Re: Celera ready for genome announcement

From: Stephen E. Jones (sejones@iinet.net.au)
Date: Tue Jun 06 2000 - 18:00:34 EDT

  • Next message: Susan Brassfield: "Re: Celera ready for genome announcement"

    Reflectorites

    Here are excerpts from BBC, Electronic Telegraph and CNN from 18 May-6 June
    2000, with my comments in square brackets.

    Steve

    =====================================================
    http://news.bbc.co.uk/hi/english/sci/tech/newsid_778000/778413.stm BBC
    ... 5 June, 2000 ... Celera ready for genome announcement ... The US
    company racing to produce the first "working draft" of the human genome
    is understood to have finished its task. Over the past few weeks, powerful
    computers at Celera Genomics have been trying to determine the exact
    order of the 3bn or so individual chemical building blocks, or bases, that
    make up our genetic code. ...this goal was finally achieved at the weekend.
    An official announcement is expected any day from the company ... This
    would pip the international team of publicly funded researchers who have
    also been trying to sequence and order all the DNA contained in human
    cells, and who are on schedule to make their own announcement later this
    month. However, the mark is a very fuzzy finishing line. None of Celera's
    data has been fully open to independent scrutiny. Furthermore, the rough
    drafts of both the private and public efforts will require extensive "proof
    reading". Further deep analysis will also be necessary to work out the
    locations of all the genes written in the DNA. ... This is the real end goal.
    The genes are the templates cells use to make the protein molecules that
    build and maintain our bodies. Understanding how they all work will take
    years - even decades. Some of the workings of genes may never be fully
    understood. ... Scientists will eventually be able to compare and contrast
    DNA from the mouse, the fruit fly (Drosophila melanogaster) and humans,
    as well as other animals such as the dog and chicken. Celera finished
    mapping Drosophila melanogaster in March and believe as many as 60% of
    the fly's genes will be found in human beings. This science, comparative
    genomics, is expected to open many new areas of research into the way
    genes work and the role they play in disease." [It is interesting that the
    closer they get to sequencing the human genome, the more cautious are the
    assessments of its immediate usefulness!]

    http://news.bbc.co.uk/hi/english/sci/tech/newsid_779000/779707.stm BBC
    ... 6 June, 2000 ... Black holes blow as well as suck Bubbles of hot gas
    shoot from a giant black hole ...Astronomers have seen a giant black hole
    blowing huge bubbles of hot gas. The supermassive black hole resides in
    what has long been considered a peculiar galaxy because of its unusual
    shape. Given the designation NGC 4438, the galaxy is in the Virgo cluster,
    50 million light-years from Earth. Hubble Space Telescope (HST) images
    of the galaxy's central region show a bubble rising from a dark band of
    dust. Another bubble comes from below the dust band and is just visible as
    dim red blobs in the close-up picture of the galaxy's core. The bubbles are
    made of hot gas. They are caused when material, initially drawn towards
    the black hole, is blown out again in opposite directions. The twin jets of
    matter sweep away all material in their paths. The jets eventually collide
    with a wall of dense, slow-moving gas. The collision produces the glowing
    material. ... black holes in small galaxies went relatively undernourished,
    weighing in at a mere few million solar masses....Black holes in the centres
    of giant galaxies however, some over one billion solar masses, were so
    engorged with gas they once blazed as quasars, the brightest objects in the
    cosmos. "This supports the original theory of how black holes got their
    masses. It suggests that the major events that made a galaxy and the ones
    that made its black hole shine as a quasar were the same events," ...
    Though this secret relationship between a black hole and its host galaxy has
    been suspected for the past several years, it is bolstered by the Hubble
    discovery of 10 more supermassive black holes in galaxy centres, raising
    the total to more than 30 black holes now available for study. "For the first
    time we can put strong constraints on the relationship between galaxy
    formation and black hole formation and growth,".... [A satisfying tie-up
    between black holes and quasars.]

