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Re: [DIYbio] Re: DIYbio Europe Kick-off meeting

This sounds awesome! I am excited to hear what happens.

On Nov 30, 2012 9:44 AM, "Thomas Landrain" <thomas.landrain@gmail.com> wrote:
... Can't wait :)

On 30 nov. 2012, at 15:21, Thomas Landrain <thomas.landrain@gmail.com> wrote:

Tomorrow 50 biohackers and Biohack enthusiasts will be working on the future Amateur biology European network. Can't 

On 29 nov. 2012, at 15:02, TRolandB <williambeaufoy@gmail.com> wrote:

Hey Thomas,

At our meeting last night we discussed what we'd (London biohackers) like to get out of the meeting on saturday.

If you like we'll give a little presentation on what we're up to.

We then looked at the issues we're facing and thought it would be good to have workshops on these issues to we can share info with other groups.

- Getting supplies / equipment
- Getting outside funding
- project ideas and collaboration
- legal hurdles
- how best to share information

Looking forward to it!

On Tuesday, 20 November 2012 16:56:16 UTC, Thomas Landrain wrote:
Hello dear DIYbio fellows! :)

Our kick-off meeting is approaching fast :) I'd like to remind you that registration is free but mandatory. Already more than 30 people are registered! Register at http://www.diybioeurope.eventbrite.com
Don't hesitate to come with several people from your local biohacklab as we will be mainly having discussions and workshops, and the more we are the more fun and pertinent it will be! 
Also very importantly, I'd like to ask participants to start thinking and answering relevant questions concerning DIYbio Europe (See the meeting abstract or below) it will help the meeting to be much more fruitful! Don't even hesitate to share them on this mailing list so that we start warming the discussion now ;)
Concerning the persons unable to attend, if you wish to register a message presenting yourself and your ideas for implementing a DIYbio organization and projects, you can either submit it to me directly or warn me that you'd like to perfrom a skype conference on the day of the event. I need this in order to sharpen the program.
See you in 11 days now!
Cheers!
Thomas

- What are the advantages of creating a (in)formal DIYbio Europe organization? What kind of help should this organization provide to the local DIYbio labs and amateurs?

- What shape should this organization take ? (informal, association, foundation,...)

- What projects would you like to do that would better benefit from being deployed at a European scale?

- What kind of interface between the DIYbio.Eu organization and the local groups?

- What kind of funds? European Commision? Crowdfunding? Membership?

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Re: [DIYbio] Re: Excitation Spectra for Wildtype GFP?

Ah, but I'm explicitly planning to sell it open sourcey, so both me and my customers would be at risk..

xmort <moravec@ueb.cas.cz> wrote:
As long as you don't want to commercialize your final construct/product of  that construct, I wouldn't bother much with patent protection of GFP. In most countries patent infringement in academic and  non-for profit research is either tolerated or even explicitly made  possible by the law.  Even if you do plan to comemrcialize it eventually, the eGFP variant might expire by then so its kind of OK to use it.  Most generic companies work on patented drugs years before the original patent expires, so that they can market the generic version the day patent actually expires. 


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Re: [DIYbio] Vibrio fischeri isolation

Ah, ok... So the substrate that lux CDE uses, right? So adding those genes which make the precursor will enhance luminescence much more than gene copy?

Well, I hope it's V.fischeri, because the operon is very compact. So one PCR with two primers can ghet you all the lux genes needed.

The structure of P.Phosphoreum is more seperated. IIRC, the flavin reductase gene is not even in the operon -> 2 PCRs needed



On Fri, Nov 30, 2012 at 3:59 PM, Cathal Garvey <cathalgarvey@gmail.com> wrote:
Yea, copy number of the DNA isn't the limiting factor in
bioluminescence: quantity of inputs is much more limiting.
You can get great luminescence from natural Vibrio species, and they can
be easier to grow in pure culture if you isolate Vibrio phosphoreum
rather than Vibrio fischeri (if it's bright blue and can grow at 4C,
odds are it's phosphoreum).

Sadly, my cultures of phosphoreum don't seem to have survived long-term
freezer storage, but they're satisfying to re-isolate when lost!

Unfortunately, they smell pretty bad during growth.. :P
According to some guides I've seen, you can maximise their brightness by
feeding them glycerol rather than glucose/sucrose. This might be due to
whether or not they produce acid from glycerol or not; acid would
probably screw up bioluminescence.

On 29/11/12 17:04, Mega wrote:
> Hi, two days ago I bought a piece of Salmon, cut away the skin. I placed
> the skin on a plate and put some salty water (30g/L) on the plate, yet
> leaving the salmon-skin unwetted.
>
> Left it in our basement (some 10-15°C maybe).
>
>
>
> As I had a look today, it was amazing. They are very bright. (They are
> nearly as bright as the pVIB E Coli were, althought the Colis had the
> operon ~20 times (medium copy based on pBR322), while V. Fischeri has
> just a single copy of the operon).
>
> You just walk into the room, switch of the light and it glows amazingly
> (i.e. visibly without eye adaption).
>
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Re: [DIYbio] What happens when you electrolyse sodium bicarb solution?

Discharged lead-acid batteries start with one plate covered in lead sulfate.

