13F-HR 1 q40813f.txt PCMQ40813F UNITED STATES SECURITIES AND EXCHANGE COMMISSION "Washington, D.C. 20549" Form 13F Form 13F COVER PAGE Report for the Calendar Year or Quarter Ended: 31-Dec-08 Check here if Amendment [ ] ; Amendment Number: ________ This Amendment (Check only one.): [ ] is a restatement. [ ] adds new holdings entries. Institutional Investment Manger Filing this Report: Name: "Perkins Capital Management, Inc." Address: "730 East Lake Street, Wayzata, Minnesota 55391" SEC File Number: 801-22888 The institutional investment manager filing this report an the person by whom it is signed hereby represent that the person signing the report is authorized to submit it, that all information contained herein is true, correct and complete, and that is understood that all required items, statements, schedules, lists and tables are considered integral parts of this form. Person signing on this Report on Behalf of Reporting Manager: Name: Richard C. Perkins Title: Executive Vice President/Portfolio Manager Phone: (952) 473-8367 Signature: Place and Date of Signing: "Wayzata, MN" 30-Jan-09 Report Type (Check only one.): [ X ] 13F HOLDINGS REPORT. Check here if all holdings of this reporting manager are reported in this report. [ ] 13F NOTICE. Check here if no holdings reported are in this report, and all holdings are reported by other reporting manager(s). [ ] 13F COMBINATION REPORT. Check here if a portion of the holdings for this reporting manager are reported in this report and a portion are reported by other reporting manager(s). VOTING AUTHORITY TITLE VALUE SHARES/ SH/ PUT/ INVT OTR NAME OF ISSUER OF CLASS CUSIP X1000 PRN AMT PRN CALL DSCRTN MGRS SOLE SHRD NONE ACCENTURE LTD BERMUDA CL A G1150G111 475 14500 SH Sole 7250 7250 ADDVANTAGE TECH NOLOGIES GP I COM NEW 006743306 89 50000 SH Sole 50000 ALLION HEALTH CARE INC COM 019615103 206 50000 SH Sole 50000 ALLSCRIPT MISYS HEALTHCAR SOL COM 01988P108 194 19550 SH Sole 13700 5850 ALNYLAM PHARMA CEUTICALS INC COM 02043Q107 768 31050 SH Sole 19250 11800 AMER BIO MEDICA CORP COM 024600108 100 416500 SH Sole 345000 71500 AMYLIN PHARMA CEUTICALS INC COM 032346108 138 12750 SH Sole 7900 4850 APPLIANCE RECY CLING CTRS AMER COM NEW 03814F205 2169 735275 SH Sole 487300 247975 ASPENBIO PHARMA INC COM 045346103 1621 262800 SH Sole 149000 113800 ATS MED INC COM 002083103 1632 587104 SH Sole 206120 380984 BIOSCRIP INC COM 09069N108 345 155500 SH Sole 97000 58500 BLUEPHOENIX SOLUTIONS LTD SHS M20157109 584 317402 SH Sole 91175 226227 BOSTON SCIENTIFIC CORP COM 101137107 351 45350 SH Sole 26100 19250 BRISTOL MYERS SQUIBB CO COM 110122108 1140 49050 SH Sole 22700 26350 BRUSH ENGINEERED MATLS INC COM 117421107 251 19750 SH Sole 14500 5250 CARDICA INC COM 14141R101 620 177116 SH Sole 55425 121691 CLARIENT INC COM 180489106 396 242800 SH Sole 30100 212700 CLICKSOFTWARE TECHNOLOGIES L ORD M25082104 35 19000 SH Sole 19000 COMPELLENT TECH NOLOGIES INC COM 20452A108 1020 106000 SH Sole 61250 44750 COMPUTER TASK GROUP INC COM 205477102 258 80000 SH Sole 80000 CONCEPTUS INC COM 206016107 1145 75250 SH Sole 39350 35900 CONOCOPHILLIPS COM 20825C104 277 5353 SH Sole 2503 2850 CONSTELLATION BRANDS INC CL A 21036P108 565 35850 SH Sole 13650 