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Biased Information Retrieval in
Pharmaceutical Drug Development
ICIC - 20th October 2015
Kasper Højby Nielsen
kphn@novonordisk.com
Information scientist, team leader
Novo Nordisk A/S, Denmark
Background: Medicine, human biology 1993
Profession: Academic librarian 1995
-> information scientist 2006
-> information consultant 2015
I have performed hundreds if not thousands of searches!
Who am I?!
20-10-2015ICIC 2015: Biased Information Retrieval 2
Library
ICIC 2015: Biased Information Retrieval 20-10-2015 3
Knowledge Centre
ICIC 2015: Biased Information Retrieval 20-10-2015 4
An information scientist combines
• Field knowledge (scientific field)
• Business understanding
• Library field insight and experience
and acts as an internal information consultant:
Global Information & Analysis in Novo Nordisk
20-10-2015ICIC 2015: Biased Information Retrieval 5
• I am not an IT specialist
• I am an advanced user of IT systems/databases
• I have performed a study of vendor search deliveries
Why am I invited to ICIC?
20-10-2015ICIC 2015: Biased Information Retrieval 6
• Information searching
• Bias in information retrieval
• Investigation objectives
• Methods
• Results
• Conclusions and recommendations
Agenda
ICIC 2015: Biased Information Retrieval 20-10-2015 7
Oxford Dictionary:
Search (for somebody/something):
1. An attempt to find somebody/something, especially by
looking carefully for them/it
2. An act or the activity of looking for information in a computer
database or network
What is a search?
ICIC 2015: Biased Information Retrieval 20-10-2015 8
• IT perspective
• Information scientist perspective: Searching for data in bibliographies
A combination of queries
leading to a filtered result
What is a “search”?
20-10-2015ICIC 2015: Biased Information Retrieval 9
What is a “search”?
ICIC 2015: Biased Information Retrieval 20-10-2015 10
1_: ((SAFETY OR (ADVERSE ADJ EVENT$1)) OR 1386359 docs
(ADVERSE ADJ REACTION$1)) OR (ADVERSE
ADJ EFFECT$1)
2_: ((SUSAR$1 OR (SIDE ADJ EFFECT$1)) OR 969051 docs
(DRUG ADJ REACTION$1)) OR (DRUG ADJ
EFFECT$1)
3_: COMPLICATION$1 1417042 docs
4_: NOVOMIX$1 OR NOVOLOG$1 OR NOVORAPID$1 9939 docs
OR LEVEMIR$1 OR LANTUS$1 OR ASPART$1 OR
GLARGINE$1
5_: (DETEMIR$1 OR ((BIPHASIC ADJ INSULIN) 6216 docs
ADJ (LISPRO$1 OR ASPART$1))) OR
(INSULIN ADJ ANALOG$4)
6_: HUMALOG$1 512 docs
7_: 1 OR 3 OR 2 3210368 docs
8_: 6 OR 5 OR 4 12349 docs
9_: 8 AND 7 6151 docs
10_: "2014".PY. 4729501 docs
11_: 9 AND 10 1143 docs
((SAFETY OR (ADVERSE ADJ EVENT$1)) OR
(ADVERSE ADJ REACTION$1)) OR (ADVERSE
ADJ EFFECT$1) 1386359 docs
What is a search?
ICIC 2015: Biased Information Retrieval 20-10-2015 11
What is a good search?
20-10-2015ICIC 2015: Biased Information Retrieval 12
It all depends!
What is a good search?
20-10-2015ICIC 2015: Biased Information Retrieval 13
Standardisation? Building the search profile
What is a good search?
ICIC 2015: Biased Information Retrieval 20-10-2015 14
Safety
Adverse
event
Adverse
reaction
Adverse
effect
AE
SAE
…
Drug
Insulin
analogue
Modern
insulin
Product
Levemir
Detemir
Lantus
Glargine
…
Children
Child
Paediatric
Teenager
Teen
…
What is a good search? Intersection
ICIC 2015: Biased Information Retrieval 20-10-2015 15
“Please give me everything about diabetes”
Results: 498.147 (PubMed as of 11. October 2015)
“Please everything about diabetes mellitus”
Results: 380.259 (PubMed as of 11. October 2015)
What is a good search query?
ICIC 2015: Biased Information Retrieval 20-10-2015 16
Biased information retrieval
ICIC 2015: Biased Information Retrieval 20-10-2015 17
Sources consulted Search methodology
Many ways to perform a search
Are search results from different vendors alike – how much do
they differ?
