1. Ito et al -  two hybrid fragment pooling approach

This two hybrid approach involves the screening of a large number of individual proteins against a 
comprehensive library of randomly generated fragment as prey. The usage of degenerated fragment 
allows identification of the minimal protein region required for the interaction. since multiple 
clones that encode overlapping regions of protein are often identified, the minimal domain for 
interaction may be readily apparent from the initial screen.

Based on the number of times the experiments gave positive results the authors have classified the 
interactions as belonging to a core dataset (ito-core), which, are more reliable as compared to the 
full dataset (ito-full).

4524 Interactions

genome wide bait and prey
--
2. Awasthi - New roles for the Snp1 and Exo84 proteins in yeast pre-mRNA splicing

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

4 Interactions
--

3. EBI-295760 - Belgareh - An evolutionarily conserved NPC subcomplex, which redistributes in part 
                           to kinetochores in mammalian cells.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

4 Interactions
--

4. EBI-698096 -  Cagney - Two-hybrid analysis of the Saccharomyces cerevisiae 26S proteasome.

Two-hybrid screening can be done in a colony array format, in which each colony expresses a defined 
pair of proteins. Because the particular protein pair expressed in each colony is defined by its 
position in the array, positive signals identify interacting proteins without further characterization, 
thus obviating the need for DNA purification and sequencing. The interrogation of a two-hybrid colony 
array usually involves a mating strategy in which every DNA binding domain hybrid (the bait) is tested 
against all activation domain hybrids (the preys) in a grid pattern. Arrays usually use full-length 
open reading frames.

54 Interactions

31 baits (also used as prey), genome wide prey
--

5. EBI-592695 - Chen - Functional and physical interactions between components of the Prp19p-associated 
                       complex.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

12 Interactions
--

6. EBI-476385 - Costa-1 - Lsb5p interacts with actin regulators Sla1p and Las17p, ubiquitin and Arf3p 
                          to couple actin dynamics to membrane trafficking processes.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

4 Interactions
--

7. EBI-476699 - Costa-3 - Lsb5p interacts with actin regulators Sla1p and Las17p, ubiquitin and Arf3p 
                          to couple actin dynamics to membrane trafficking processes.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

1 Interactions
--

8. EBI-493706 - Dove - Vac14 controls PtdIns(3,5)P(2) synthesis and Fab1-dependent protein trafficking 
                       to the multivesicular body.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

6 Interactions
--

9. EBI-620118 - Eugster-2000-2 - COP I domains required for coatomer integrity, and novel interactions with 
                                 ARF and ARF-GAP.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

23 Interactions

7 proteins (+ mutants), various domains as baits and preys
--

10. EBI-619785 - Eugster-2004-1 - The alpha- and beta'-COP WD40 domains mediate cargo-selective interactions 
                                  with distinct di-lysine motifs. 

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

5 Interactions
--

11. EBI-492533 -  Fiedler-1 - The vesicular transport protein Cgp1p/Vps54p/Tcs3p/Luv1p is required for the 
                              integrity of the actin cytoskeleton.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

3 Interactions
--

12. EBI-492535 - Fielder-1 - The vesicular transport protein Cgp1p/Vps54p/Tcs3p/Luv1p is required for the 
                             integrity of the actin cytoskeleton.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

1 Interactions
--

13. EBI-697014 - Fu - Subunit interaction maps for the regulatory particle of the 26S proteasome and the 
                      COP9 signalosome.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

67 Interactions

all paired sub-units of the regulatory particle (17 choose 2)
--

14. EBI-538313 - Gonzales-1 - Characterization of Saccharomyces cerevisiae Nop17p, a novel Nop58p-
                              interacting protein that is involved in Pre-rRNA processing.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

2 Interactions
--

15. EBI-538324 - Gonzales-2 - Characterization of Saccharomyces cerevisiae Nop17p, a novel Nop58p-
                              interacting protein that is involved in Pre-rRNA processing.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

6 Interactions
--

16. EBI-531492 -  Guo - Exo84p is an exocyst protein essential for secretion.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

2 Interactions
--

17. EBI-526219 -  Lamson - Cdc42 regulation of kinase activity and signaling by the yeast p21-
                           activated kinase Ste20.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

3 Interactions


--

18. EBI-491968 - Lang - Aut2p and Aut7p, two novel microtubule-associated proteins are essential 
                        for delivery of autophagic vesicles to the vacuole.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

3 Interactions

1 bait, 3 prey
--

19. EBI-707901 - Li - Lagging strand DNA synthesis at the eukaryotic replication fork involves 
                      binding and stimulation of FEN-1 by proliferating cell nuclear antigen.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

1 Interactions

1 bait, 1 prey
--

20. EBI-74070 - Lu - Dissecting the pet18 mutation in Saccharomyces cerevisiae: HTL1 encodes a 
                     7-kDa polypeptide that interacts with components of the RSC complex.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

