Medical

Help on BioloMICSNet

How to search our databases

The BioloMICSNet Software facilitates interrogation 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 redirect you to the Search page

Similarity based on on-line pair-wise alignments

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

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

Polyphasic online identification

The BioloMICSNet Software has facilitated performance 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 redirect 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.cbs.knaw.nl/Medical/BioloMICS.aspx?Table=V2&Descr=V3&Fields=V4&ExactMatch=V5

Basic address 2:
http://www.cbs.knaw.nl/Medical/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)

Export database description
- Export to Excel
- Export to Word

Information details on Database : Medical

Fields description for Layout : Medical fungi species

Field Caption	Field Name	Field Code	Field type
General information
	Species name_Mycobank	E1_Mycobank	U : URL
	Species name	E1	RLink : Link to one or more records
Mycelium
	Culturable	T1	T : Discrete data, 15 combinations of 4 independant states
	Culture colour	C1	C : Discrete data, multiple state
	Culture exudate colour	C2	C : Discrete data, multiple state
	Culture position	T2	T : Discrete data, 15 combinations of 4 independant states
	Culture reverse colour	C3	C : Discrete data, multiple state
	Smell	C4	C : Discrete data, multiple state
	Mycelium shape	T3	T : Discrete data, 15 combinations of 4 independant states
	Mycelium colour	C5	C : Discrete data, multiple state
	hyphae width (micrometer)	S1	S : Continuous data range (Min,LP,HP,Max)
	antler-like hyphae (favic chandeliers)	T4	T : Discrete data, 15 combinations of 4 independant states
	Appressoria	T22	T : Discrete data, 15 combinations of 4 independant states
	Appressoria outline shape	T23	T : Discrete data, 15 combinations of 4 independant states
	Clamp connections	T24	T : Discrete data, 15 combinations of 4 independant states
	Hyphae with many nuclei	T25	T : Discrete data, 15 combinations of 4 independant states
	Double septa	T26	T : Discrete data, 15 combinations of 4 independant states
	Rhizoids	T27	T : Discrete data, 15 combinations of 4 independant states
	Stolons	T28	T : Discrete data, 15 combinations of 4 independant states
	Colour reaction with NaOH	T31	T : Discrete data, 15 combinations of 4 independant states
	Homothallism	T32	T : Discrete data, 15 combinations of 4 independant states
	Heterothallism	T33	T : Discrete data, 15 combinations of 4 independant states
Conidiospores and conidioma
	Conidiomata	C6	C : Discrete data, multiple state
	Conidiophores	T5	T : Discrete data, 15 combinations of 4 independant states
	Conidiophores shape	C7	C : Discrete data, multiple state
	Conidiophores width	S2	S : Continuous data range (Min,LP,HP,Max)
	Conidiophores colour	C8	C : Discrete data, multiple state
	Conidiophores ornamentation	T6	T : Discrete data, 15 combinations of 4 independant states
	Conidiogenous cell	T7	T : Discrete data, 15 combinations of 4 independant states
	Conidiogenous scars	T8	T : Discrete data, 15 combinations of 4 independant states
	Arthroconidia formation	T9	T : Discrete data, 15 combinations of 4 independant states
	Conidiogenous cell shape	C9	C : Discrete data, multiple state
	Phialide ornamentation	T10	T : Discrete data, 15 combinations of 4 independant states
	Conidiogenous cell width	S3	S : Continuous data range (Min,LP,HP,Max)
	Conidiogenous cell length	S4	S : Continuous data range (Min,LP,HP,Max)
	Conidiogenous cell colour	C10	C : Discrete data, multiple state
	Conidiogenous cell ornamentation	T11	T : Discrete data, 15 combinations of 4 independant states
	Conidia	T12	T : Discrete data, 15 combinations of 4 independant states
	Conidia shape	C11	C : Discrete data, multiple state
	Conidia # transverse septa	S5	S : Continuous data range (Min,LP,HP,Max)
	Conidia # longitudinal septa	S6	S : Continuous data range (Min,LP,HP,Max)
	Conidia width	S7	S : Continuous data range (Min,LP,HP,Max)
	Conidia length	S8	S : Continuous data range (Min,LP,HP,Max)
	Conidia colour	C12	C : Discrete data, multiple state
	Conidia ornamentation	C13	C : Discrete data, multiple state