    http://www.telegraph.co.uk/et?ac=000113078204876&rtmo=LlLGdNLd&atmo=ttttllSd &pg=/et/00/5/31/nsec31.html
    Electronic Telegraph ... 31 May 2000. Poll boost for Section 28 ... THE
    government in Scotland suffered a humiliating defeat in Britain's first
    privately funded referendum yesterday after more than one million Scots
    voted to retain Section 28, the law that bans the promotion of
    homosexuality in schools. Ministers dismissed the ballot, funded by Brian
    Souter, the multi-millionaire Stagecoach owner, as "a glorified opinion
    poll" and "chequebook democracy". But it will increase pressure on Tony
    Blair to back down in his fight to abolish the legislation in England. ... With
    87 per cent of the poll's respondents opposing repeal, Scottish ministers are
    under pressure to offer further concessions, including legally binding
    safeguards and a greater emphasis on the importance of marriage. Mr
    Souter's referendum, arranged in an attempt to prove to the executive that
    it was at odds with public opinion, sent ballot papers to all of Scotland's 3.9
    million voters. It asked whether they agreed or disagreed with the repeal of
    Section 28. Of the 1,272,202 ballot papers returned, 1,094,000 voted to
    retain the clause, while 166,406 voted to abolish it. The response was 32
    per cent, higher than the turnout in European elections, local council
    elections and the London mayoral election. More people opposed repeal
    than voted for Labour at last year's Scottish Parliament elections. ...
    Although it has no legal status, the result is a blow to the Prime Minister
    following the Government's defeat over Section 28 in the Lords. In March
    a cross-party coalition of peers defeated Mr Blair's proposals for replacing
    Section 28 in England and Wales with new guidelines for sex education in
    schools. The Lords endorsed a Tory amendment that would force the
    Government to put a greater emphasis on the importance of marriage. ...
    Labour, Liberal Democrat and crossbench peers joined forces with Tories
    to block abolition. Mr Blair let it be known that he was no longer willing to
    compromise. He plans to use his powers to appoint extra Labour peers to
    give the Government the majority it needs to win in the Lords. ... Mr
    Souter said he would drop his campaign if the importance of marriage were
    stressed in teaching and said the "moderate" demands had already been
    conceded by Westminster. He said: "Holyrood is now looking isolated and
    extreme." [Probably off-topic, but it does shows that adherence to
    traditional `Christian' morality is not yet dead among ordinary people, who
    may not have had the `value' of a materialist university education, even if it
    may be dead among most politicians and bureaucrats who have!]

    http://news.bbc.co.uk/hi/english/sci/tech/newsid_769000/769915.stm BBC
    ... 30 May, 2000 ...Listen to public, says Dolly scientist ... The leading
    genetic scientist involved in the cloning of Dolly the Sheep has called on his
    colleagues to take note of public concerns about the progress of genetic
    science. Professor Ian Wilmut led a team at the Roslin Institute near
    Edinburgh that led to the birth of Dolly, the first cloned mammal, in 1996.
    She was revealed to the public following year. Speaking at a seminar on
    public confidence in biomedical science at the Royal Society of Edinburgh,
    Prof Wilmut warned there was a danger in missing scientific opportunities
    because of public fears and misunderstandings. He said research projects
    should continue to be innovative and ambitious or there would be a "real
    danger" of missed opportunities. But he added: "We must deal with the
    public's concerns in order to get their support, not only through charitable
    donations but also in Parliament in supporting their MPs. ... "There should
    be very ambitious research projects and we should not be at all shy or
    embarrassed about that. You are much more likely to find something new
    and interesting if you are looking where no one has looked before." "But
    decisions on techniques and treatments cannot be left to those directly
    involved, such as scientists, doctors, patients and family, because they are
    too closely involved. "Rather society, through informed public opinion
    should provide a framework for these decisions." Prof Wilmut told the
    conference there was a "clear obligation" on the academic and commercial
    communities to explain their research objectives, their potential value and
    any risks associated with them. ... [A rebuff to the arrogant we-know-best
    attitude of Steve Jones (the other) and Dawkins from a *real* scientist!]

