to take a second look at the 25th in a series of molecules derived from the ergot fungus, a drug he had discovered some years earlier and dismissed as of no scientific interest. As he synthesised it for the second time, it made contact with his skin, giving rise to an unprecedented experience: a “stream of fantastic pictures [and] extraordinary shapes with intense, kaleidoscopic play of colours”. Five days later, on 19 April, he decided to test the chemical on himself under controlled conditions, thus becoming the first person in history knowingly to embark on an acid trip.

Intermittently ever since, psychonauts and countercultural enthusiasts have celebrated 19 April as “Bicycle Day”, in recognition of this Ground Zero of Western psychedelia. After cautiously ingesting a dose of LSD-25, Hofmann enlisted the help of a lab assistant and wobbled home on his bicycle, while his vision “wavered and distorted as though in a curved mirror”. Sprawled on the sofa, he underwent a “severe crisis” that, viewed through the telescope of 75 years of psychedelic experience, looks endearingly familiar: one in which demonic terrors, mystical encounters and loss of ego alternated with fantastic imagery, synaesthetic perception and a desire to drink “more than two litres” of the milk provided by a neighbour. This year, however, those celebrating Bicycle Day did so against a new background. After decades in the shadow of the 1960s counterculture, psychedelic drugs have emerged once again into the light of scientific orthodoxy. Researchers at major universities – Johns Hopkins in the US, Imperial College in London – have, over the past 20 years, been conducting experiments at growing scale to assess the effects of substances such as LSD, MDMA and psilocybin, the psychedelic compound in magic mushrooms. Their results suggest that these powerful molecules, long stigmatised as drugs of self-gratification or abuse, may instead be miracle treatments for the most intractable disorders of our time: depression, isolation, addiction and post-traumatic stress.

More here.

On the use and misuse of civility

Lewis H. Lapham in Lapham’s Quarterly:

The storms of rivalry and feud currently blowing through America’s internet portals rise to the wind-scale force of Wagnerian opera, but it’s hard to know whether the sound and fury is personal, political, or pathological. The stagings of vengeful lies to destroy a graven Facebook image, or the voicing of competitive truth that is the vitality of a democratic republic? The problem doesn’t yield to zero-sum solution. Hesiod’s twin Strifes are permanent members of the human condition; neither of them can be impeached. The pagan Greek poet was clear on the point. During his own lifetime, he was familiar with the news and fake news of the Trojan War wandering around on the eastern Mediterranean lecture circuit, and he would have known that cursed Strife “brings forth discord, nurtures evil war,” killed Hector, Agamemnon, and Achilles, bears “great honors to…gift-guzzling kings”; known also that blessed Strife launched a thousand ships, “spurs a man who otherwise would shirk” to surpass his neighbor in “racing to reach prosperity.” The difficulty is the knowing which one is which, with which one a man is better advised to keep company—with “mischief making,” “eavesdropping in the marketplace,” and the “spying on quarrels,” or trying to do his best with the Strife that is nearer to hand.

Machiavelli during his lifetime was personally acquainted with the cursed Strife inflicted on Florence by gift-guzzling Medici princes, also with the bonfiring of the city’s beloved vanities at the behest of Friar Girolamo Savonarola, a vengeful Dominican monk preaching the word of God as a howl of rage against the world, the flesh, and the devil. The history books tend to portray Machiavelli as a cynical Italian courtier supplying despots with murderous raisons d’état. The spin is travesty. Machiavelli was an idealistic civil servant who was also a poet and playwright seeking to provide early sixteenth-century Florence with a republican form of government. He rated the task as the most worthy of human endeavors when supported by a citizenry animated with the will to act instead of the wish to be cared for. To promote his effort to equip Florence with a civilian militia, and acting on his authority as second chancellor of the Florentine republic, Machiavelli in 1503–4 encouraged both Michelangelo and Leonardo da Vinci to burnish the walls of the Great Council Hall with the scene of a famous battle in which the free city of Florence defeated a rival city dependent for its freedoms on hired mercenaries.