	Conidia frill	T13	T : Discrete data, 15 combinations of 4 independant states
	Conidia hilum	T14	T : Discrete data, 15 combinations of 4 independant states
	Conidia aggregation	T15	T : Discrete data, 15 combinations of 4 independant states
	Conidia # germ slits	S9	S : Continuous data range (Min,LP,HP,Max)
	Conidia septation type	T16	T : Discrete data, 15 combinations of 4 independant states
	Conidia constricted at septa	T17	T : Discrete data, 15 combinations of 4 independant states
	Microconidia	T18	T : Discrete data, 15 combinations of 4 independant states
	Microconidia shape	C14	C : Discrete data, multiple state
	Microconidia # septa	S10	S : Continuous data range (Min,LP,HP,Max)
	Microconidia width	S11	S : Continuous data range (Min,LP,HP,Max)
	Microconidia length	S12	S : Continuous data range (Min,LP,HP,Max)
	Microconidia colour	T19	T : Discrete data, 15 combinations of 4 independant states
	Sclerotia or bulbils	T20	T : Discrete data, 15 combinations of 4 independant states
	Chlamydospores	T29	T : Discrete data, 15 combinations of 4 independant states
	Sclerotia colour	C15	C : Discrete data, multiple state
	Chlamydospores position	T30	T : Discrete data, 15 combinations of 4 independant states
	Chlamydospores shape	C16	C : Discrete data, multiple state
	Chlamydospores # transverse septa	S13	S : Continuous data range (Min,LP,HP,Max)
	Chlamydospores # longitudinal septa	S14	S : Continuous data range (Min,LP,HP,Max)
	Chlamydospores width	S15	S : Continuous data range (Min,LP,HP,Max)
	Chlamydospores length	S16	S : Continuous data range (Min,LP,HP,Max)
	Chlamydospores colour	C17	C : Discrete data, multiple state
	Chlamydospores ornamentation	C18	C : Discrete data, multiple state
	Pycnidium shape	T34	T : Discrete data, 15 combinations of 4 independant states
	Pycnidium colour	C19	C : Discrete data, multiple state
	Pycnidium width	S17	S : Continuous data range (Min,LP,HP,Max)
	Pycnidium height	S18	S : Continuous data range (Min,LP,HP,Max)
	Pycnidium wall structure	T35	T : Discrete data, 15 combinations of 4 independant states
	Conidiomata ornamentation	T36	T : Discrete data, 15 combinations of 4 independant states
	Paraphyses between conidiophores	T37	T : Discrete data, 15 combinations of 4 independant states
	Periphyses in conidioma ostiole	T38	T : Discrete data, 15 combinations of 4 independant states
	Oidia	T53	T : Discrete data, 15 combinations of 4 independant states
Basidispores and basidioma
	Basidiomata formed	T39	T : Discrete data, 15 combinations of 4 independant states
	Basidiospores	T40	T : Discrete data, 15 combinations of 4 independant states
	Basidiospores width	S19	S : Continuous data range (Min,LP,HP,Max)
	Basidiospores length	S20	S : Continuous data range (Min,LP,HP,Max)
Zoospores and endospores
	Zoospores with flagellae	T41	T : Discrete data, 15 combinations of 4 independant states
	Antheridia	T42	T : Discrete data, 15 combinations of 4 independant states
	Endospores	T54	T : Discrete data, 15 combinations of 4 independant states
	Endospore number	S27	S : Continuous data range (Min,LP,HP,Max)
	Endospores shape	T55	T : Discrete data, 15 combinations of 4 independant states
	Endospores size	S28	S : Continuous data range (Min,LP,HP,Max)
Sporangiospores, zygospores and sporangia
	Sporangiophores	T43	T : Discrete data, 15 combinations of 4 independant states
	Sporangiophores shape	T44	T : Discrete data, 15 combinations of 4 independant states
	Sporangiophore branches	T45	T : Discrete data, 15 combinations of 4 independant states
	Sporangiophores width	S21	S : Continuous data range (Min,LP,HP,Max)
	Sporangiophores maximum length (mm)	S22	S : Continuous data range (Min,LP,HP,Max)
	Sporangiophores colour	C20	C : Discrete data, multiple state
	Sporangiophores ornamentation	T46	T : Discrete data, 15 combinations of 4 independant states
	Sporangia	T47	T : Discrete data, 15 combinations of 4 independant states
	Sporangia number	S23	S : Continuous data range (Min,LP,HP,Max)
	Sporangia shape	C21	C : Discrete data, multiple state
	Sporangia with columella	T48	T : Discrete data, 15 combinations of 4 independant states
	Sporangia with apophysis	T49	T : Discrete data, 15 combinations of 4 independant states