Charging creates sulfuric acid from the lead sulfate.

As discussed earlier, running a current through copper sulfate also produces sulfuric acid.
By induction, we might assume that many common sulfates could be used in this way to produce the acid. Sodium sulfate and ammonium sulfate are common fertilizers.

Boiling the dilute acid concentrates it.

Nathan may want to look here:


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On Fri, Nov 30, 2012 at 7:06 AM, Cathal Garvey <cathalgarvey@gmail.com> wrote:
Being honest, I haven't looked very hard for sulphuric acid, so you're
probably right! Although, battery supplies generally appear to be pretty
rare these days; even deionised water isn't so common anymore, as most
new batteries are sealed-gel rather than free liquid. Even if you wanted
to replace the battery acid, you couldn't.

Will keep an eye open for it though next time I'm in an auto store.
Would be handy to have a bit in the lab.

On 29/11/12 18:44, woodsjay@cox.net wrote:
> You should be able to get battery acid (even in Ireland - smile).
> ---- Cathal Garvey <cathalgarvey@gmail.com> wrote:
>> It's not always available: I have yet to find sulphuric acid available
>> for sale around Ireland, although HCl is available as 10M solution in
>> hardware stores.
>>
>> That said, electrolysing etc. to make hard Sulphuric acid might be a
>> waste of effort if all you need is a strong mineral acid: use HCl
>> instead. But if it's gotta be sulphuric, it might not be available locally..
>>
>> On 28/11/12 06:13, Eugen Leitl wrote:
>>> On Tue, Nov 27, 2012 at 06:46:39PM -0500, Dakota wrote:
>>>> Making sulfuric acid on the cheap from copper sulfate found as root killer
>>>
>>> Sulfuric acid is probably the cheapest chemical around.
>>> There's no point in synthesizing everything from
>>> scratch, just buy it.
>>>
>>>> at hardware stores is pretty easy, and also involves simple electrolysis
>>>> and pretty colors.
>>>>
>>>> http://www.youtube.com/watch?v=5dUSF9Gl0xE
>>>>
>>>> There are also a few ways to make HCl,
>>>> http://www.youtube.com/watch?v=YGjd7xxTuZw&feature=relmfu
>>>>
>>>> and nurdrage has more videos on nitric acid.
>>>>
>>>> You can also get cheap sulfuric acid and hydrochloric acid (although I
>>>> don't think concentrated) at hardware stores again, used for stone masonry.
>>>
>>> A local artist/pigment shop sells hundreds of chemicals, and
>>> very cheap, too.
>>>
>>
>> --
>> www.indiebiotech.com
>> twitter.com/onetruecathal
>> joindiaspora.com/u/cathalgarvey
>> PGP Public Key: http://bit.ly/CathalGKey
>>
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Re: [DIYbio] Re: Excitation Spectra for Wildtype GFP?

As long as you don't want to commercialize your final construct/product of  that construct, I wouldn't bother much with patent protection of GFP. In most countries patent infringement in academic and  non-for profit research is either tolerated or even explicitly made  possible by the law.  Even if you do plan to comemrcialize it eventually, the eGFP variant might expire by then so its kind of OK to use it.  Most generic companies work on patented drugs years before the original patent expires, so that they can market the generic version the day patent actually expires. 


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[DIYbio] Re: Kanamycin Stability, & Mysterious Orange Colonies

Hi Cathal,
 
I had a problem with Kan selection a year or so ago where I was seeing lots of pappilation (cells mutating to Kan resistance). At the time I was using 50 ug/ml which was/is the recommended dose. I tested several concentrations of Kan and a dose to 100 ug/ml in the plates seemed to solve the problem. Now when transforming I use 100ug/ml in the plates and that seems to provide a strong enough selection that I don't see any spontaneous Kan resistant colonies.
 
Your DH10B stock seems pretty old, and you may have inadvertantly selected for cells that were resistant to low levels of Kan. I usually only keep cells on LB plates in the fridge for a couple of weeks at most-anerobic stabs last longer, a couple of months at least. For longer term storage you really need -80 or vapor phase liquid Nitrogen, or even lyophilization.
 
Cells that are metabolicly active change over time - it's the nature of the beast!
 
Tom
 
 
 

On Thursday, November 29, 2012 11:50:48 AM UTC-5, Cathal wrote:
Hi all,
I have a peculiar problem. I'm trying to select for a plasmid that:
A) Confers Kanamycin resistance
B) Bears a fusion protein containing wildtype GFP

I made up Kanamycin plates with 50ug/ml kan, which had recently been
made & filter-sterilised from kanamycin sulphate powder. The powder is,
I believe, about a year old, and has been stored in the fridge according
to packaging instructions. The stock solution (50ug/ml) was stored at
-20C once filtered into eppies.

The cultures were DH10B, isolated from a Top10 kit, which had been left
in LB in a fridge since February/March. I first broke them out into
fresh broth, then subcultured for transformation to get
exponential-phase cells.