What is the impact of strengthening the interaction between
customer and vendor?
Had something like this been done before? Not to my knowledge
Study to compare vendor results
20-10-2015ICIC 2015: Biased Information Retrieval 18
It is hypothesised that a potential difference in response from
third party providers to identical literature search requests can
be avoided or at least substantially reduced by strengthening
the communication and feedback between requester and
providers.
Hypothesis
ICIC 2015: Biased Information Retrieval 20-10-2015 19
Methods - highlights
• Preparations
• Field study
• Processing of data
• Analysis
Slide no
2020-10-2015ICIC 2015: Biased Information Retrieval
Methods - preparations
• Preparations of research questions
• Contact to a set of information providers – 6 in total
• Blinded (did not know about the project)
• The providers were paid for their services
• Novo Nordisk could use the data
• International
• Public/Private
• Same communication to all vendors
Slide no
2120-10-2015ICIC 2015: Biased Information Retrieval
Methods - preparations
Literature search request no. 1
Email:
I would like a comprehensive literature search performed on the
following subject – preferably within 5-10 working days. Would this be
feasible?
In Systemic Lupus Erythematosus (SLE): What is the frequency of
different comorbid diseases (mortality related) and do you find the
occurrence related to disease severity? Gender differences? Please
attach the reference list (including abstracts) as well as the search
criteria used including databases searched.
Slide no
2220-10-2015ICIC 2015: Biased Information Retrieval
Methods - preparations
Literature search request no. 2:
Email:
Please provide a comprehensive literature search covering the
following questions within the next 5-10 working days:
What is the frequency of comorbid diseases in Rheumatoid Arthritis
(RA) regarding cardiovascular events and cancer? Is there a
difference in occurrence of the above between the following
subpopulations: MTX-naïve patients? MTX-IR RA patients? TNF-IR
patients? (IR=inadequate response).
Please attach the reference list (including abstracts) for the recent
5-10 years as well as the search criteria used including databases
searched.
Please contact me via email with any questions you may have for
this query.
Slide no
2320-10-2015ICIC 2015: Biased Information Retrieval
Methods - Field study
• Interaction with the information providers
• Search no. 1: Minimal interaction
• Search no. 2: Attempts to increase communication
• Email correspondence
• Providers kept blinded
• Reception of responses/results
ICIC 2015: Biased Information Retrieval
Slide no
2420-10-2015
Methods - Processing of data
• Re-retrieval of references (intra-provider duplicate exclusion)
• Transfer to Reference Manager (citation handling system)
• Duplicate determination (overlap)
• Relevance review
• Vendor search methodology review
Slide no
2520-10-2015ICIC 2015: Biased Information Retrieval
No or very little response/interaction
Vendor behaviour
20-10-2015ICIC 2015: Biased Information Retrieval 26
Results
Responses from providers (search no. 1)
Slide no
27
Provider
no.
No. of references
PY = 2009-2013
Total no. of references
1 64 123 (no PY limitation)
2 94 94 (2009-2013)
3 37 (2012-2013) 37 (2012-2013)
4 75 77 (2008-2013)
5 67 109 (2004-2013)
6 133 252 (no PY limitation)
Total 472 692
20-10-2015ICIC 2015: Biased Information Retrieval
Results – Overlap search no. 1
Slide no
2820-10-2015ICIC 2015: Biased Information Retrieval
Results – Overlap search no. 2
ICIC 2015: Biased Information Retrieval
Slide no
2920-10-2015
Most important findings:
Overlap: Search no. 1: 35% (provider 4 and 5)
2% (provider 1 and 2)
Search no. 2: 24% (provider 5 and 6)
5% (provider 2 and 6)
None of the references were identified by all providers
Results
20-10-2015ICIC 2015: Biased Information Retrieval 30
Core article
ICIC 2015: Biased Information Retrieval 20-10-2015 31
• The hypothesis was rejected: Attempts to increase interaction
between customer and providers did not lead to an increase of
overlap between provider results
• There is a risk of introducing information retrieval bias
Conclusions
20-10-2015ICIC 2015: Biased Information Retrieval 32
• Decision makers´ perception of information research
• Outsourcing?