	Sporangia width	S24	S : Continuous data range (Min,LP,HP,Max)
	Sporangia length	S25	S : Continuous data range (Min,LP,HP,Max)
	Sporangia ornamentation	T50	T : Discrete data, 15 combinations of 4 independant states
	Sporangia colour	T51	T : Discrete data, 15 combinations of 4 independant states
	Azygospores	T52	T : Discrete data, 15 combinations of 4 independant states
	Azygospores size	S26	S : Continuous data range (Min,LP,HP,Max)
	Sporangiospores	T56	T : Discrete data, 15 combinations of 4 independant states
	Sporangiospore number	S29	S : Continuous data range (Min,LP,HP,Max)
	Sporangiospores shape	C22	C : Discrete data, multiple state
	Sporangiospores width	S30	S : Continuous data range (Min,LP,HP,Max)
	Sporangiospores length	S31	S : Continuous data range (Min,LP,HP,Max)
	Sporangiospores colour	T57	T : Discrete data, 15 combinations of 4 independant states
	Sporangiospores ornamentation	C23	C : Discrete data, multiple state
	Zygospores	T58	T : Discrete data, 15 combinations of 4 independant states
	Zygospores shape	T59	T : Discrete data, 15 combinations of 4 independant states
	Zygospores suspensors	T60	T : Discrete data, 15 combinations of 4 independant states
	Zygospores width	S32	S : Continuous data range (Min,LP,HP,Max)
	Zygospores length	S33	S : Continuous data range (Min,LP,HP,Max)
	Zygospores colour	C24	C : Discrete data, multiple state
	Zygospores ornamentation	C25	C : Discrete data, multiple state
Ascospores and ascoma
	Ascomata	T61	T : Discrete data, 15 combinations of 4 independant states
	Ascomata structure	T62	T : Discrete data, 15 combinations of 4 independant states
	Ascomata shape	T63	T : Discrete data, 15 combinations of 4 independant states
	Ascomata colour	C26	C : Discrete data, multiple state
	Ascomata width	S34	S : Continuous data range (Min,LP,HP,Max)
	Ascomata height	S35	S : Continuous data range (Min,LP,HP,Max)
	Ascomata position	T64	T : Discrete data, 15 combinations of 4 independant states
	Ostiole	T65	T : Discrete data, 15 combinations of 4 independant states
	Ostiole tip setose	T66	T : Discrete data, 15 combinations of 4 independant states
	Ascoma wall structure	T67	T : Discrete data, 15 combinations of 4 independant states
	Ascoma wall cell special structure	T68	T : Discrete data, 15 combinations of 4 independant states
	Ascoma wall ornamentation	C27	C : Discrete data, multiple state
	Ascoma wall hair tips	T69	T : Discrete data, 15 combinations of 4 independant states
	Paraphyses between asci	T70	T : Discrete data, 15 combinations of 4 independant states
	Periphysoids	T71	T : Discrete data, 15 combinations of 4 independant states
	Asci shape	C28	C : Discrete data, multiple state
	Asci wall	T72	T : Discrete data, 15 combinations of 4 independant states
	Asci dehiscence	T73	T : Discrete data, 15 combinations of 4 independant states
	Asci width	S36	S : Continuous data range (Min,LP,HP,Max)
	Asci length	S37	S : Continuous data range (Min,LP,HP,Max)
	Ascospores # per ascus	S38	S : Continuous data range (Min,LP,HP,Max)
	Ascospore arrangement	T74	T : Discrete data, 15 combinations of 4 independant states
	Ascospores	T75	T : Discrete data, 15 combinations of 4 independant states
	Ascospores shapes	C29	C : Discrete data, multiple state
	Ascospores # septa	S39	S : Continuous data range (Min,LP,HP,Max)
	Ascospores width	S40	S : Continuous data range (Min,LP,HP,Max)
	Ascospores length	S41	S : Continuous data range (Min,LP,HP,Max)
	Ascospores colour	C30	C : Discrete data, multiple state
	Ascospores ornamentation	C31	C : Discrete data, multiple state
	Ascospore # rims	S42	S : Continuous data range (Min,LP,HP,Max)
	Ascospores # germ pores	S43	S : Continuous data range (Min,LP,HP,Max)
	Ascospores # germ slits	S44	S : Continuous data range (Min,LP,HP,Max)
	Ascospore wall	T76	T : Discrete data, 15 combinations of 4 independant states
	Ascospore gelatin	T77	T : Discrete data, 15 combinations of 4 independant states
DNA sequences
	Internal Transcribed Spacers	N6	NLink : Link to Sequence
	Large subunit 28S	N7	NLink : Link to Sequence
	Small subunit 18S	N8	NLink : Link to Sequence
	Beta tubulin	N9	NLink : Link to Sequence
	Elongation factor	N10	NLink : Link to Sequence
	References	B1	RLink : Link to one or more records