I expected a pretty idiot-proof transformation (with PEG-3350 & MgSO4)
of E.coli DH10B, followed by selection of fluorescent green,
kanamycin-resistance cells. The transformation procedure is as per:
https://github.com/cathalgarvey/biohacking-protocols

Instead, I got growth on transformant-plated plates *and* on negative
control plates, which were treated identically but with only added T.E.
rather than DNA solution. Growth is still as single colonies after
spreading, rather than a lawn, but is pretty equally abundant on both
plates, indicating some background resistance to whatever concentration
of Kanamycin I'm using.

Weirder still, when lit by blue light and filtered with an orange
filter, nothing distinguishes the cells.. but when illuminated with a
cheap handheld UVA torch, many of the colonies on *both* plates are
bright fluorescent orange. The intensity of the orange appears to
increase with intermittant exposure to UV.

To ascertain whether the cells are expressing some orange pigment only
upon UV-induced quorum sensing (as it's very clearly a colony-specific
trait), I streaked an orange colony out beside a non-orange colony
(again on kanamycin TB plates), and the results indicated some genetic
factor: the orange colony lead to orange colonies, and the non-orange
colony lead to almost exclusively non-orange colonies, bar one.. which
might just be contamination from the other side.

So, I'm baffled. On the one hand, why is my kanamycin so terribly
non-selective? Any thoughts on powdered kanamycin stability?

On the other hand, what are these fluorescent orange cells? They are
identical to normal E.coli colonies to the naked eye, barring this
vibrant orange fluorescence.

I'm not even going to ask why my plasmid might be failing to
transform/select. It would seem I have bigger problems.

Thanks,
Cathal

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Re: [DIYbio] Re: Kanamycin Stability, & Mysterious Orange Colonies

That should set you right.

With the antibiotic resistances where the ribosome is modified you need time to make the resistant ribosomes. Kan is a particular classic case.

>matt

Sent from my Verizon Wireless 4G LTE DROID


-----Original message-----
From: Cathal Garvey <cathalgarvey@gmail.com>
To:
"diybio@googlegroups.com" <diybio@googlegroups.com>
Sent:
Fri, Nov 30, 2012 11:32:18 EST
Subject:
Re: [DIYbio] Re: Kanamycin Stability, & Mysterious Orange Colonies

If it's straight contamination (which I'm taking as the most likely
answer), then it's not just the orange guys: I've also got "plain
looking" cells which look similarly like E.coli, and turn up on
negative and positive plates.

I'm currently running two plates from an old stock of DH10B: one
without selection, one with. If I get growth on the clear plate and
none on the Kan plate, I'll be happy, and will re-start the culture
from a colony.

You're probably right about the outgrowth: I knew some was necessary
after transformation with Kan and other bacteriocidal antibiotics, but
I was only giving them about 30 mins... and my incubator is only 30C.
Might want to leave them 1:30 hours next time: will be repeating
transformation next week hopefully.

Thanks for the advice guys!