1. Lack of understanding (business understanding/query
understanding)
2. Lack of communication initiative
3. No use of advanced search methodology
Concerns
ICIC 2015: Biased Information Retrieval 20-10-2015 33
1. Understand the information search request in detail
2. Establish a search strategy
3. Generate a search profile
4. Initiate the search as an iterative process
5. Combine various search methods
6. Accept large sets of search results
7. Allow for time and allocate resources to be able to filter down
and analyse the search results for relevance
8. Consider if it is possible to apply an advanced analytical tool
like e.g. text mining in order to analyse large sets of data
Recommendations
20-10-2015ICIC 2015: Biased Information Retrieval 34
Summary
Slide no
3520-10-2015ICIC 2015: Biased Information Retrieval
Thank you!
Questions?
20-10-2015ICIC 2015: Biased Information Retrieval 36
• Who were the vendors?
• Are the results published?
• Case: Ph.d. literature search course
Back up slides
20-10-2015ICIC 2015: Biased Information Retrieval 37
Provider
number
Number
of
retrieved
articles
n
Provider
contacted
requester
with
clarifying
questions
Yes/No
Number
of
relevant
articles
n
Ratio of
relevant
articles
%
Ratio of
potentia
l
relevant
articles
%
Ratio of
irrelevant
articles
%
1 123 N 69 56 24 20
2 94 N 46 48 29 23
3 37 Y 26 68 21 11
4 77 N 39 51 27 22
5 109 N 52 48 20 32
6 252 N 89 35 23 42
Relevance ranking for search 1 and 2
ICIC 2015: Biased Information Retrieval 20-10-2015 38
ICIC 2015: Biased Information Retrieval 20-10-2015 39
Provider
no.
Used
database
keywords
(subject
headings)
Yes/No
S1 S2
Used
database
major
subject
headings
Yes/No
S1 S2
Used
database
subject
subheadings
Yes/No
S1 S2
Used
truncation
Yes/No
S1 S2
Used
article title
searching
Yes/No
S1 S2
Used
proximity
operators
Yes/No
S1 S2
1 N N N N N N Y Y N N N N
2 N N N N N N Y Y Y Y Y Y
3 Y Y Y N N N Y Y Y Y Y Y
4 Y Y Y Y Y Y N N Y Y N N
5 N N N N N N Y Y N N Y Y
6 Y Y N N Y Y Y Y Y Y N N
Search methodology
ICIC 2015: Biased Information Retrieval 20-10-2015 40

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Biased Information Retrieval in Pharmaceutical Drug Development

  • 1. Biased Information Retrieval in Pharmaceutical Drug Development ICIC - 20th October 2015 Kasper Højby Nielsen kphn@novonordisk.com Information scientist, team leader Novo Nordisk A/S, Denmark
  • 2. Background: Medicine, human biology 1993 Profession: Academic librarian 1995 -> information scientist 2006 -> information consultant 2015 I have performed hundreds if not thousands of searches! Who am I?! 20-10-2015ICIC 2015: Biased Information Retrieval 2
  • 3. Library ICIC 2015: Biased Information Retrieval 20-10-2015 3
  • 4. Knowledge Centre ICIC 2015: Biased Information Retrieval 20-10-2015 4
  • 5. An information scientist combines • Field knowledge (scientific field) • Business understanding • Library field insight and experience and acts as an internal information consultant: Global Information & Analysis in Novo Nordisk 20-10-2015ICIC 2015: Biased Information Retrieval 5
  • 6. • I am not an IT specialist • I am an advanced user of IT systems/databases • I have performed a study of vendor search deliveries Why am I invited to ICIC? 20-10-2015ICIC 2015: Biased Information Retrieval 6
  • 7. • Information searching • Bias in information retrieval • Investigation objectives • Methods • Results • Conclusions and recommendations Agenda ICIC 2015: Biased Information Retrieval 20-10-2015 7
  • 8. Oxford Dictionary: Search (for somebody/something): 1. An attempt to find somebody/something, especially by looking carefully for them/it 2. An act or the activity of looking for information in a computer database or network What is a search? ICIC 2015: Biased Information Retrieval 20-10-2015 8
  • 9. • IT perspective • Information scientist perspective: Searching for data in bibliographies A combination of queries leading to a filtered result What is a “search”? 20-10-2015ICIC 2015: Biased Information Retrieval 9