Examples of hyperlinks for Table Medical fungi species in Database Medical

Example 1: Record #1 [Absidia coerulea], Display all Fields

http://www.cbs.knaw.nl/Medical/BioloMICS.aspx?Table=Medical fungi species&Rec=1&Fields=All&ExactMatch=T

Example 2: Record Name is 'Absidia coerulea' , Display all Fields, Exact Match Searching

http://www.cbs.knaw.nl/Medical/BioloMICS.aspx?Table=Medical fungi species&Name=Absidia coerulea&Fields=All&ExactMatch=T

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

http://www.cbs.knaw.nl/Medical/BioloMICS.aspx?Table=Medical fungi species&Name=Absidia&Fields=All&ExactMatch=F

Example 4: Record Name containing 'Acremonium' , Display Field 'E1_Mycobank' (Species name_Mycobank), Non Exact Match Searching

http://www.cbs.knaw.nl/Medical/BioloMICS.aspx?Table=Medical fungi species&Name=Acremonium&Fields=E1_Mycobank&ExactMatch=F

Example 5: Record Name is 'Acremonium kiliense' , Display Field 'E1_Mycobank' (Species name_Mycobank) and 'B1' (References) , Exact Match Searching

http://www.cbs.knaw.nl/Medical/BioloMICS.aspx?Table=Medical fungi species&Name=Acremonium kiliense&Fields=E1_Mycobank&Fields=B1&ExactMatch=T

Contact(s) for Database : Medical

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

Search Service

Click here for full description.

Disclaimer and Limitation of Liability:

BioAware makes no representation or warranty whatsoever regarding the performance, use or results of the software, including without limitation, any express or implied warranties, including without limitation, the implied warranties of merchant ability and fitness for a particular purpose. In no event shall BioAware be liable for any direct, indirect, incidental, special, exemplary, or consequential damages (including without limitation, procurement of substitute goods or services, loss of use, data, or profits, or business interruption) however caused and not withstanding any theory of liability, whether in contrast, strict liability, or tort (including negligence or otherwise) arising in any way out of the software, even if advised of the possibility or probality of such damage. BioAware shall beat no responsability for the accuracy or quality of information or other results (The Information) obtained through its provision of the software, nor the use or misuse of any information by any user of the information, unauthorized use of any information protected by intellectual property rights. The user acknowledges and agrees that BioAware is merely permitting access to the information supplied throught the software, and that the user is responsible for the accuracy, truthfulness and all other matters relating to such information. Further, the user acknowledges and agrees that the software is subject to interruption from time to time and the user's information may not be accessed by its intended user.