    http://news.bbc.co.uk/hi/english/sci/tech/newsid_768000/768736.stm BBC
    ... 29 May, 2000 ... Call for ban on GM humans ... The genetic
    modification of human beings should be banned until more is known about
    the science, according to a leading genetic scientist. Eric Lander, who is
    director of the Whitehead Institute at the Massachusetts Institute of
    Technology, said there was nothing stopping scientists experimenting but
    he would be "appalled" if they did. ... During a lecture, sponsored by
    Nature magazine, at the Hay-on-Wye literary festival in Powys, mid-Wales,
    he said the ban need not necessarily be permanent. But, he said, it should
    be kept in place until more is known about what is involved. "At present
    there is nothing stopping anyone from doing this type of thing," he said.
    "But I would be appalled to wake up and find that someone had produced
    the first genetically-modified child. "We should ban the genetic
    modification of humans for now, with the understanding that we would still
    be able to come back to the issue later." ... Professor Lander - whose
    institute has been responsible for 30% of the results in the Human Genome
    Project which is studying the genetic makeup of human beings - said the
    first draft of the human genome sequence would be published this autumn.
    The project, he added, was the biological equivalent of the chemical table
    of elements. "Just as the table of elements completely changed our
    understanding of chemistry, when you know all the components (of the
    human genome) and the complex relationships between them, it changes
    everything," he explained. Mr Lander said explained that the "revolution"
    in the understanding of biological processes resulting from the project was
    already being used in world-wide laboratories every day. ... [Ah. Hay-on-
    Wye. The nearest thing to heaven on Earth. The GM story is interesting
    too! :-)]

    http://www.telegraph.co.uk/et?ac=000113078204876&rtmo=3m38uKmM&atmo=rrrrrr Gq&pg=/et/00/5/25/ecrlab25.html
    Electronic Telegraph 25.05.00 ... View from the lab: What Charles can
    learn from Darwin Professor Steve Jones on how Charles Darwin can put
    Prince Charles straight on GM crops CHARLES DARWIN, that prince
    among scientists, spent long hours playing a bassoon to his plants. Charles
    Windsor - a prince among, well, princes - would no doubt approve: what
    could be more in harmony with nature than to eat organic oatmeal biscuits
    to the sound of a wind ensemble, and if one can hug trees, surely one might
    with equal profit serenade them? Darwin ("evolution" - quotes our future
    ruler - "is a man-made theory to explain the origin and continuance of life
    on this planet without reference to a creator") was not searching for his
    inner self or that of his leafy friends, but doing an experiment (a pastime
    not much appreciated by the heir to the throne). It led, oddly enough,
    straight to the world of high-tech agriculture that Prince Charles so
    deplores... Plant hormones are today used as weedkillers and the touch
    genes themselves may soon be engineered to give fruits that fall from the
    tree in a breath of wind as soon as they are ripe. The green movement
    would, of course, disapprove; and perhaps all this - to quote our Prince -
    just reduces the natural world to nothing more than a mechanical process.
    But is there not something magical about these impenetrable layers of
    scientific rationalism; about how calmodulins connect bassoons with bonsai
    and pattering rain with beating hearts? Why turn to mere romance in the
    vain search for a guiding hand? ... Biology cannot answer that question or
    others like it: but Shelley filled his Oxford room with crucibles and
    chemicals (which hints at why his sister wrote a book so useful to those
    who decry Frankenstein foods). He saw no contradiction between the
    world of the spirit and that of science and would have been delighted to
    learn that cooling passions are indeed linked to falling leaves. And might
    the Prince himself be dissuaded from his mystical meanderings by the
    discovery that if you hug a tree you stunt its growth? [Did Prince Charles
    really say "evolution...is a man-made theory to explain the origin and
    continuance of life on this planet without reference to a creator"? Sounds
    like he has been reading Phil Johnson! The arrogance of the scientific
    materialist spirit shows in Jones' this sarcastic reply. That scientific
    materialists have had some success in finding out how the material world
    works, is granted. But from a Christian theistic viewpoint they are
    *discovering* the laws of the Creator, not making them. Jones and his
    Darwinist ilk seem to think that such discovery entitles them as a modern-
    day priesthood to ride rough-shod over the values of others who don't
    share their materialist philosophy.]