22200 CORVEL CORP COM 221006109 858 39050 SH Sole 19450 19600 CYTORI THERA PEUTICS INC COM 23283K105 2387 661225 SH Sole 353141 308084 DATALINK CORP COM 237934104 1062 331740 SH Sole 132750 198990 DELUXE CORP COM 248019101 222 14850 SH Sole 7175 7675 DEXCOM INC COM 252131107 1182 428400 SH Sole 245700 182700 DIAMOND FOODS INC COM 252603105 1005 49900 SH Sole 30650 19250 DIGIRAD CORP COM 253827109 29 50000 SH Sole 50000 DONALDSON INC COM 257651109 1159 34430 SH Sole 14850 19580 DOT HILL SYS CORP COM 25848T109 311 388589 SH Sole 137070 251519 EASYLINK SER VICES INTL CORP CL A 277858106 94 70000 SH Sole 70000 EBIX INC COM NEW 278715206 717 30000 SH Sole 30000 EDAP TMS S A SPN ADR 268311107 86 60000 SH Sole 60000 ENDOLOGIX INC COM 29266S106 682 568457 SH Sole 248700 319757 ENTRUST INC COM 293848107 817 517400 SH Sole 301900 215500 FULLER H B CO COM 359694106 629 39054 SH Sole 17504 21550 GLOBAL TRAFFIC NETWORK INC COM 37947B103 1187 203209 SH Sole 63725 139484 GLOBECOMM SYSTEMS INC COM 37956X103 1790 325960 SH Sole 123425 202535 GRAINGER W W INC COM 384802104 536 6802 SH Sole 3402 3400 GRANITE CITY FOOD & BREWERY COM 38724Q107 210 640694 SH Sole 145767 494927 HEALTH CARE REIT INC COM 42217K106 682 16150 SH Sole 7900 8250 HEALTH FITNESS CORP COM NEW 42217V201 2719 1247111 SH Sole 564650 682461 HESKA CORP COM 42805E108 50 200000 SH Sole 200000 ILLUMINA INC COM 452327109 2531 97150 SH Sole 59850 37300 IMAGE SENSING SYS INC COM 45244C104 335 52600 SH Sole 25900 26700 I-MANY INC COM 44973Q103 54 243583 SH Sole 243583 INSIGNIA SYS INC COM 45765Y105 1275 1301767 SH Sole 942500 359267 INTEGRAMED AMER INC COM NEW 45810N302 439 65000 SH Sole 65000 INTEGRATED SILICON SOLUTION COM 45812P107 24 15000 SH Sole 15000 INTERNATIONAL BUSINESS MACHS COM 459200101 272 3226 SH Sole 1801 1425 ISIS PHARMA CEUTICALS INC COM 464330109 3913 275950 SH Sole 160950 115000 ITERIS INC COM 46564T107 194 125000 SH Sole 125000 JOHNSON & JOHNSON COM 478160104 845 14120 SH Sole 8120 6000 LAKES ENTMNT INC COM 51206P109 355 88419 SH Sole 64000 24419 LANDEC CORP COM 514766104 197 30000 SH Sole 30000 LILLY ELI & CO COM 532457108 1152 28600 SH Sole 13100 15500 LUMINEX CORP DEL COM 55027E102 441 20650 SH Sole 13050 7600 MANPOWER INC COM 56418H100 476 14000 SH Sole 6150 7850 MATRIXX INITIA TIVES INC COM 57685L105 330 20000 SH Sole 20000 MEDTOX SCIEN TIFIC INC COM NEW 584977201 477 58082 SH Sole 58082 MEDTRONIC INC COM 585055106 478 15224 SH Sole 2950 12274 MIDWAY GOLD CORP COM 598153104 35 75000 SH Sole 75000 MOLSON COORS BREWING CO CL B 60871R209 1157 23650 SH Sole 9350 14300 MONOGRAM BIO SCIENCES INC COM NEW 60975U207 378 145438 SH Sole 39129 106309 MULTIBAND CORP COM NEW 62544X209 52 44000 SH Sole 4000 40000 NATURAL HEALTH TRENDS CORP CM PR .01 63888P406 30 100000 SH Sole 100000 NATURE VISION INC COM 63902E106 36 106495 SH Sole 43605 62890 NAVARRE CORP COM 639208107 14 35716 SH Sole 15716 20000 NETSCOUT SYS INC COM 64115T104 194 22500 SH Sole 22500 NORTECH SYS INC COM 656553104 170 42500 SH Sole 29500 13000 NUMEREX CORP PA CL A 67053A102 36 10000 SH Sole 10000 OCULUS INNOVATIVE SCIENCES I COM 67575P108 568 397197 SH Sole 164242 232955 ON2 TECH NOLOGIES INC COM 68338A107 274 1367912 SH Sole 358625 1009287 