  • 10. What is a “search”? ICIC 2015: Biased Information Retrieval 20-10-2015 10 1_: ((SAFETY OR (ADVERSE ADJ EVENT$1)) OR 1386359 docs (ADVERSE ADJ REACTION$1)) OR (ADVERSE ADJ EFFECT$1) 2_: ((SUSAR$1 OR (SIDE ADJ EFFECT$1)) OR 969051 docs (DRUG ADJ REACTION$1)) OR (DRUG ADJ EFFECT$1) 3_: COMPLICATION$1 1417042 docs 4_: NOVOMIX$1 OR NOVOLOG$1 OR NOVORAPID$1 9939 docs OR LEVEMIR$1 OR LANTUS$1 OR ASPART$1 OR GLARGINE$1 5_: (DETEMIR$1 OR ((BIPHASIC ADJ INSULIN) 6216 docs ADJ (LISPRO$1 OR ASPART$1))) OR (INSULIN ADJ ANALOG$4) 6_: HUMALOG$1 512 docs 7_: 1 OR 3 OR 2 3210368 docs 8_: 6 OR 5 OR 4 12349 docs 9_: 8 AND 7 6151 docs 10_: "2014".PY. 4729501 docs 11_: 9 AND 10 1143 docs
  • 11. ((SAFETY OR (ADVERSE ADJ EVENT$1)) OR (ADVERSE ADJ REACTION$1)) OR (ADVERSE ADJ EFFECT$1) 1386359 docs What is a search? ICIC 2015: Biased Information Retrieval 20-10-2015 11
  • 12. What is a good search? 20-10-2015ICIC 2015: Biased Information Retrieval 12
  • 13. It all depends! What is a good search? 20-10-2015ICIC 2015: Biased Information Retrieval 13
  • 14. Standardisation? Building the search profile What is a good search? ICIC 2015: Biased Information Retrieval 20-10-2015 14 Safety Adverse event Adverse reaction Adverse effect AE SAE … Drug Insulin analogue Modern insulin Product Levemir Detemir Lantus Glargine … Children Child Paediatric Teenager Teen …
  • 15. What is a good search? Intersection ICIC 2015: Biased Information Retrieval 20-10-2015 15
  • 16. “Please give me everything about diabetes” Results: 498.147 (PubMed as of 11. October 2015) “Please everything about diabetes mellitus” Results: 380.259 (PubMed as of 11. October 2015) What is a good search query? ICIC 2015: Biased Information Retrieval 20-10-2015 16
  • 17. Biased information retrieval ICIC 2015: Biased Information Retrieval 20-10-2015 17 Sources consulted Search methodology
  • 18. Many ways to perform a search Are search results from different vendors alike – how much do they differ? What is the impact of strengthening the interaction between customer and vendor? Had something like this been done before? Not to my knowledge Study to compare vendor results 20-10-2015ICIC 2015: Biased Information Retrieval 18
  • 19. It is hypothesised that a potential difference in response from third party providers to identical literature search requests can be avoided or at least substantially reduced by strengthening the communication and feedback between requester and providers. Hypothesis ICIC 2015: Biased Information Retrieval 20-10-2015 19
  • 20. Methods - highlights • Preparations • Field study • Processing of data • Analysis Slide no 2020-10-2015ICIC 2015: Biased Information Retrieval
  • 21. Methods - preparations • Preparations of research questions • Contact to a set of information providers – 6 in total • Blinded (did not know about the project) • The providers were paid for their services • Novo Nordisk could use the data • International • Public/Private • Same communication to all vendors Slide no 2120-10-2015ICIC 2015: Biased Information Retrieval
  • 22. Methods - preparations Literature search request no. 1 Email: I would like a comprehensive literature search performed on the following subject – preferably within 5-10 working days. Would this be feasible? In Systemic Lupus Erythematosus (SLE): What is the frequency of different comorbid diseases (mortality related) and do you find the occurrence related to disease severity? Gender differences? Please attach the reference list (including abstracts) as well as the search criteria used including databases searched. Slide no 2220-10-2015ICIC 2015: Biased Information Retrieval
  • 23. Methods - preparations Literature search request no. 2: Email: Please provide a comprehensive literature search covering the following questions within the next 5-10 working days: What is the frequency of comorbid diseases in Rheumatoid Arthritis (RA) regarding cardiovascular events and cancer? Is there a difference in occurrence of the above between the following subpopulations: MTX-naïve patients? MTX-IR RA patients? TNF-IR patients? (IR=inadequate response). Please attach the reference list (including abstracts) for the recent 5-10 years as well as the search criteria used including databases searched. Please contact me via email with any questions you may have for this query. Slide no 2320-10-2015ICIC 2015: Biased Information Retrieval