1 Interactions

1 bait, 1 prey protein (3 different genes encoding same protein?)
--

21. EBI-603898 - Madania - The Saccharomyces cerevisiae homologue of human Wiskott-Aldrich syndrome 
                           protein Las17p interacts with the Arp2/3 complex.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

11 Interactions

2 baits, 23 clones of 10 genes as prey
--

22. EBI-597864 - Newman - A computationally directed screen identifying interacting coiled coils 
                          from Saccharomyces cerevisiae.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

237 Interactions (with multiplicity)

The interactions are not the usual; the baits are sections of the DNA which the author refers to 
as coiled coils, and so there might be many coiled sections to a particular protein. Thus the 
baits are coiled sections and the prey are also coil sections. Thus the multiplicity comes about
because X->Y and X->Y might result in the different coils used in each pull down. There are only 
213 unique interactions between proteins. There are only 62 unique proteins used (both as bait and
as prey).
--

23. EBI-455820 -  Qi - The Saccharomyces telomere-binding protein Cdc13p interacts with both the 
                       catalytic subunit of DNA polymerase alpha and the telomerase-associated 
                       est1 protein

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

3 Interactions

Only a single bait used (Cdc13p) and two prey(P011p, and Est1p) **This is in the abstract of the paper, 
in Intact there is 3 different prey. Intact has three preys which I suspect might be three different
names for P011p
--

24.  EBI-455820 - Qi - The Saccharomyces telomere-binding protein Cdc13p interacts with both the 
                       catalytic subunit of DNA polymerase alpha and the telomerase-associated 
                       est1 protein

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

1 Interaction

There is 1 bait and 1 prey. The bait is the same as above, but the prey is Est1p from the paper.
--

25. EBI-457455 - Qi - The Saccharomyces telomere-binding protein Cdc13p interacts with both the 
                      catalytic subunit of DNA polymerase alpha and the telomerase-associated 
                      est1 protein

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

3 Interaction

There is 1 bait and 3 preys. I don't have a clue what is going on now!
--

26. EBI-79957 - Rodal - Aip1p interacts with cofilin to disassemble actin filaments.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

1 Interaction

1 Bait/1 Prey per paper.
--

27. EBI-603955 - Soulard - Saccharomyces cerevisiae Bzz1p is implicated with type I myosins in 
                           actin patch polarization and is able to recruit actin-polymerizing 
                           machinery in vitro.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

2 Interactions

1 Bait/1 Prey  **from the paper
--

28. EBI-600030 - Tong - A combined experimental and computational strategy to define protein 
                        interaction networks for peptide recognition modules.

Two-hybrid screening can be done in a colony array format, in which each colony expresses a defined 
pair of proteins. Because the particular protein pair expressed in each colony is defined by its 
position in the array, positive signals identify interacting proteins without further characterization, 
thus obviating the need for DNA purification and sequencing. The interrogation of a two-hybrid colony 
array usually involves a mating strategy in which every DNA binding domain hybrid (the bait) is tested 
against all activation domain hybrids (the preys) in a grid pattern. Arrays usually use full-length 
open reading frames.

125 Interactions (with multiplicity)

145 baits/preys (from literature..also 233 interactions)
--

29. EBI-600812 - Tong - A combined experimental and computational strategy to define protein 
                        interaction networks for peptide recognition modules.

Two-hybrid screening can be done in a colony array format, in which each colony expresses a defined 
pair of proteins. Because the particular protein pair expressed in each colony is defined by its 
position in the array, positive signals identify interacting proteins without further characterization, 
thus obviating the need for DNA purification and sequencing. The interrogation of a two-hybrid colony 
array usually involves a mating strategy in which every DNA binding domain hybrid (the bait) is tested 
against all activation domain hybrids (the preys) in a grid pattern. Arrays usually use full-length 
open reading frames.

126 Interactions (with multiplicity)

145 baits/preys (from literature..also 233 interactions)
--

30. EBI-601450 - Tong - A combined experimental and computational strategy to define protein 
                        interaction networks for peptide recognition modules.

Two-hybrid screening can be done in a colony array format, in which each colony expresses a defined 
pair of proteins. Because the particular protein pair expressed in each colony is defined by its 
position in the array, positive signals identify interacting proteins without further characterization, 
thus obviating the need for DNA purification and sequencing. The interrogation of a two-hybrid colony 
array usually involves a mating strategy in which every DNA binding domain hybrid (the bait) is tested 
against all activation domain hybrids (the preys) in a grid pattern. Arrays usually use full-length 
open reading frames.

