信息检索、数据分析、知识发现都是科研人员的必备技能，一旦掌握，事半功倍。

许培扬 知识发现系列博文  http://blog.sciencenet.cn/home.php?mod=space&uid=280034&do=blog&classid=115378&view=me&from=space

科学研究与知识发现  http://blog.sciencenet.cn/home.php?mod=space&uid=280034&do=blog&id=327994

美国丹娜法伯癌症中心研究人员发现，日常饮用含咖啡因的咖啡能够帮助预防结肠癌复发，并能够提高结肠癌治愈率。论文2015年8月17日在线发表于《临床肿瘤学杂志》（Journal of Clinical Oncology）。

该研究包含了近1000名结肠癌病人，对其进行问卷调查，统计他们的咖啡饮用习惯。结果表明这些结肠癌III期并接受了手术和化疗治疗的病人中，每天饮用超过4杯咖啡（约含有460毫克咖啡因）的病人获益最大，这些病人相比于不饮用咖啡的病人癌症复发风险降低了42%，因癌症或因他因素死亡的风险也降低了33%。每天饮用2到3杯咖啡获益比较适中，而每天只饮用1杯或不饮用咖啡的人基本不会获益。研究人员指出仍需对这一结果进行验证。

（来源：Journal of Clinical Oncology，http://www.ncbi.nlm.nih.gov/pubmed/?term=Coffee+Intake%2C+Recurrence%2C+and+Mortality+in+Stage+III+Colon+Cancer%3A）

发现280个相关基因如下

A-query: Coffee
C-query: Colon Cancer

The B-list contains title words and phrases (terms) that appeared in both the A and the C literature. 144 articles appeared in both literatures and were not included in the process of computing the B-list but can be viewed here. The results of this search are saved under id # 23603 and can be accessed from the start page after you leave this session. There are 1030 terms on the current B-list (280 are predicted to be relevant), which is shown ranked according to predicted relevance. The list can be further trimmed down using the filters listed in the left margin.

To assess whether there appears to be a biologically significant relationship between the AB and BC literatures for specific B-terms, please select one or more B-terms and then click the button to view the corresponding AB and BC literatures. Use Ctrl to select multiple B-terms.

http://arrowsmith.psych.uic.edu/cgi-bin/arrowsmith_uic/edit_b.cgi

job id # 23603 started Sun Sep 13 01:17:57 2015
Max_citations: 50000
Stoplist: /var/www/arrowsmith_uic/data/stopwords_pubmed
Ngram_max: 3
A_query_raw: CoffeeSun Sep 13 01:18:30 2015

A query = Coffee started Sun Sep 13 01:18:31 2015
A query resulted in 11197 titles
C_query_raw: Colon Cancer Sun Sep 13 01:18:50 2015

C: Colon Cancer 114726

A: Coffee 11197

AC: ( Coffee ) AND ( Colon Cancer ) 144

C_query_raw: Colon Cancer Sun Sep 13 01:18:55 2015

C: Colon Cancer 114726

A: Coffee 11197

AC: ( Coffee ) AND ( Colon Cancer ) 144

C query = Colon Cancer started Sun Sep 13 01:18:55 2015
C query resulted in 50000 titles
A AND C query resulted in 144 titles
16255 B-terms ready on Sun Sep 13 01:19:53 2015

Sem_filter:
Genes & Molecular Sequences, and Gene & Protein Names
1030 B-terms left after filter executed Sun Sep 13 02:11:54 2015