    http://www.cnn.com/2000/TECH/space/05/25/mars.meteorite/index.html
    CNN ... Rare Mars meteorite discovered in Middle East ... May 25, 2000
    .... (CNN) -- A meteorite hunter combing the deserts of Oman found a
    stone thought to have originated on Mars. Of the 20,000 known meteorite
    discoveries, the brownish gray stone is only the 15th identified as coming
    from the red planet, scientists said this week. ... The rock has chemical
    similarities to a Mars meteorite found in Antarctica in 1984, which some
    NASA researchers said exhibits fossilized signs of microscopic life. ... "I
    understand about 800 grams (28 ounces) of it will on the market soon" ...
    Called the Dhofar 019, the 1,056-gram (37-ounce) stone seems to be made
    of martian basalt. It was picked up in the Dhofar region of the Sultanate of
    Oman, which occupies the eastern corner of the Arabian Peninsula. Oman's
    diverse geography includes beaches and mountains and the type of barren
    stretches that attract meteorite hunters. "Desert regions seems to be good
    regions because things stand out like a sore thumb..." [I wonder if NASA
    will want to study this one for signs of Martian life?]

    http://www.telegraph.co.uk/et?ac=000113078204876&rtmo=fqf033ls&atmo=mmmm mmQR&pg=/et/00/5/18/ecfear18.html
    Electronic Telegraph 18.05.00 ... Eyes, ears - and brains A young brain's
    ability to adapt is enormous ... WHEN a young animal's brain is "rewired",
    so that visual signals are directed to the part dedicated to hearing, it is able
    to see with the mind's ear. The discovery provides a striking example of
    how the brain is moulded by early influences, demonstrating that, in
    principle, a person who has damage to the vision centres of the brain - the
    visual cortex - could obtain limited vision by routing nerves from the eye to
    new brain centres. In practice, much work remains to be done to
    understand the development of brain pathways before even contemplating
    this kind of rewiring, which would work only in a very young brain which
    is more "plastic". Although the auditory cortex successfully interpreted
    information from the eyes of animals in the study, it did not do the job as
    well as the visual cortex would have, suggesting that while the brain's
    ability to adapt is enormous, it is limited by genetic programming. The
    study demonstrates that brain areas will take on new functions if new
    inputs are provided early in development. ... Instead, the brain can be
    shaped by stimulation. "This is a profound discovery that addresses age-old
    questions about whether the brain is genetically programmed or shaped by
    the environment," ... "This provides dramatic evidence of the ability of the
    developing brain to adapt to changes in the external environment, and
    speaks to the enormous potential and plasticity of the cerebral cortex - the
    seat of our highest abilities." Research indicates that the visual cortex in
    people who are blind from birth is involved in non-visual tasks, such as
    touch reading of braille, and congenitally deaf people may use their
    "auditory" cortex for vision. "The brain requires the right kind of input to
    develop certain types of function," Prof Sur said. "One reason no two
    brains are alike is that they do not receive the identical inputs during
    development." ...environmental cues apparently play a large role in shaping
    those that are already there. However, there is a limit to how much the
    character of a brain cell can be changed beyond that laid down in its genetic
    programming. Prof Sur's experiments show that "the effect of the
    environment can be enormous, but brain connections are not entirely
    independent of a basic genetic program. The answer is not entirely genetic
    or entirely environmental". When signals are routed from the eye to the
    auditory cortex, they alter the circuitry there to resemble circuitry and
    connectivity in the visual cortex, yet still retain some auditory features.
    "These connections and networks do form, but remain somewhat different
    from those in the primary visual cortex," Prof Sur said. "There is less
    graceful organisation in the rewired auditory cortex than in the primary
    visual cortex." [Fascinating! More evidence of a far-sighted intelligent
    Designer creating the prior potential for a more general purpose neural
    capacity than a `blind watchmaker' would have done?]