More here.

Thursday Poem

Two Guitars

Two guitars were left in a room all alone
They sat on different corners of the parlor
In this solitude they started talking to each other
My strings are tight and full of tears
The man who plays me has no heart
I have seen it leave out of his mouth
I have seen it melt out of his eyes
It dives into the pores of the earth
When they squeeze me tight I bring
Down the angels who live off the chorus
The trios singing loosen organs
With melodious screwdrivers
Sentiment comes off the hinges
Because a song is a mountain put into
Words and landscape is the feeling that
Enters something so big in the harmony
We are always in danger of blowing up
With passion
The other guitar:
In 1944 New York
When the Trio Los Panchos started
With Mexican & Puerto Rican birds
I am the one that one of them held
Tight    like a woman
Their throats gardenia gardens
An airport for dreams
I’ve been in theaters and cabarets
I played in an apartment on 102nd street
After a baptism pregnant with women
The men flirted and were offered
Chicken soup
Echoes came out of hallways as if from caves
Someone is opening the door now
The two guitars hushed and there was a
Resonance in the air like what is left by
The last chord of a bolero.
.
by Victor Hernández Cruz
from”Two Guitars” from Maraca: New and Selected Poems, 1965-2000.
Coffee House Press. 2001

Wednesday, September 12, 2018

What We Talk About When We Talk About Liberalism

Helena Rosenblatt in the Boston Review:

Recent primaries have given Democrats reasons for hope, but they have also exposed fault lines within the party. Divisions are visible in the very labels used to describe them. Many use the word “liberal” as a catchall to describe left-of-center politics in general, but self-described leftists and members of the Democratic Socialists of America often characterize liberals and Democrats as their opponents—viewing them as the compromising centrists standing in the way of a more progressive or socialist agenda.

The language is telling. Some are “liberal Democrats,” others “establishment liberals.” Then there are “leftist” liberals and “progressive” ones. Alexandria Ocasio-Cortez, who ousted incumbent Joe Crowley in the Democratic primary for New York’s fourteenth congressional district, calls herself a “democratic socialist,” but she favors “progressive” policies. Andrew Gillum, by contrast, winner of the Democratic gubernatorial primary in Florida, favors a “progressive” platform, but categorically denies being a “socialist.” And Ayanna Pressley’s win in the seventh congressional district in Massachusetts has been described as the victory of an “unapologetic liberal” against the more “quiet” Michael Capuano—who is, nevertheless, “more liberal than Nancy Pelosi.”

Is this semantic murkiness a problem? Historian Sean Wilentz thinks it is, arguing recently in Democracy Journal that the confusion of terms reflects the “momentous muddle” in which Democrats find themselves.

More here.

Online Bettors Can Sniff Out Weak Psychology Studies, So why can’t the journals that publish them?

Ed Yong in The Atlantic:

Psychologists are in the midst of an ongoing, difficult reckoning. Many believe that their field is experiencing a “reproducibility crisis,” because they’ve tried and failed to repeat experiments done by their peers. Even classic results—the stuff of textbooks and TED talks—have proven surprisingly hard to replicate, perhaps because they’re the results of poor methods and statistical tomfoolery. These problems have spawned a community of researchers dedicated to improving the practices of their field and forging a more reliable way of doing science.

These attempts at reform have met resistance. Critics have argued that the so-called crisis is nothing of the sort, and that researchers who have failed to repeat past experiments were variously incompetentprejudiced, or acting in bad faith.

But if those critiques are correct, then why is it that scientists seem to be remarkably good at predicting which studies in psychology and other social sciences will replicate, and which will not?

Consider the new results from the Social Sciences Replication Project, in which 24 researchers attempted to replicate social-science studies published between 2010 and 2015 in Nature and Science—the world’s top two scientific journals.

More here.

With a single scholarly article, Lina Khan, 29, has reframed decades of monopoly law

David Streitfeld in the New York Times:

The dead books are on the top floor of Southern Methodist University’s law library.