43 Interactions (with multiplicity)

145 baits/preys (from literature..also 233 interactions)
There is one table that accounts for the binding between bait proteins and certain peptide chains...
this could account for the multiplicity if bait/prey hits.
--

31. EBI-75443 -  Treich - SNF11, a new component of the yeast SNF-SWI complex that interacts with 
                          a conserved region of SNF2.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

2 Interactions

1 bait, 2 prey
--

32. EBI-727915 -  Vignols - A yeast two-hybrid knockout strain to explore thioredoxin-interacting 
                            proteins in vivo.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

A yeast strain named CY306 was designed to identify thioredoxin (TRX) targets in vivo by a Y2H approach. 
CY306 contains a GAL4 reporter sytem but also carries deletions of endogenous genes encoding cytosolic 
TRXs (TRX1 and TRX2) that presumably compete with TRXs introduced as bait.

11 Interactions

3 Baits + mutants?, 3 prey + mutants
--

33.  EBI-607722 - Wilkinson - Ubiquitin-like protein Hub1 is required for pre-mRNA splicing and 
                              localization of an essential splicing factor in fission yeast

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

3 Interactions

2 baits/3 prey (one prey is human gene)
--

34. EBI-525791 - Winters - Interaction with the SH3 domain protein Bem1 regulates signaling by 
                           the Saccharomyces cerevisiae p21-activated kinase Ste20.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

5 Interactions

1 bait, 3 prey + mutants
--

35. EBI-476132 -  Yamazaki - The carboxyl terminal 17 amino acids within Apg7 are essential for 
                             Apg8 lipidation, but not for Apg12 conjugation.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

3 Interactions

--

36. EBI-49802 -  Yatherajam - Protein-protein interaction map for yeast TFIID.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

14 Interactions

13 baits, 13 preys
--

37. EBI-491628 - Yeo - Vps20p and Vta1p interact with Vps4p and function in multivesicular body 
                       sorting and endosomal transport in Saccharomyces cerevisiae.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

2 Interactions

1 bait, 2 prey
--

38. EBI-491642 - Yeo - Vps20p and Vta1p interact with Vps4p and function in multivesicular body 
                       sorting and endosomal transport in Saccharomyces cerevisiae.

The classical two-hybrid system is a method that uses transcriptional activity as a measure of 
protein-protein interaction. It relies on the modular nature of many site-specific transcriptional 
activators (GAL 4) , which consist of a DNA-binding domain and a transcriptional activation domain. 
The DNA-binding domain serves to target the activator to the specific genes that will be expressed, 
and the activation domain contacts other proteins of the transcriptional machinery to enable 
transcription to occur. The two-hybrid system is based on the observation that the two domains of 
the activator need to be non-covalently brought together by the interaction of any two proteins. 
The application of this system requires the expression of two hybrid. Generally this assay is 
performed in yeast cell, but it can also be carried out in other organism.

5 Interactions

1 bait, 2 prey ***Same as above, but now the multiplicity is there because they re-experimented
                  under different conditions.

--

39. EBI-762635 - Shao - Navigating the chaperone network: an integrative map of physical and genetic 
                        interactions mediated by the hsp90 chaperone.

Two-hybrid screening can be done in a colony array format, in which each colony expresses a defined 
pair of proteins. Because the particular protein pair expressed in each colony is defined by its 
position in the array, positive signals identify interacting proteins without further characterization, 
thus obviating the need for DNA purification and sequencing. The interrogation of a two-hybrid colony 
array usually involves a mating strategy in which every DNA binding domain hybrid (the bait) is tested 
against all activation domain hybrids (the preys) in a grid pattern. Arrays usually use full-length 
open reading frames.

102 Interactions

1 bait (+1 other form), genome wide prey
--

40. EBI-389903 - Uetz - A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae

Two-hybrid screening can be done in a colony array format, in which each colony expresses a defined 
pair of proteins. Because the particular protein pair expressed in each colony is defined by its 
position in the array, positive signals identify interacting proteins without further characterization, 
thus obviating the need for DNA purification and sequencing. The interrogation of a two-hybrid colony 
array usually involves a mating strategy in which every DNA binding domain hybrid (the bait) is tested 
against all activation domain hybrids (the preys) in a grid pattern. Arrays usually use full-length 
open reading frames.

952 Interactions

192 baits, genome wide prey
genome wide baits, genome wide prey
--

41. EBI-392769 - Uetz - A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae

Two-hybrid screening can be done in a colony array format, in which each colony expresses a defined 
pair of proteins. Because the particular protein pair expressed in each colony is defined by its 
position in the array, positive signals identify interacting proteins without further characterization, 
thus obviating the need for DNA purification and sequencing. The interrogation of a two-hybrid colony 
array usually involves a mating strategy in which every DNA binding domain hybrid (the bait) is tested 
against all activation domain hybrids (the preys) in a grid pattern. Arrays usually use full-length 
open reading frames.

524 Interactions **These were the interactions that were not as heavily screened as above. 

192 baits, genome wide prey
genome wide baits, genome wide prey
--