B-list on Sun Sep 13 02:12:36 2015
1 adiponectin
2 brca1
3 brca2
4 akt
5 mthfr
6 k ras
7 microsatellite
8 ppargamma
9 caspase
10 cox-2
11 nat2
12 smad2
13 methylenetetrahydrofolate reductase
14 pi3k
15 jnk
16 single nucleotide polymorphism
17 mtor
18 leptin
19 stat3
20 differentially expressed gene
21 braf
22 microsatellite marker
23 statin
24 beta catenin
25 ampk
26 signal regulated kinase
27 cyp1a2
28 phip
29 park2
30 cyp3a4
31 bcl xl
32 mcl-1
33 metabolic syndrome
34 xrcc3
35 nrf2
36 sp1
37 body mass index
38 bcl-2
39 erk1
40 p38
41 nf kappab
42 ts-1
43 mek
44 topoisomerase
45 igfbp-3
46 c flip
47 gene symbol
48 ppar gamma
49 xrcc1
50 cyp1a1
51 gstt1
52 methylenetetrahydrofolate reductase gene
53 keap1
54 mda-7
55 pxr
56 tcf4
57 transcription factor
58 bax
59 genome wide
60 gene environment
61 inflammatory bowel disease
62 gstm1
63 tgf beta
64 p glycoprotein
65 cftr
66 esi
67 lc
68 xpd
69 vitamin d receptor
70 chk1
71 n acetyltransferase
72 microsatellite loci
73 c src
74 histone deacetylase
75 microrna
76 cdk4
77 creb
78 16s
79 igf
80 glp-1
81 udp glucuronosyltransferase
82 estrogen receptor
83 sulfotransferase
84 tumor suppressor gene
85 rac1
86 snp
87 dnmt3a
88 brca2 gene
89 body mass
90 il-1beta
91 est database
92 src
93 ku
94 p53
95 il-18
96 rnai
97 autophagy
98 grape
99 erk
100 hdac
101 ppar
102 cyp2c9
103 promoter analysis
104 bcl
105 adiponectin receptor
106 exon
107 cdna
108 pseudogene
109 topoisomerase i
110 16s rrna
111 pik3ca
112 rt
113 cyclin b1
114 kras
115 dnmt1
116 pp2a
117 bran
118 gamma glutamyltransferase
119 dna methyltransferase
120 tnf
121 g1
122 gene involved
123 pcr
124 related gene
125 smc3
126 aquaporin
127 trkb
128 srebp-1c
129 grb2
130 cup
131 adiposity
132 epic
133 mrsa
134 cytokine gene
135 p16
136 sult1a1
137 aryl hydrocarbon receptor
138 cancer united
139 inflammatory cytokine gene
140 insulin growth factor
141 estrogen receptor alpha
142 protein tyrosine phosphatase
143 nf
144 eralpha
145 il-8
146 th1
147 rrna
148 chaperone
149 methyltransferase
150 bdnf
151 ubiquitin
152 aldehyde dehydrogenase
153 tyrosine phosphatase
154 ms
155 glutathione s transferase
156 tumor suppressor
157 16s rrna gene
158 promoter
159 gastrin
160 sun
161 nov
162 cytochrome p450
163 tnf alpha
164 candidate gene
165 p300
166 shc
167 cytokine
168 retrotransposon
169 igf ir
170 hdl
171 ctgf
172 nqo1
173 peroxisome
174 nir
175 ugt1a
176 hsp27
177 bim
178 transporter
179 erk2
180 egfr
181 iga nephropathy
182 ano
183 gene encoding
184 ep2
185 monooxygenase
186 cyclin
187 trail
188 genomic
189 cell adhesion molecule
190 p450
191 copy
192 g2
193 signaling gene
194 orofacial cleft
195 prostate cancer
196 peptide yy
197 dna methyltransferase 3a
198 suppressor gene
199 ahr
200 perk
201 tea
202 calmodulin
203 bean
204 box gene
205 isoform
206 seq
207 bcl2
208 response element
209 histone
210 wilm tumor
211 protein kinase
212 metallothionein
213 tof
214 promoter a
215 gps
216 microsatellite analysis
217 abeta
218 3d
219 calcium binding protein
220 protein phosphatase 2a
221 cdx2
222 3a4
223 myc
224 malt
225 gene variant
226 ct
227 essential tremor
228 contrast enhancement
229 genome
230 aldh1a1
231 gene family
232 obesity
233 nut
234 percent body fat
235 promoter region
236 ikk
237 ilex
238 gi
239 resistance gene
240 receptor gene
241 c kit
242 gc
243 rna sequence
244 apple
245 organic anion transporter
246 n methyltransferase
247 juice
248 inducible
249 genomic sequencing
250 gene homologue
251 gd
252 lipoxygenase
253 tcr
254 hypercholesterolemia
255 multigene
256 nail
257 beta glucosidase
258 parkinson disease
259 igf i
260 clock
261 transgene
262 ldl
263 gt
264 h atpase
265 raf
266 prion protein
267 transferrin receptor
268 icp
269 ga
270 fried
271 dna sequence
272 apolipoprotein m
273 cox
274 satellite dna
275 cad
276 b16
277 t4
278 gene a
279 meta
280 nano

http://arrowsmith.psych.uic.edu/cgi-bin/arrowsmith_uic/view_b_txt.cgi?ID=23603