On Fri 30 Nov 2012 15:11:08 GMT, Matt Lawes wrote:
> Maybe your DH10B stock isn't quite so.
> Perhaps a contaminant with low innate KanR is in the LB stock. I would
> make some plates with higher kan concentration .... 100, 150, ug/ml
> and see what kills the orange guys.
>
> I would also reisolate the e coli from your stock on plates without
> kan ..... looking for the not orange colonies - sounds like one more
> round beyond what you've done will give you a pure stock.
>
> Kanamycin also needs time ( an hour of outgrowth without Kan) for
> phenotypic expression after transformation of the plasmid. Didn't look
> at your protocol to see of you have that down.
>
> Best,
>
> >matt
>
> /Sent from my Verizon Wireless 4G LTE DROID/
>
>
> -----Original message-----
>
>     *From: *Cathal Garvey <cathalgarvey@gmail.com>*
>     To: *"diybio@googlegroups.com" <diybio@googlegroups.com>*
>     Cc: *"Xabier Vázquez Campos" <xvazquezc@gmail.com>,
>     "methods@net.bio.net" <methods@net.bio.net>,
>     "methods@magpie.bio.indiana.edu" <methods@magpie.bio.indiana.edu>*
>     Sent: *Fri, Nov 30, 2012 10:01:44 EST*
>     Subject: *Re: [DIYbio] Re: Kanamycin Stability, & Mysterious
>     Orange Colonies
>
>     Sorry, the concentration of the stock was mg/ml, the final
>     concentration
>     was ug/ml.
>
>     On 29/11/12 22:46, Xabier Vázquez Campos wrote:
>     > What is the final Kan concentration? Because 50 ug/mL for a stock is
>     > quite low.
>     >
>     > El viernes, 30 de noviembre de 2012 03:50:48 UTC+11, Cathal
>     escribió:
>     >
>     >     Hi all,
>     >     I have a peculiar problem. I'm trying to select for a
>     plasmid that:
>     >     A) Confers Kanamycin resistance
>     >     B) Bears a fusion protein containing wildtype GFP
>     >
>     >     I made up Kanamycin plates with 50ug/ml kan, which had
>     recently been
>     >     made & filter-sterilised from kanamycin sulphate powder. The
>     powder is,
>     >     I believe, about a year old, and has been stored in the fridge
>     >     according
>     >     to packaging instructions. The stock solution (50ug/ml) was
>     stored at
>     >     -20C once filtered into eppies.
>     >
>     >     The cultures were DH10B, isolated from a Top10 kit, which
>     had been left
>     >     in LB in a fridge since February/March. I first broke them
>     out into
>     >     fresh broth, then subcultured for transformation to get
>     >     exponential-phase cells.
>     >
>     >     I expected a pretty idiot-proof transformation (with
>     PEG-3350 & MgSO4)
>     >     of E.coli DH10B, followed by selection of fluorescent green,
>     >     kanamycin-resistance cells. The transformation procedure is
>     as per:
>     >     https://github.com/cathalgarvey/biohacking-protocols
>     >     <https://github.com/cathalgarvey/biohacking-protocols>
>     >
>     >     Instead, I got growth on transformant-plated plates *and* on
>     negative
>     >     control plates, which were treated identically but with only
>     added T.E.
>     >     rather than DNA solution. Growth is still as single colonies
>     after
>     >     spreading, rather than a lawn, but is pretty equally
>     abundant on both
>     >     plates, indicating some background resistance to whatever
>     concentration
>     >     of Kanamycin I'm using.
>     >
>     >     Weirder still, when lit by blue light and filtered with an
>     orange
>     >     filter, nothing distinguishes the cells.. but when
>     illuminated with a
>     >     cheap handheld UVA torch, many of the colonies on *both*
>     plates are
>     >     bright fluorescent orange. The intensity of the orange
>     appears to
>     >     increase with intermittant exposure to UV.
>     >
>     >     To ascertain whether the cells are expressing some orange
>     pigment only
>     >     upon UV-induced quorum sensing (as it's very clearly a
>     colony-specific
>     >     trait), I streaked an orange colony out beside a non-orange
>     colony
>     >     (again on kanamycin TB plates), and the results indicated
>     some genetic
>     >     factor: the orange colony lead to orange colonies, and the
>     non-orange
>     >     colony lead to almost exclusively non-orange colonies, bar
>     one.. which
>     >     might just be contamination from the other side.
>     >
>     >     So, I'm baffled. On the one hand, why is my kanamycin so
>     terribly
>     >     non-selective? Any thoughts on powdered kanamycin stability?
>     >
>     >     On the other hand, what are these fluorescent orange cells?
>     They are
>     >     identical to normal E.coli colonies to the naked eye,
>     barring this
>     >     vibrant orange fluorescence.
>     >
>     >     I'm not even going to ask why my plasmid might be failing to
>     >     transform/select. It would seem I have bigger problems.
>     >
>     >     Thanks,
>     >     Cathal
>     >
>     >     --
>     >     www.indiebiotech.com <http://www.indiebiotech.com>
>     <http://www.indiebiotech.com>
>     >     twitter.com/onetruecathal <http://twitter.com/onetruecathal>
>     >
>     > --
>     > -- You received this message because you are subscribed to the
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Re: [DIYbio] Re: Kanamycin Stability, & Mysterious Orange Colonies

If it's straight contamination (which I'm taking as the most likely
answer), then it's not just the orange guys: I've also got "plain
looking" cells which look similarly like E.coli, and turn up on
negative and positive plates.

I'm currently running two plates from an old stock of DH10B: one
without selection, one with. If I get growth on the clear plate and
none on the Kan plate, I'll be happy, and will re-start the culture
from a colony.

You're probably right about the outgrowth: I knew some was necessary
after transformation with Kan and other bacteriocidal antibiotics, but
I was only giving them about 30 mins... and my incubator is only 30C.
Might want to leave them 1:30 hours next time: will be repeating
transformation next week hopefully.

Thanks for the advice guys!