ONCOTHYREON INC COM 682324108 504 633683 SH Sole 398030 235653 OPENTV CORP CL A G67543101 216 175250 SH Sole 130000 45250 ORTHOVITA INC COM 68750U102 3880 1144662 SH Sole 553650 591012 OSHKOSH CORP COM 688239201 224 25156 SH Sole 9656 15500 PATTERSON COMPANIES INC COM 703395103 788 42050 SH Sole 15000 27050 PENTAIR INC COM 709631105 378 15957 SH Sole 10207 5750 PFIZER INC COM 717081103 1508 85122 SH Sole 27032 58090 POKERTEK INC COM 730864105 22 16750 SH Sole 16750 POLYMET MINING CORP COM 731916102 110 163500 SH Sole 100000 63500 PRICELINE COM INC COM NEW 741503403 203 2750 SH Sole 1750 1000 PRIDE INTL INC DEL COM 74153Q102 421 26350 SH Sole 11300 15050 RAINMAKER SYSTEMS COM NEW 750875304 434 510700 SH Sole 199500 311200 RAMTRON INTL CORP COM NEW 751907304 492 267559 SH Sole 107697 159862 RCM TECH NOLOGIES INC COM NEW 749360400 190 170837 SH Sole 120500 50337 REAL GOODS SOLAR INC CL A 75601N104 240 65678 SH Sole 16500 49178 RIMAGE CORP COM 766721104 827 61644 SH Sole 15250 46394 ROCKWELL MEDICAL TECH COM 774374102 1853 442200 SH Sole 50000 392200 ROSETTA GENOMICS LTD SHS M82183100 155 131357 SH Sole 34500 96857 RTI BIOLOGICS INC COM 74975N105 28 10000 SH Sole 10000 SEATTLE GENETICS INC COM 812578102 1573 175900 SH Sole 100200 75700 SOFTBRANDS INC COM 83402A107 605 1591991 SH Sole 762507 829484 SPAN AMER MED SYS INC COM 846396109 264 27750 SH Sole 21000 6750 SPECTRUM BRANDS INC COM 84762L105 5 55000 SH Sole 53000 2000 ST JUDE MED INC COM 790849103 2711 82248 SH Sole 15500 66748 STAAR SURGICAL CO CM PR .01 852312305 1254 527000 SH Sole 296200 230800 STEN CORP COM 85857T101 13 100000 SH Sole 100000 SUMTOTAL SYS INC COM 866615107 712 250739 SH Sole 84180 166559 SUPERCONDUCTOR TECHNOLOGIES COM NEW 867931305 10 10000 SH Sole 10000 SUPERVALU INC COM 868536103 1409 96500 SH Sole 49400 47100 SYNOVIS LIFE TECHNOLOGIES IN COM 87162G105 6225 332200 SH Sole 194350 137850 SYNTA PHARMA CEUTICALS CORP COM 87162T206 150 24500 SH Sole 19500 5000 TCF FINL CORP COM 872275102 1037 75940 SH Sole 36840 39100 TENNANT CO COM 880345103 716 46520 SH Sole 26500 20020 TITAN MACHY INC COM 88830R101 155 11000 SH Sole 10000 1000 TRINITY BIOTECH PLC SP ADR NEW 896438306 16 10000 SH Sole 10000 UNION DRILLING INC COM 90653P105 104 20000 SH Sole 20000 UNITEDHEALTH GROUP INC COM 91324P102 666 25050 SH Sole 9300 15750 UROLOGIX INC COM 917273104 1201 2184525 SH Sole 1262375 922150 UROPLASTY INC COM NEW 917277204 824 867102 SH Sole 459500 407602 US BANCORP DEL COM NEW 902973304 741 29634 SH Sole 14684 14950 U S PHYSICAL THERAPY INC COM 90337L108 1078 80850 SH Sole 48500 32350 VITAL IMAGES INC COM 92846N104 7346 528090 SH Sole 175870 352220 VOLCANO CORPORATION COM 928645100 207 13808 SH Sole 5250 8558 WAL MART STORES INC COM 931142103 510 9103 SH Sole 4503 4600 WIRELESS RONIN TECHNOLOGIES COM 97652A203 1516 1849134 SH Sole 716359 1132775 WPT ENTER PRISES INC COM 98211W108 40 93837 SH Sole 80649 13188 WYETH COM 983024100 556 14832 SH Sole 6938 7894 XOMA LTD ORD G9825R107 177 285900 SH Sole 218900 67000 ZIX CORP COM 98974P100 3210 2697499 SH Sole 1058050 1639449 ZOLTEK COS INC COM 98975W104 96 10650 SH Sole 9150 1500 TOTAL VALUE 97125 DATA RECORDS 125 OTHER MANAGERS ON WHOSE BEHALF REPORT IS FILED 0