The PCT-EPO Guidelines follow the structure of the EP Guidelines (Chapters A, B, C, E, F, G and H, without D because there is no opposition, limitation or revocation under the PCT), and as far as possible the organisation within each chapter is similar to that of the EP Guidelines, adapted to the particularities of the PCT system.  

Thus, these Guidelines comprise the following seven parts:

Guidelines for Formalities Examination; 
Guidelines for Search; 
Guidelines for Procedural Aspects in Chapter II;
Guidelines on General Procedural Matters; 
The International Application 
Amendments and Corrections 
Part A deals with the procedures for formalities examination at the EPO in its capacity as RO, (S)ISA and IPEA. Part B deals with search matters. Part C relates to procedures to be followed in Chapter II. Substantive requirements are dealt with in Parts G and H (see below).
Part E deals with procedural matters relevant to several or all of the stages in procedure at the EPO as PCT Authority. Part F deals with the requirements which the application must fulfil other than patentability, in particular unity of invention (Rule 13), sufficiency of disclosure (Art. 5), clarity (Art. 6) and the right to priority (Art. 8). Part G deals with excluded subject-matter (Art. 17(2)(a)(i) and Rule 39; Art. 34(4)(a)(i) and Rule 67), novelty (Art. 33(2)), inventive step (Art. 33(3)) and industrial application (Art. 33(4)). Part H deals with the requirements relating to amendments and corrections. It relates in particular to the right to amend, the allowability of amendments and the correction of defects and errors.

Each part of the Guidelines is divided into chapters, each subdivided into numbered sections which aremay be further sub-divided into paragraphssubsections. Cross-references to other paragraphssections and subsections are in the format GL/PCT-EPO, followed by the relevant letter of that part, then the chapter number (a Roman numeral) and then the section andor paragraphsubsection numbers (thus, e.g. GL/PCT-EPO C‑V, 4.2, would be used to refer to paragraphsubsection 4.2 of chapter V of Part C of the PCT-EPO Guidelines). When referring to the Guidelines for Examination in the EPO, the same format is used, but with "GL/EPO" instead of "GL/PCT-EPO".

Marginal references to articles and rules without further identification relate to the Articles or Rules of the Patent Cooperation Treaty which provide authority for what is stated. It is believed that such references avoid the need for extensive quotation from the PCT itself. References to Articles or Rules of the European Patent Convention are followed by "EPC". 
Marginal references to the RO and ISPE Guidelines relate to the corresponding sections in those Guidelines and are an indication that the present Guidelines apply within the framework of the RO and ISPE Guidelines, in conformity with the supplementary role of the EPC in the international phase. 
Where the practice for EP and PCT applications is the same (e.g. for the assessment of novelty), cross-references are made to the EP Guidelines. Where the practices are only partially overlapping, the information is contained in full in the PCT-EPO Guidelines, in order to avoid possible confusion. Chapter 3, Annex I, provides an EPC-PCT concordance table. 

It goes without saying that whenever "his" or "he" is used in relation to examiner, applicant, inventor, etc., this should be understood as "her or his" and "she or he", respectively.

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