On Fri 30 Nov 2012 15:11:08 GMT, Matt Lawes wrote:
> Maybe your DH10B stock isn't quite so.
> Perhaps a contaminant with low innate KanR is in the LB stock. I would
> make some plates with higher kan concentration .... 100, 150, ug/ml
> and see what kills the orange guys.
>
> I would also reisolate the e coli from your stock on plates without
> kan ..... looking for the not orange colonies - sounds like one more
> round beyond what you've done will give you a pure stock.
>
> Kanamycin also needs time ( an hour of outgrowth without Kan) for
> phenotypic expression after transformation of the plasmid. Didn't look
> at your protocol to see of you have that down.
>
> Best,
>
> >matt
>
> /Sent from my Verizon Wireless 4G LTE DROID/
>
>
> -----Original message-----
>
> *From: *Cathal Garvey <cathalgarvey@gmail.com>*
> To: *"diybio@googlegroups.com" <diybio@googlegroups.com>*
> Cc: *"Xabier Vázquez Campos" <xvazquezc@gmail.com>,
> "methods@net.bio.net" <methods@net.bio.net>,
> "methods@magpie.bio.indiana.edu" <methods@magpie.bio.indiana.edu>*
> Sent: *Fri, Nov 30, 2012 10:01:44 EST*
> Subject: *Re: [DIYbio] Re: Kanamycin Stability, & Mysterious
> Orange Colonies
>
> Sorry, the concentration of the stock was mg/ml, the final
> concentration
> was ug/ml.
>
> On 29/11/12 22:46, Xabier Vázquez Campos wrote:
> > What is the final Kan concentration? Because 50 ug/mL for a stock is
> > quite low.
> >
> > El viernes, 30 de noviembre de 2012 03:50:48 UTC+11, Cathal
> escribió:
> >
> > Hi all,
> > I have a peculiar problem. I'm trying to select for a
> plasmid that:
> > A) Confers Kanamycin resistance
> > B) Bears a fusion protein containing wildtype GFP
> >
> > I made up Kanamycin plates with 50ug/ml kan, which had
> recently been
> > made & filter-sterilised from kanamycin sulphate powder. The
> powder is,
> > I believe, about a year old, and has been stored in the fridge
> > according
> > to packaging instructions. The stock solution (50ug/ml) was
> stored at
> > -20C once filtered into eppies.
> >
> > The cultures were DH10B, isolated from a Top10 kit, which
> had been left
> > in LB in a fridge since February/March. I first broke them
> out into
> > fresh broth, then subcultured for transformation to get
> > exponential-phase cells.
> >
> > I expected a pretty idiot-proof transformation (with
> PEG-3350 & MgSO4)
> > of E.coli DH10B, followed by selection of fluorescent green,
> > kanamycin-resistance cells. The transformation procedure is
> as per:
> > https://github.com/cathalgarvey/biohacking-protocols
> > <https://github.com/cathalgarvey/biohacking-protocols>
> >
> > Instead, I got growth on transformant-plated plates *and* on
> negative
> > control plates, which were treated identically but with only
> added T.E.
> > rather than DNA solution. Growth is still as single colonies
> after
> > spreading, rather than a lawn, but is pretty equally
> abundant on both
> > plates, indicating some background resistance to whatever
> concentration
> > of Kanamycin I'm using.
> >
> > Weirder still, when lit by blue light and filtered with an
> orange
> > filter, nothing distinguishes the cells.. but when
> illuminated with a
> > cheap handheld UVA torch, many of the colonies on *both*
> plates are
> > bright fluorescent orange. The intensity of the orange
> appears to
> > increase with intermittant exposure to UV.
> >
> > To ascertain whether the cells are expressing some orange
> pigment only
> > upon UV-induced quorum sensing (as it's very clearly a
> colony-specific
> > trait), I streaked an orange colony out beside a non-orange
> colony
> > (again on kanamycin TB plates), and the results indicated
> some genetic
> > factor: the orange colony lead to orange colonies, and the
> non-orange
> > colony lead to almost exclusively non-orange colonies, bar
> one.. which
> > might just be contamination from the other side.
> >
> > So, I'm baffled. On the one hand, why is my kanamycin so
> terribly
> > non-selective? Any thoughts on powdered kanamycin stability?
> >
> > On the other hand, what are these fluorescent orange cells?
> They are
> > identical to normal E.coli colonies to the naked eye,
> barring this
> > vibrant orange fluorescence.
> >
> > I'm not even going to ask why my plasmid might be failing to
> > transform/select. It would seem I have bigger problems.
> >
> > Thanks,
> > Cathal
> >
> > --
> > www.indiebiotech.com <http://www.indiebiotech.com>
> <http://www.indiebiotech.com>
> > twitter.com/onetruecathal <http://twitter.com/onetruecathal>
> >
> > --
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[**Virtual University Of Pakistan**Student Cafe] .::VULMSIT::.eNoxel.com CS614 Quiz No.2 Nov 29, 2012

CS614 - Data Warehousing

Quiz No.2 Nov 29,2012

 

Question # 1 of 10 ( Start time: 10:29:52 PM ) Total Marks: 1
Data mining uses _________ algorithms to discover patterns and regularities in data.
Select correct option:
Mathematical
Computational
Statistical
None of these

Question # 2 of 10 ( Start time: 10:31:13 PM ) Total Marks: 1
The goal of ___________ is to look at as few blocks as possible to find the matching records(s).
Select correct option:
Indexing
Partitioning
Joining
None of these

Question # 3 of 10 ( Start time: 10:32:34 PM ) Total Marks: 1
An optimized structure which is built primarily for retrieval, with update being only a secondary consideration is
Select correct option:
OLTP
OLAP
DSS
Inverted Index

Question # 4 of 10 ( Start time: 10:33:23 PM ) Total Marks: 1
If every key in the data file is represented in the index file then index is
Select correct option:
Dense Index
Sparse Index
Inverted Index
None of these

Question # 5 of 10 ( Start time: 10:34:47 PM ) Total Marks: 1
There are many variants of the traditional nested-loop join. If the index is built as part of the query plan and subsequently dropped, it is called
Select correct option:
Naive nested-loop join
Index nested-loop join
Temporary index nested-loop join
None of these

Question # 6 of 10 ( Start time: 10:36:08 PM ) Total Marks: 1
Data mining evolve as a mechanism to cater the limitations of ________ systems to deal massive data sets with high dimensionality, new data types, multiple heterogeneous data resources etc.
Select correct option:
OLTP
OLAP
DSS
DWH

Question # 7 of 10 ( Start time: 10:37:30 PM ) Total Marks: 1
A dense index, if fits into memory, costs only ______ disk I/O access to locate a record by given key.
Select correct option:
One
Two
Linear
Quadratic