    http://www.telegraph.co.uk/et?ac=000113078204876&rtmo=fqf033ls&atmo=mmmm mmQR&pg=/et/00/5/18/ecnches18.html
    Electronic Telegraph 18.05.00 ... Chess masters pit wits and pride to stop
    machine becoming champion ... A COMPUTER is contesting a national
    chess championship for the first time in Rotterdam. Frisco Nijboer, the
    Dutch grand master, slid the white king's pawn forward, took a sip of
    water and looked up at his opponent. It was a conditioned reflex. Nijboer
    was playing Fritz the computer and Fritz, competing in the Dutch national
    championships, was not about to give anything away through body
    language. ... The creator of Fritz's program, Frans Morsch, a Dutchman,
    input the coordinates of Nijboer's move on a keyboard. Within seconds the
    computer delivered its response. Nijboer had barely time to put his glass
    down. A black pawn moved forward to block his white adversary. ... Fritz
    is the first computer ever allowed to compete in a national championship
    and the move has appalled traditionalists and many of the world's leading
    players, including Britain's Nigel Short, a former world championship
    finalist. They argue that national tournaments are about man versus man,
    not man versus machine. And they are horrified by the prospect of a
    computer being the chess champion of the Netherlands, one of the stronger
    chess-playing nations - by Friday night Fritz was joint second with six
    games to play. ... Fritz's presence has altered the mood of the tournament.
    Another grand master, Paul van der Sterren, has boycotted it, while
    Manuel Bosboom resigned in protest after four moves of his game against
    Fritz. "Computers don't belong here," he said. "They are ugly and absurd."
    Others are playing on and, despite the complaints, are curious about their
    electronic rival. ... The computer terminal is only the top half of Fritz. The
    rest is hidden below the stage. The package includes four powerful
    processors containing a huge database on all the participants in the
    championships, along with a large store of game openings and endgame
    strategies. The speed of its responses can be demoralising. The talented
    Jeroen Piket, 31, who has twice beaten Garry Kasparov and drew with
    Fritz last week, said: "I'd spend 15 minutes deciding on a move, then he'd
    reply in a few seconds. It's a bit shocking." The players accept that
    computers have an important role to play in helping people learn the game
    and prepare for matches. But they say machines have unfair advantages in
    top-level tournaments. Fritz has a record of all the moves played by his
    opponents in their previous matches, enabling him to work out how they
    are likely to respond to his moves. The human players can study opponents'
    past strategies before a game but not during it. There are other crucial
    factors. Fritz never tires, his mood is never affected by a bad night's sleep
    or a row with his wife and he is impervious to psychological warfare. ...
    But Nigel Short, a world championship finalist against Garry Kasparov in
    1993, said: "The Dutch Chess Federation must have gone completely nuts.
    You wouldn't let a power boat compete in a swimming event or a forklift
    truck in a weightlifting competition." [I agree with Short. It is not that
    computers are more powerful at actually playing chess than the top
    grandmasters-I don't believe they are. It is that they have access to online
    information during a game that humans don't have. A human would be
    disqualified for reading a chess opening or endgame theory book during a
    match. Cut out all these unfair advantages and I believe that top human
    grandmasters will beat top computer chess programs. The on-topic aspect
    of this is that this is a problem for materialist AI theories of mind, since the
    machines don't know they are playing chess but the human mind does!]

    http://www.telegraph.co.uk/et?ac=000113078204876&rtmo=fqf033ls&atmo=mmmm mmQR&pg=/et/00/5/18/ecneden18.html
    Electronic Telegraph 18.05.00 ... New Eden takes shape under huge glass
    spheres .... A NEW Eden was partially opened this week. It even has two
    models of a modern day Adam and Eve with not a fig leaf between them. ...
    The models are at the "entrance to the GBP79 million Eden Project in
    Cornwall. They are undressed before visitors' eyes in a demonstration of
    what would happen in a world without plants. The project, which has
    received almost half of its funding from the Millennium Commission, will
    open fully in May next year, recreating the different environments of the
    world inside two enormous glass spheres which cover an area the size of
    12 football pitches and are high enough to contain Nelson's Column. ... The
    project is designed to educate and inspire, and the message throughout is
    one of conservation. Mr Smit said: "This is a spectacular international
    showcase for the study of human dependence on plants." That explains the
    automated undressing of the models at the entrance. A push of a button
    shows what happens without plants - first the food goes from the table,
    then the table and the chairs disappear, the clothes are stripped from the
    models and finally the family cat dies when its food supply and the oxygen
    in the air vanish. ... [Interesting how science has nothing better than the
    Biblical Adam and Eve when it needs to get across important basic truths
    about mankind to ordinary people.]
    =====================================================

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    "We conclude-unexpectedly-that there is little evidence for the neo-
    Darwinian view: its theoretical foundations and the experimental evidence
    supporting it are weak, and there is no doubt that mutations of large effect
    are sometimes important in adaptation." (Orr H.A., & Coyne J.A., "The
    Genetics of Adaptation: A Reassessment," The American Naturalist, Vol.
    140, No. 5, November 1992, p.726)
    Stephen E. Jones | sejones@iinet.net.au | http://www.iinet.net.au/~sejones
    --------------------------------------------------------------------------



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