Scedosporium

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The BioloMICSNet Software facilitates interogation of the available databases. The Basic search allows you to search on any kind of field.

Should you need to build more complex queries, then the Advanced search ( ) will allow you to customize the query.

The following link : BioloMICS Search will redirects you to the Search page

Similarity based on on-line pair-wise alignments

The BioloMICSNet Software facilitates identifications by the perfomance of on-line pair-wise and probabilistic sequences (DNA and/or Proteins) identifications.

The following link : BioloMICS Sequence Pairwise Alignment will redirects you to the BioloMICS Sequence Pairwise Alignment page

Polyphasic online identification

The BioloMICSNet Software has facilitated perfomance of on-line polyphasic identifications since the first version produced in 1999. Depending on the databases and the criteria that are available, a wide range of characteristics can be entered, combined and analyzed to obtain an identification of an unknown. The more criteria used, the more likely the identification will be reliable. The current on-line version of the software also facilitates for the production of phenetic trees.

For a complete description on fields and algorithms used in the polyphasic identification :

The following link : BioloMICS Polyphasic Identification will redirects you to the BioloMICS Polyphasic Identification page

Deposit of user's data

BioloMICSNet users willing to deposit their data or to order items using the cart system, will have to register. We need to be able to contact the depositor/client For specific information (e.g. BioloMICSNet number, possible points of clarification, for example regarding the name, actual date of publication, etc), and we also need to ensure all entries are genuine.

To register for the first time follow the steps below:

1. Enter your email address (see Register New User), click on the 'Create New Profile' button to receive a provisional password by email (this is to make sure that the provided email is real and that you are the person that can open the given email).

2. Read your email and go to the Register menu again. Enter your email and password (obtained by email). Click on the "Login" button and access the BioloMICSNet profile form where personal information has to be entered. Change the password and personalize it. Click on the "Save profile" button. You will then be registered and ready to deposit new items (strains, species, etc) or to order items on-line via the Cart system.

Link your website

Software developers can connect their website to BioloMICSNet.

Basic address 1:
http://www.scedosporium-ecmm.com/BioloMICS.aspx?Table=V2&Descr=V3&Fields=V4&ExactMatch=V5

Basic address 2:
http://www.scedosporium-ecmm.com/BioloMICS.aspx?Table=V2&Rec=V6&Fields=V4&ExactMatch=V5

where,

V1: Database Name (see 'Database' block ' below) where to find the wanted record (see table below for more information)

V2: Table Layout Name (see 'Fields Code' block below) where to find the wanted record (see table below for more information)

V3: Name of the wanted record

V4: Fields code (see 'Fields code' below) to be displayed. To display all fields use the 'All' value (ex.: &Fields =All). To display only one field, just paste the code of the field next to the & Fields tag (ex.: &Fields =E1). To display several fields, use several & Fields tag (ex.: &Fields=E1&Fields=T4&Fields=P8). Only the fields that are not empty will be displayed. See table below for more information on fields codes.

V5: Exact match for the queries. Use T for true or F for False (ex.: &ExactMatch =T). Relevant if V3 (Name specified). 'ExactMatch=T' will search for record where Name equals the given value while 'ExactMatch=F' will search for records where Name contains the given value.

V6: Unique ID of a given record (ex.: &Rec =1)

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Information details on Database : Scedosporium

Fields description for Layout : Scedosporium clinical strains

Field Caption	Field Name	Field Code	Field type
Strain's general data
	Species name given by the Scedosporium group	E1	RLink : Link to multiple records
	Bibliography	B1	RLink : Link to multiple records
	Depositor's centre name and address	E2	E : Text, administrative field
	Strain number of depositor	E37	E : Text, administrative field
	Date of isolation of the strain (dd/mm/yyyy)	E38	E : Text, administrative field
	Strain cultured from/substrate	E39	E : Text, administrative field
	Other collections numbers	E40	E : Text, administrative field
	General remarks	E41	E : Text, administrative field
	ITS sequence	N1	NLink : Link to Sequence
	Large subunit rDNA 26-28S	N2	NLink : Link to Sequence
	Fungal states	T6	T : Discrete data, single state
	Species name given by the depositor	E42	E : Text, administrative field
	Name of the depositor	E43	E : Text, administrative field
Patient's data
	Patient's city, country and hospital/ward	E6	E : Text, administrative field
	Age of patient	E8	E : Text, administrative field
	Sex	T1	T : Discrete data, single state
	Predisposing disease(s), factors	C2	C : Discrete data, multiple state
	Corticosteroid, Immunosuppressive & Antimicrobial treatments 1 month prior to diagnosis: Drugs, Dosages, Starting and Stopping dates	E9	E : Text, administrative field
	Predisposing disease(s) remarks	E21	E : Text, administrative field
	Clinical data remarks (fever, neurological and pulmonary signs, ...)	E22	E : Text, administrative field
	Date of Scedosporium diagnosis	E24	H : DateTime (YYYYMMDDHHmmss)
	Associated Scedosporium pathology	C6	C : Discrete data, multiple state
	Antifungal treatment of Scedosporium infection: Drugs, Dosages, Starting and Stopping dates	E31	E : Text, administrative field
Mycological data
	Hyphae in direct microscopy	T3	T : Discrete data, single state