Question # 8 of 10 ( Start time: 10:38:29 PM ) Total Marks: 1
Data mining derives its name from the similarities between searching for valuable business information in a large database, for example, finding linked products in gigabytes of store scanner data, and mining a mountain for a _________ of valuable ore.
Select correct option:
Furrow
Streak
Trough
Vein

Question # 9 of 10 ( Start time: 10:39:49 PM ) Total Marks: 1
If 'M' rows from table-A match the conditions in the query then table-B is accessed 'M' times. Suppose table-B has an index on the join column. If 'a' I/Os are required to read the data block for each scan plus 'b' I/Os for each data block then the total cost of accessing table-B is _____________ logical I/Os approximately.
Select correct option:
(a + b)M
(a - b)M
(a + b + M)
(a * b * M)

Question # 10 of 10 ( Start time: 10:41:16 PM ) Total Marks: 1
________ is the technique in which existing heterogeneous segments are reshuffled, relocated into homogeneous segments.
Select correct option:
Clustering
Aggregation
Segmentation
Partitioning

 

 

The goal of ideal parallel execution is to completely parallelize those parts of a computation that are not constrained by data dependencies. The ______ the portion of the program that must be executed sequentially, the greater the scalability of the computation

Larger

Smaller

Unambiguous

Superior

 

_______________, if fits into memory, costs only one disk I/O access to locate a record by given key.

An Inverted Index

A Sparse Index

A Dense Index

None of these

 

If someone told you that he had a good model to predict customer usage, the first thing you might try would be to ask him to apply his model to your customer _______, where you already knew the answer.

Base

Drive

File

Log

 

The automated, prospective analyses offered by data mining move beyond the analyses of past events provided by _____________ tools typical of decision support systems.

Introspective

Intuitive

Reminiscent

Retrospective

 

If every key in the data file is represented in the index file then index is

Dense Index   

Sparse Index

Inverted Index

None of these

 

A dense index, if fits into memory, costs only ______ disk I/O access to locate a record by given key.

One

Two

Linear

Quadratic

 

With data mining, the best way to accomplish this is by setting aside some of your data in a vault to isolate it from the mining process; once the mining is complete, the results can be tested against the isolated data to confirm the model's _______.

Validity           

Security

Integrity

None of these

 

Data mining uses _________ algorithms to discover patterns and regularities in data.

Mathematical

Computational

Statistical

None of these

 

The goal of ___________ is to look at as few blocks as possible to find the matching records(s).

Indexing

Partitioning

Joining

None of these

 

_______________, if too big and does not fit into memory, will be expensive when used to find a record by given key.

An Inverted Index

A Sparse Index

A Dense Index

None of these

 

 

There are many variants of the traditional nested-loop join. If the index is built as part of the query plan and subsequently dropped, it is called

Naive nested-loop join

Index nested-loop join

Temporary index nested-loop join

None of these

 

_______________, if fits into memory, costs only one disk I/O access to locate a record by given key.

An Inverted Index

A Sparse Index

A Dense Index

None of these

 

 

If 'M' rows from table-A match the conditions in the query then table-B is accessed 'M' times. Suppose table-B has an index on the join column. If 'a' I/Os are required to read the data block for each scan plus 'b' I/Os for each data block then the total cost of accessing table-B is _____________ logical I/Os approximately.

(a + b)M

(a - b)M

(a + b + M)

(a * b * M)

 

 

With data mining, the best way to accomplish this is by setting aside some of your data in a ________ to isolate it from the mining process; once the mining is complete, the results can be tested against the isolated data to confirm the model's validity.

Cell

Disk

Folder

Vault

 

The goal of ideal parallel execution is to completely parallelize those parts of a computation that are not constrained by data dependencies. The smaller the portion of the program that must be executed __________, the greater the scalability of the computation.

In Parallel

Distributed

Sequentially

None of these

 

 

Data mining is a/an __________ approach, where browsing through data using data mining techniques may reveal something that might be of interest to the user as information that was unknown previously.

Non-Exploratory

Exploratory

Compute Science

none of these

 

Data mining evolve as mechanism to cater the limitations of _____ systems to deal massive data sets with high dimensionality , new data types, multiple heterogeneous data resources etc..
OLTP

OLAP

DSS

DWH

To identify the __________________ required we need to perform data profiling
Degree of Transformation
Complexity
Cost
Time


Execution can be completed successfully or it may be stopped due to some error. If some error occurs, execution will be terminated abnormally and all transactions will be ___________
Committed to the database
Rolled back

Companies collect and record their own operational data, but at the same time they also use reference data obtained from _______ sources such as codes, prices etc.
Operational
None of these
Internal
External

 


Ad-hoc access means to run such queries which are known already.
True
False

 


____________ in agriculture extension is that pest population beyond which the benefit of spraying outweighs its cost.
Profit Threshold Level
Economic Threshold Level
Medicine Threshold Level
None of these


People that design and build the data warehouse must be capable of working across the organization at all levels
True
False

The _________ is only a small part in realizing the true business value buried within the mountain of data collected and stored within organizations business systems and operational databases.
Independence on technology
Dependence on technology
None of these

Many data warehouse project teams waste enormous amounts of time searching in vain for a ___________________.
Silver Bullet
Golden Bullet
Suitable Hardware
Compatible Product

