SciMiner Result Report Page

Congratulation! Your query with SciMiner has been successfully completed. Your query and search options were

Query ID #	15
User name	Junguk Hur
Email	juhur@umich.edu
Query name	ALS ROS
Query string
PMID count #	172
Score threshold	0.1
Other	Remove_phenotype_gene, Use_symbol_length_option, Always_accept_symbol_longer_than: 6

SciMiner has analyzed (172) articles. [Documents Summary] [PMIDs]
Here is the summary of identified targets. To view the final list of merged targets, click the number in the Unique targets/Merged cell or Full result HTML in the section below. If you are interested in the raw data files, they are available at the bottom of this page.

Here are the top 10 most frequently found targets from your query. They are sorted primarily by the number of paper and then by the number of occurrence.

	Identified Targets
	Before filtering	After filtering	Unique targets
Symbol-based mining	7995	4754	265
Name-based mining	1918	1715	227
Merged	9913	6469	399 (detail)

Rank	HUGO	Symbol	Target Name	#Occur	#Paper
1	11179	SOD1	superoxide dismutase 1, soluble (amyotrophic lateral sclerosis 1 (adult))	1982	91
2	1516	CAT	catalase	82	30
3	620	APP	amyloid beta (A4) precursor protein (peptidase nexin-II, Alzheimer disease)	99	22
4	19986	CYCS	cytochrome c, somatic	131	20
5	7873	NOS2A	nitric oxide synthase 2A (inducible, hepatocytes)	68	20
6	11180	SOD2	superoxide dismutase 2, mitochondrial	100	19
7	990	BCL2	B-cell CLL/lymphoma 2	139	16
8	31395	COX8B	cytochrome c oxidase, subunit 8B pseudogene	22	13
9	7872	NOS1	nitric oxide synthase 1 (neuronal)	130	12
10	1504	CASP3	caspase 3, apoptosis-related cysteine peptidase	72	11

Full result (HTML, TXT, EXCEL)

Here are the MeSH terms that are highly enriched in your query(corpus) when compared to all other PubMed documents. The comparison was done by Fishers Exact test. The default significance level is 0.05 and any p-value smaller than 0.05 is shown in red. Use the EXCEL file below to sort by enrichment fold (t-ratio / b-ratio).

Corpus size	172	Background(MedLine)	17760657	Switch table detail

Rank	MeSH Term	t+	t-	b+	b-	p-value	t-ratio	enrichment folds
1	Reactive Oxygen Species	104	68	24199	17736458	8.93e-250	0.60	443.8
2	Amyotrophic Lateral Sclerosis	89	83	8337	17752320	2.98e-246	0.52	1102.3
3	Superoxide Dismutase	69	103	26196	17734461	5.25e-147	0.40	272.0
4	Oxidative Stress	59	113	36507	17724150	1.67e-112	0.34	166.9
5	Neurodegenerative Diseases	32	140	5168	17755489	4.47e-79	0.19	639.4
6	Motor Neurons	40	132	29190	17731467	8.32e-73	0.23	141.5
7	Mitochondria	33	139	67391	17693266	2.00e-45	0.19	50.6
8	Spinal Cord	27	145	59022	17701635	1.86e-36	0.16	47.2
9	Antioxidants	24	148	44005	17716652	2.73e-34	0.14	56.3
10	Cell Death	19	153	20335	17740322	9.78e-32	0.11	96.5

Full result (HTML, TXT, EXCEL)

Here are the raw result files of SciMiner mining. If you are interested in seeing all the individual identification results, these files are useful to you. These files can also be useful in your generating customary filters. For example, check the Filtered out results, to see any targets you are quite certain that should be included in the result. Put such targets into your INCLUDE filter list and run the same query again.

These files are usually large and we recommend you save these files and load them in a text editor or in EXCEL. Check File Format of these files.

	Before filtering	After filtering	Filtered out	Unique targets
Symbol-based mining	2MB	1MB	953KB	24KB
Name-based mining	584KB	523KB	61KB	23KB
Merged	2MB	1MB	40KB	40KB