  • 24. Methods - Field study • Interaction with the information providers • Search no. 1: Minimal interaction • Search no. 2: Attempts to increase communication • Email correspondence • Providers kept blinded • Reception of responses/results ICIC 2015: Biased Information Retrieval Slide no 2420-10-2015
  • 25. Methods - Processing of data • Re-retrieval of references (intra-provider duplicate exclusion) • Transfer to Reference Manager (citation handling system) • Duplicate determination (overlap) • Relevance review • Vendor search methodology review Slide no 2520-10-2015ICIC 2015: Biased Information Retrieval
  • 26. No or very little response/interaction Vendor behaviour 20-10-2015ICIC 2015: Biased Information Retrieval 26
  • 27. Results Responses from providers (search no. 1) Slide no 27 Provider no. No. of references PY = 2009-2013 Total no. of references 1 64 123 (no PY limitation) 2 94 94 (2009-2013) 3 37 (2012-2013) 37 (2012-2013) 4 75 77 (2008-2013) 5 67 109 (2004-2013) 6 133 252 (no PY limitation) Total 472 692 20-10-2015ICIC 2015: Biased Information Retrieval
  • 28. Results – Overlap search no. 1 Slide no 2820-10-2015ICIC 2015: Biased Information Retrieval
  • 29. Results – Overlap search no. 2 ICIC 2015: Biased Information Retrieval Slide no 2920-10-2015
  • 30. Most important findings: Overlap: Search no. 1: 35% (provider 4 and 5) 2% (provider 1 and 2) Search no. 2: 24% (provider 5 and 6) 5% (provider 2 and 6) None of the references were identified by all providers Results 20-10-2015ICIC 2015: Biased Information Retrieval 30
  • 31. Core article ICIC 2015: Biased Information Retrieval 20-10-2015 31
  • 32. • The hypothesis was rejected: Attempts to increase interaction between customer and providers did not lead to an increase of overlap between provider results • There is a risk of introducing information retrieval bias Conclusions 20-10-2015ICIC 2015: Biased Information Retrieval 32
  • 33. • Decision makers´ perception of information research • Outsourcing? 1. Lack of understanding (business understanding/query understanding) 2. Lack of communication initiative 3. No use of advanced search methodology Concerns ICIC 2015: Biased Information Retrieval 20-10-2015 33
  • 34. 1. Understand the information search request in detail 2. Establish a search strategy 3. Generate a search profile 4. Initiate the search as an iterative process 5. Combine various search methods 6. Accept large sets of search results 7. Allow for time and allocate resources to be able to filter down and analyse the search results for relevance 8. Consider if it is possible to apply an advanced analytical tool like e.g. text mining in order to analyse large sets of data Recommendations 20-10-2015ICIC 2015: Biased Information Retrieval 34
  • 35. Summary Slide no 3520-10-2015ICIC 2015: Biased Information Retrieval
  • 36. Thank you! Questions? 20-10-2015ICIC 2015: Biased Information Retrieval 36
  • 37. • Who were the vendors? • Are the results published? • Case: Ph.d. literature search course Back up slides 20-10-2015ICIC 2015: Biased Information Retrieval 37
  • 38. Provider number Number of retrieved articles n Provider contacted requester with clarifying questions Yes/No Number of relevant articles n Ratio of relevant articles % Ratio of potentia l relevant articles % Ratio of irrelevant articles % 1 123 N 69 56 24 20 2 94 N 46 48 29 23 3 37 Y 26 68 21 11 4 77 N 39 51 27 22 5 109 N 52 48 20 32 6 252 N 89 35 23 42 Relevance ranking for search 1 and 2 ICIC 2015: Biased Information Retrieval 20-10-2015 38
  • 39. ICIC 2015: Biased Information Retrieval 20-10-2015 39
  • 40. Provider no. Used database keywords (subject headings) Yes/No S1 S2 Used database major subject headings Yes/No S1 S2 Used database subject subheadings Yes/No S1 S2 Used truncation Yes/No S1 S2 Used article title searching Yes/No S1 S2 Used proximity operators Yes/No S1 S2 1 N N N N N N Y Y N N N N 2 N N N N N N Y Y Y Y Y Y 3 Y Y Y N N N Y Y Y Y Y Y 4 Y Y Y Y Y Y N N Y Y N N 5 N N N N N N Y Y N N Y Y 6 Y Y N N Y Y Y Y Y Y N N Search methodology ICIC 2015: Biased Information Retrieval 20-10-2015 40