Examples of hyperlinks for Table Scedosporium clinical strains in Database Scedosporium

Example 1: Record #1 [SCN 1], Display all Fields

http://www.scedosporium-ecmm.com/BioloMICS.aspx?Table=Scedosporium clinical strains&Rec=1&Fields=All&ExactMatch=T

Example 2: Record Name is 'SCN 1' , Display all Fields, Exact Match Searching

http://www.scedosporium-ecmm.com/BioloMICS.aspx?Table=Scedosporium clinical strains&Name=SCN 1&Fields=All&ExactMatch=T

Example 3: Record Name containing 'SCN' , Display all Fields, Non Exact Match Searching

http://www.scedosporium-ecmm.com/BioloMICS.aspx?Table=Scedosporium clinical strains&Name=SCN&Fields=All&ExactMatch=F

Example 4: Record Name containing 'SCN' , Display Field 'E1' (Species name given by the Scedosporium group), Non Exact Match Searching

http://www.scedosporium-ecmm.com/BioloMICS.aspx?Table=Scedosporium clinical strains&Name=SCN&Fields=E1&ExactMatch=F

Example 5: Record Name is 'SCN 14' , Display Field 'E1' (Species name given by the Scedosporium group) and 'T3' (Hyphae in direct microscopy ) , Exact Match Searching

http://www.scedosporium-ecmm.com/BioloMICS.aspx?Table=Scedosporium clinical strains&Name=SCN 14&Fields=E1&Fields=T3&ExactMatch=T

Fields description for Layout : Scedosporium environmental strains

Field Caption	Field Name	Field Code	Field type
Depositor
	Name given by the Scedosporium group	E1	RLink : Link to multiple records
	Centre name	E2	E : Text, administrative field
	Country of center	E3	E : Text, administrative field
	City of centre	E4	E : Text, administrative field
	Collections numbers	E40	E : Text, administrative field
	Strain physically present at	C8	C : Discrete data, multiple state
	Name given by the depositor	E42	E : Text, administrative field
	Name of the depositor	E43	E : Text, administrative field
General information
	Bibliography	B1	RLink : Link to multiple records
	General remarks	E41	E : Text, administrative field
Scientific strain data
	ITS sequence	N1	NLink : Link to Sequence
	Large subunit rDNA 26-28S	N2	NLink : Link to Sequence
	Fungal states	C7	C : Discrete data, multiple state
	Cleistothecia	T6	T : Discrete data, single state
Mycological data
	Origin of sample	E26	E : Text, administrative field
	Date of sampling	E27	H : DateTime (YYYYMMDDHHmmss)
Strain general data
	Depositor reference number of the isolate	E37	E : Text, administrative field
	Date of isolation of the strain (dd/mm/yyyy)	E38	E : Text, administrative field

Examples of hyperlinks for Table Scedosporium environmental strains in Database Scedosporium

Example 1: Record #4 [SCN 4], Display all Fields

http://www.scedosporium-ecmm.com/BioloMICS.aspx?Table=Scedosporium environmental strains&Rec=4&Fields=All&ExactMatch=T

Example 2: Record Name is 'SCN 4' , Display all Fields, Exact Match Searching

http://www.scedosporium-ecmm.com/BioloMICS.aspx?Table=Scedosporium environmental strains&Name=SCN 4&Fields=All&ExactMatch=T

Example 3: Record Name containing 'SCN' , Display all Fields, Non Exact Match Searching

http://www.scedosporium-ecmm.com/BioloMICS.aspx?Table=Scedosporium environmental strains&Name=SCN&Fields=All&ExactMatch=F

Example 4: Record Name containing 'SCN' , Display Field 'E1' (Name given by the Scedosporium group), Non Exact Match Searching

http://www.scedosporium-ecmm.com/BioloMICS.aspx?Table=Scedosporium environmental strains&Name=SCN&Fields=E1&ExactMatch=F

Example 5: Record Name is 'SCN 27' , Display Field 'E1' (Name given by the Scedosporium group) and 'E38' (Date of isolation of the strain (dd/mm/yyyy)) , Exact Match Searching

http://www.scedosporium-ecmm.com/BioloMICS.aspx?Table=Scedosporium environmental strains&Name=SCN 27&Fields=E1&Fields=E38&ExactMatch=T

