Weirauch

Question 1

___________ regulation is the control of gene production.

Answer 1

Gene

Question 1

Transcription Factors (TFs) are ___________ that can turn on or off the synthesis of genes in response to specific cues.

Answer 1

proteins

Question 2

The two broad categories of gene regulation are ___________ regulation and ___________ regulation.

Answer 2

transcriptional, post-transcriptional

Question 3

The human genome has approximately ___________ TFs.

Answer 3

1639

Question 4

TFs interact with the genome by binding to ___________.

Answer 4

short sequences

Question 5

Each Transcription Factor recognizes a specific ___________ in the genome.

Answer 5

DNA motif

Question 6

TF regulatory elements are usually located near the ___________ that they control.

Answer 6

genes

Question 7

Humans have roughly ___________ genes.

Answer 7

20,000

Question 8

___________ is the process by which DNA is transcribed into RNA.

Answer 8

Transcription

Question 9

___________ footprinting is bad for sensitivity.

Answer 9

Phylogenetic

Question 10

When a library of PWMs is scanned to see if any are statistically over-represented in a set, ___________ motifs are being used.

Answer 10

known

Question 11

When searching for common patterns in a set, ___________ motif analysis is being employed.

Answer 11

de novo

Question 12

___________ data is one type of functional data that can be leveraged to understand TF binding and function.

Answer 12

ENCODE

Question 13

___________ of TFs and co-factors is one factor that influences TF binding and function.

Answer 13

Relative concentrations

Question 14

___________ accessibility impacts TF binding and function.

Answer 14

Chromatin

Question 15

The ___________ status of DNA can influence TF binding and function.

Answer 15

methylation

Question 16

Both local and ___________ topology of DNA plays a role in TF binding and function.

Answer 16

long-range

Question 17

___________ are stretches of DNA that encode blueprints for making proteins.

Answer 17

Genes

Question 18

Every cell in an organism has the same ___________.

Answer 18

genomic DNA

Question 19

T/F: Genes are not all used at all times.

Answer 19

True

Question 20

The genome is like a ___________, while transcriptional regulation is like following a ___________ to make a cake.

Answer 20

recipe book, recipe

Question 21

A ___________ experiment uses a library of random oligos and multiple rounds of selection/amplification to determine which TF can bind.

Answer 21

SELEX

Question 22

A ___________ is a representation of the binding preferences of a transcription factor.

Answer 22

position frequency matrix (PFM)

Question 23

___________ can affect TF binding specificity.

Answer 23

cofactor interactions

Question 24

The prevalence of how co-factor interactions can affect TF binding specificity is largely ___________.

Answer 24

unknown

Question 25

___________ positioning, which dictates chromatin accessibility, is a factor that can influence TF binding and function.

Answer 25

Nucleosome

Question 26

Humans are composed of about ___________ cells.

Answer 26

100 trillion

Question 27

Human and ___________ DNA is greater than 99% identical.

Answer 27

Chimp