 

Multidimensional databases typically use proprietary __________ format to store pre-summarized cube structures.
File
Application
Aggregate
Database

A dense index, if fits into memory, costs only ______ disk I/O access to locate a record by given key.
One
Two 
lg (n)
n

All data is ______________ of something real.
I An Abstraction
II A Representation
Which of the following option is true?
I Only
II Only
Both I & II
None of I & II

The key idea behind ___________ is to take a big task and break it into subtasks that can be processed concurrently on a stream of data inputs in multiple, overlapping stages of execution.
Pipeline Parallelism
Overlapped Parallelism
Massive Parallelism
Distributed Parallelism

Non uniform distribution, when the data is distributed across the processors, is called ______.
Skew in Partition
Pipeline Distribution
Distributed Distribution
Uncontrolled Distribution

The goal of ideal parallel execution is to completely parallelize those parts of a computation that are not constrained by data dependencies. The smaller the portion of the program that must be executed __________, the greater the scalability of the computation.
None of these
Sequentially
In Parallel
Distributed

 

Data mining is a/an __________ approach, where browsing through data using data mining techniques may reveal something that might be of interest to the user as information that was unknown previously.
Exploratory
Non-Exploratory
Computer Science

Data mining evolve as a mechanism to cater the limitations of ________ systems to dealmassive data sets with high dimensionality, new data types, multiple heterogeneous data resources etc.
OLTP
OLAP
DSS
DWH 

________ is the technique in which existing heterogeneous segments are reshuffled, relocated into homogeneous segments.
Clustering
Aggregation
Segmentation
Partitioning

To measure or quantify the similarity or dissimilarity, different techniques are available. Which of the following option represent the name of available techniques?
Pearson correlation is the only technique
Euclidean distance is the only technique
Both Pearson correlation and Euclidean distance
None of these

 

For a DWH project, the key requirement are ________ and product experience.
Tools
Industry
Software
None of these

Pipeline parallelism focuses on increasing throughput of task execution, NOT on __________ sub-task execution time.
Increasing
Decreasing
Maintaining
None of these

Focusing on data warehouse delivery only often end up _________.
Rebuilding
Success
Good Stable Product
None of these

Pakistan is one of the five major ________ countries in the world.
Cotton-growing
Rice-growing
Weapon Producing

_____________ is a process which involves gathering of information about column through execution of certain queries with intention to identify erroneous records.
Data profiling
Data Anomaly Detection
Record Duplicate Detection
None of these

Relational databases allow you to navigate the data in ____________ that is appropriate using the primary, foreign key structure within the data model.
Only One Direction
Any Direction
Two Direction
None of these

DSS queries do not involve a primary key
True
False

__________________ contributes to an under-utilization of valuable and expensive historical data, and inevitably results in a limited capability to provide decision support and analysis.
The lack of data integration and standardization
Missing Data
Data Stored in Heterogeneous Sources

 

 

DTS allows us to connect through any data source or destination that is supported by ____________
OLE DB
OLAP
OLTP
Data Warehouse

Data Transformation Services (DTS) provide a set of _____ that lets you extract, transform, and consolidate data from disparate sources into single or multipledestinations supported by DTS connectivity.
Tools
Documentations
Guidelines

If some error occurs, execution will be terminated abnormally and all transactions will be rolled back. In this case when we will access the database we will find it in the state that was before the ____________.
Execution of package
Creation of package
Connection of package

To judge effectiveness we perform data profiling twice. 
One before Extraction and the other after Extraction
One before Transformation and the other after Transformation
One before Loading and the other after Loading

The need to synchronize data upon update is called
Data Manipulation
Data Replication
Data Coherency
Data Imitation

Taken jointly, the extract programs or naturally evolving systems formed a spider web, also known as
Distributed Systems Architecture
Legacy Systems Architecture
Online Systems Architecture
Intranet Systems Architecture

 

Node of a B-Tree is stored in memory block and traversing a B-Tree involves ______ page faults.
O (n)
O (n2)
O (n lg n)
O (lg n)
Which statement is true for De-Normalization?
Redundant data is a performance liability at query time, but is a performance benefit at update time.
Redundant data is a performance benefit at both query time and update time.
Redundant data is a performance liability at both query time and update time.
Redundant data is a performance benefit at query time, but is a performance liability at update time.

It is observed that every year the amount of data recorded in an organization is

Doubles  

Triples

Quartiles

Remains same as previous year

 

Pre-computed _______ can solve performance problems

Aggregates  

Facts

Dimensions

 

The degree of similarity between two records, often measured by a numerical value between _______, usually depends on application characteristics.

0 and 1  

0 and 10

0 and 100

0 and 99

The purpose of the House of Quality technique is to reduce ______ types of risk.

Two  

Three

Four

All

NUMA stands for __________

Non-uniform Memory Access

Non-updateable Memory Architecture

New Universal Memory Architecture

 

There are many variants of the traditional nested-loop join. If the index is built as part of the query plan and subsequently dropped, it is called

Naive nested-loop join

Index nested-loop join

Temporary index nested-loop join  

None of these

The Kimball s iterative data warehouse development approach drew on decades of experience to develop the _____________.