“Antitrust Dilemma.” “The Antitrust Impulse.” “Antitrust in an Expanding Economy.” Shelf after shelf of volumes ignored for decades. There are a dozen fat tomes with transcripts of the congressional hearings on monopoly power in 1949, when the world was in ruins and the Soviets on the march. Lawmakers believed economic concentration would make America more vulnerable.

At the end of the antitrust stacks is a table near the window. “This is my command post,” said Lina Khan.

It’s nothing, really. A few books are piled up haphazardly next to a bottle with water and another with tea. Ms. Khan was in Dallas quite a bit over the last year, refining an argument about monopoly power that takes aim at one of the most admired, secretive and feared companies of our era: Amazon.

More here.

Jack Whitten’s Sculpture

Albert Mobilio at Bookforum:

In 1969 the painter Jack Whitten arrived in the town of Agia Galini, on the Greek island of Crete. Shortly before leaving New York he’d had a dream in which he was commanded to find a tree and carve it. From the bus window he spied the tree from his dream. He approached the owner, but because Whitten couldn’t speak Greek, the man thought he was saying he wanted to cut it down. Whitten came up with a plan to communicate his aim: “I went into the surrounding hills, found some wood and set up shop on the harbor beneath some trees.” The owner understood immediately and even lent Whitten his tools. The totem he carved still stands in the town—a fisherman looks to the sea, an octopus winds around the trunk, and at the very top “is a large fish with its tail pointing to the sky.” This account, published in Notes from the Woodshed, a volume of the artist’s reflections on his art and practice, provides a key to understanding the gestural, communicative power of Whitten’s sculpture. Just as he was able to impart meaning by doing rather than speaking that first day on Crete, his sculptures—currently exhibited for the first time in a show that has arrived at the Met Breuer (New York)—express their strong emotional and spiritual content by foregrounding the physical acts of their creation. Carved, chiseled, polished, and hammered into insinuating, assertive shapes, these pieces make viewers feel the actual work, and sense the very grip of the artist’s hand on the hammer as it finds the chisel’s head.

more here.

Becoming Kathy Acker

Chris Kraus interviews Olivia Laing at The Paris Review:

Yes, it was incredibly liberating, both to invent the character and to help myself to the ravishing grab-bag of Acker’s own work. Crudo is probably the only book I’ve really enjoyed writing, because it was so fast and so free. It was such a relief to ditch the I, but to keep all the real details of the world, to collage it together rather than inventing it afresh. I definitely have a horror of making shit up, but I also have a horror of confessional writing. It’s like the case studies in I Love Dick, I do want to write about the personal (mine, Acker’s, David Wojnarowicz’s and so on), but for political reasons.

What do you think of autofiction as a term? It makes me feel a bit sick, but I don’t quite know why. I think it’s the idea that it’s some vogueish new style, rather than something writers have always done. Is Proust writing autofiction? Is Virginia Woolf? What do you think about it, and roman-a-clef? Is that what you see yourself as doing? And why anyway do people feel such an urge to pin things down in terms of genre?

more here.

The Jobs Problem

Matthew Desmond at the New York Times:

Democrats may scoff at Republicans’ work requirements, but they have yet to challenge the dominant conception of poverty that feeds such meanspirited politics. Instead of offering a counternarrative to America’s moral trope of deservedness, liberals have generally submitted to it, perhaps even embraced it, figuring that the public will not support aid that doesn’t demand that the poor subject themselves to the low-paying jobs now available to them. Even stalwarts of the progressive movement seem to reserve economic prosperity for the full-time worker. Senator Bernie Sanders once declared, echoing a long line of Democrats who have come before and after him, “Nobody who works 40 hours a week should be living in poverty.” Sure, but what about those who work 20 or 30 hours, like Vanessa?

Because liberals have allowed conservatives to set the terms of the poverty debate, they find themselves arguing about radical solutions that imagine either a fully employed nation (like a jobs guarantee) or a postwork society (like a universal basic income).

more here.