Fields description for Layout : Deposit clinical strains

Field Name	Field Code	Field type
Name of the depositor	E43	E : Text, administrative field
Depositor's centre name and address	E2	E : Text, administrative field
Species name given by the depositor	E42	E : Text, administrative field
Patient's city, country and hospital/ward	E6	E : Text, administrative field
Age of patient	E8	E : Text, administrative field
Fungal states	T6	T : Discrete data, single state
Sex	T1	T : Discrete data, single state
Predisposing disease(s), factors	C2	C : Discrete data, multiple state
Corticosteroid, Immunosuppressive & Antimicrobial treatments 1 month prior to diagnosis: Drugs, Dosages, Starting and Stopping dates	E9	E : Text, administrative field
Predisposing disease(s) remarks	E21	E : Text, administrative field
Date of Scedosporium diagnosis	E24	H : DateTime (YYYYMMDDHHmmss)
Hyphae in direct microscopy	T3	T : Discrete data, single state
Associated Scedosporium pathology	C6	C : Discrete data, multiple state
Associated Scedosporium pathology remarks	E28	E : Text, administrative field
Antifungal treatment of Scedosporium infection: Drugs, Dosages, Starting and Stopping dates	E31	E : Text, administrative field
Depositor reference number of the isolate	E37	E : Text, administrative field
Date of isolation of the strain (dd/mm/yyyy)	E38	E : Text, administrative field
Strain cultured from/substrate	E39	E : Text, administrative field
Other collections numbers	E40	E : Text, administrative field
General remarks	E41	E : Text, administrative field
ITS sequence	N1	NLink : Link to Sequence
Large subunit rDNA 26-28S	N2	NLink : Link to Sequence

Examples of hyperlinks for Table Deposit clinical strains in Database Scedosporium

Example 1: Record #1 [New Record 2/1/2011 10:23:20 AM], Display all Fields

http://www.scedosporium-ecmm.com/BioloMICS.aspx?Table=Deposit clinical strains&Rec=1&Fields=All&ExactMatch=T

Example 2: Record Name is 'New Record 2/1/2011 10:23:20 AM' , Display all Fields, Exact Match Searching

http://www.scedosporium-ecmm.com/BioloMICS.aspx?Table=Deposit clinical strains&Name=New Record 2/1/2011 10:23:20 AM&Fields=All&ExactMatch=T

Example 3: Record Name containing 'New' , Display all Fields, Non Exact Match Searching

http://www.scedosporium-ecmm.com/BioloMICS.aspx?Table=Deposit clinical strains&Name=New&Fields=All&ExactMatch=F

Example 4: Record Name containing 'New' , Display Field 'E43' (Name of the depositor), Non Exact Match Searching

http://www.scedosporium-ecmm.com/BioloMICS.aspx?Table=Deposit clinical strains&Name=New&Fields=E43&ExactMatch=F

Example 5: Record Name is 'New Record 2/1/2011 10:23:20 AM' , Display Field 'E43' (Name of the depositor) and 'N2' (Large subunit rDNA 26-28S) , Exact Match Searching

http://www.scedosporium-ecmm.com/BioloMICS.aspx?Table=Deposit clinical strains&Name=New Record 2/1/2011 10:23:20 AM&Fields=E43&Fields=N2&ExactMatch=T

Fields description for Layout : Deposit environmental strains

Field Name	Field Code	Field type
Name of the depositor	E43	E : Text, administrative field
Centre name	E2	E : Text, administrative field
Country of center	E3	E : Text, administrative field
City of centre	E4	E : Text, administrative field
Strain physically present at	C8	C : Discrete data, multiple state
Origin of sample	E26	E : Text, administrative field
Date of sampling	E27	H : DateTime (YYYYMMDDHHmmss)
Depositor reference number of the isolate	E37	E : Text, administrative field
Name given by the depositor	E42	E : Text, administrative field
Date of isolation of the strain (dd/mm/yyyy)	E38	E : Text, administrative field
Collections numbers	E40	E : Text, administrative field
General remarks	E41	E : Text, administrative field
Cleistothecia	T6	T : Discrete data, single state
ITS sequence	N1	NLink : Link to Sequence
Large subunit rDNA 26-28S	N2	NLink : Link to Sequence
Fungal states	C7	C : Discrete data, multiple state

Examples of hyperlinks for Table Deposit environmental strains in Database Scedosporium

No Data in this Database Table

Contact(s) for Database : Scedosporium

The following link : BioloMICS Contact information will redirects you to the BioloMICS Contact information page

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