Business Dimensional Lifecycle

Data Warehouse Dimension

Business Definition Lifecycle

OLAP Dimension

 

For a smooth DWH implementation we must be a technologist.

True

False  

During the application specification activity, we also must give consideration to the organization of the applications.

True  

False

 

The most recent attack is the ________ attack on the cotton crop during 2003- 04, resulting in a loss of nearly 0.5 million bales.

Boll Worm  

Purple Worm

Blue Worm

Cotton Worm

 

The users of data warehouse are knowledge workers in other words they are_________ in the organization.

Decision maker

Manager

Database Administrator

DWH Analyst

 

_________ breaks a table into multiple tables based upon common column values.

Horizontal splitting  

Vertical splitting

 

As apposed to the out come of classification , estimation deal with ____________ valued

outcome.

Discrete

Isolated

Continuous

Distinct

 

 

 

 

The goal of ______is to look at as few block as possible to find the matching records. Indexing

Partitioning

Joining

none of these

nested loop join

none of these

 

The technique that is used to perform these feats in data mining modeling, and this act of model building is something that people have been doing for long time, certainly before the _______ of computers or data mining technology.

Access Advent

Ascent Avowal

 

A data warehouse may include
Legacy systems
Only internal data sources
Privacy restrictions
Small data mart

De-Normalization normally speeds up 
Data Retrieval
Data Modification
Development Cycle
Data Replication

In horizontal splitting, we split a relation into multiple tables on the basis of 
Common Column Values
Common Row Values
Different Index Values
Value resulted by ad-hoc query

 

For a given data set, to get a global view in un-supervised learning we use
One-way Clustering
Bi-clustering
Pearson correlation
Euclidean distance

In DWH project, it is assured that ___________ environment is similar to the production environment.
Designing
Development
Analysis
Implementation

For good decision making, data should be integrated across the organization to cross the LoB (Line of Business). This is to give the total view of organization from:
Owner's Perspective
Customer's Perspective
Decision Maker's Perspective
Employee's Perspective

Which is the least appropriate join operation for Pipeline parallelism?

Hash Join

Inner Join

Outer Join

Sort-Merge Join

 

Data mining derives its name from the similarities between searching for valuable business information in a large database, for example, finding linked products in gigabytes of store scanner data, and mining a mountain for a _________ of valuable ore.

Furrow

Streak

Trough

Vein

 

With data mining, the best way to accomplish this is by setting aside some of your data in a ________ to isolate it from the mining process; once the mining is complete, the results can be tested against the isolated data to confirm the model's validity.

Cell

Disk

Folder

Vault

We must try to find the one access tool that will handle all the needs of their users.

True

False

Investing years in architecture and forgetting the primary purpose of solving business problems, results in inefficient application. This is the example of _________ mistake.

Extreme Technology Design

Extreme Architecture Design

 

The automated, prospective analyses offered by data mining move beyond the analysis of past

events provided by respective tools typical of ___________.

OLTP

OLAP

Decision Support systems

None of these

There are many variants of the traditional nested-loop join, if there is an index is exploited, then it is called……

Naïve nested loop join index

Nested loop join temporary index

Index nested-loop joins

 


A data warehouse implementation without an OLAP tool is always possible.

True

False

 

 

_____modeling technique is more appropriate for data warehouses.

entity-relationship

dimensional

physical

None of the given

 

 

The performance in a MOLAP cube comes from the O(1) look-up time for the array data structure.

 

True

False

 

 

Multi-dimensional databases (MDDs) typically use ___________ formats to store pre-summarized cube structures.

 

SQL

proprietary file

Object oriented

Non- proprietary file

 

Slice and Dice is changing the view of the data.

True

False

 

 

 

Data warehousing and on-line analytical processing (OLAP) are _______ elements of decision support system.

 

Unusual

Essential

Optional

None of the given

 

 

Virtual cube is used to query two similar cubes by creating a third "virtual" cube by a join between two cubes.

 

True

False

 

Analytical processing uses ____________ , instead of record level access.

multi-level aggregates

Single-level aggregates

Single-level hierarchy

None of the Given

 

 

The divide&conquer cube partitioning approach helps alleviate the ____________ limitations of MOLAP implementation.

Flexibility

Maintainability

Security

Scalability

 

 

In a traditional MIS system, there is an almost linear sequence of queries.

True

False

 

 

Data Warehouse provides the best support for analysis while OLAP carries out the _________ task.

Mandatory

Whole

Analysis

Prediction

 

 

DOLAP allows download of "cube" structures to a desktop platform with the need for shared relational or cube server.

 

True

False

 

 

The STAR schema used for data design is a __________ consisting of fact and dimension tables.

Select correct option:

Network model

Relational model

Hierarchical data model

None of the given

 

Data Warehouse provides the best support for analysis while OLAP carries out the _________ task.

Select correct option:

Mandatory

Whole

Analysis

Prediction

 

 

Virtual cube is used to query two similar cubes by creating a third "virtual" cube by a join between two cubes.

Select correct option:

 True

 False

 

Data warehousing and on-line analytical processing (OLAP) are _______ elements of decision support system.

Select correct option:

Unusual

Essential

Optional

None of the given


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