updated hands-on materials

intro-pathway-analysis-visualization/lung.expr.dn.txt

@@ -1,25 +1,18 @@
 FGR
 PDK4
-ST7
 SLC4A1
-ITGAL
 CX3CL1
 CEACAM21
 SEMA3G
 SLC6A13
-BTK
-ABHD5
 ANOS1
 ALOX5
-CALCOCO1
-MAN2B2
 IL20RA
 SLC11A1
 MARCO
 FHL1
 EHD2
 HSD17B6
-PRKCH
 ARHGAP31
 DAPK2
 MSR1
@@ -27,15 +20,11 @@ ADRB1
 ARHGAP6
 CCDC85A
 RASGRF1
-TBXAS1
 LIMCH1
 CHI3L2
 CALCRL
 SPI1
 CLDN18
-KLF6
-PLPP1
-RASGRP2
 MAOB
 TGFBR3
 PTPN21
@@ -43,12 +32,8 @@ RPS6KA2
 LMCD1
 CYBRD1
 LIMS2
-FERMT2
 CD5L
 FRY
-MGLL
-RBMS2
-APBB1IP
 ITGA8
 EDN1
 ITM2A
@@ -66,46 +51,32 @@ NOS1
 NLRC4
 JPH4
 DPYSL2
-ADA2
 FMO2
 SH2D3C
-SORBS1
 GADD45B
 MFNG
 PIK3IP1
-TTC28
-CBX7
 PDGFB
-RIN3
-RASSF2
 ANGPT4
-CDS2
 SIRPB1
 CCM2L
-SAMHD1
-RENBP
 RS1
 VGLL1
-CAB39L
 ACP5
 SGCG
 RGCC
 WFDC1
 FOXF1
-GGA2
-RASL12
 CA2
 CD37
 CLEC4M
 PRX
-DENND3
 SIGLEC5
 RASIP1
 CAV2
 CAV1
 HOXA5
 CPED1
-TSPAN13
 SLC1A1
 ENG
 TYRP1
@@ -125,63 +96,42 @@ ODAM
 WFS1
 SOD3
 CRYAB
-GALNT18
 SLC15A3
-HPS5
 VWF
 SELPLG
-BIN2
 LIN7A
 ACSS3
 TNS2
-CREBL2
-OAS2
 ART4
 C12orf49
-CHPT1
-LPCAT3
-SERINC1
-SASH1
 MDGA1
 BMP5
 FHL5
 KHDRBS2
-EPM2A
-CCND3
 CLIC5
 NPR3
 HYAL1
 EFCC1
-PLSCR4
 ARHGEF26
 VIPR1
 TNNC1
 ACADL
 EFEMP1
 HPCAL1
-PLCL1
-PCYOX1
 EPAS1
-C1orf21
 LEPR
 PRG4
 NCF2
 ADGRL2
-STX12
 FILIP1
 CNR1
-PLAGL1
 TCF21
 KLF9
 C1orf198
-LTBP2
 FLVCR2
 LGALSL
-IFIT3
-IFIT2
 DUSP1
 TEK
-MOB3B
 KCNJ5
 CHRNA2
 PDLIM2
@@ -191,46 +141,33 @@ PLBD1
 CAT
 FABP3
 CCRL2
-SASH3
 RAMP3
 GLIPR2
-RECK
 HVCN1
-BHLHE41
 NECAB1
-NCKAP1L
 C4BPA
 FAM124B
-PREX1
 MOCS1
 AHNAK
 EFNB2
 TMEM255A
 S1PR4
 RHOJ
-ARMCX1
-FGD3
 MASP1
 F2RL3
-HIP1
 MGAT3
 CGNL1
-SLC44A2
 CDO1
-ARHGEF6
 STARD8
 USHBP1
 RGN
 COX4I2
 HIGD1B
 ADGRE3
-SH3BP5
 AOC3
 RAMP2
 TMEM204
 RAI2
-PPARG
-CARD6
 HSPA12B
 SSTR4
 MYH10
@@ -238,9 +175,7 @@ KL
 PRAM1
 PDZD2
 GIMAP6
-GIMAP4
 LYVE1
-HSD17B4
 CNTN6
 GSTM5
 SORT1
@@ -250,7 +185,6 @@ FAM189A2
 TBX3
 OASL
 CD36
-LMO2
 STX11
 CPM
 SLC19A3
@@ -258,39 +192,26 @@ CYP27A1
 THSD1
 LMO7
 EDNRB
-TM6SF1
-TEX2
 SCN7A
 GYPC
 TMOD1
-TLR4
 RNF144B
-ARRB1
-SLCO2B1
 LRRC32
-SDCBP
-TRPC6
 FXYD6
 PAQR5
 SMAD6
-PLCB2
 SEMA6D
 GCOM1
 DNASE2B
 RBP4
 PLA2G12B
 AOX1
-ARHGAP24
 PRKG2
 FGF2
 ANXA3
 SLC39A8
-PARVG
 ERP27
-GABARAPL1
-FGD4
 ACVRL1
-JDP2
 FBLN5
 CYP1A2
 ITGAX
@@ -299,17 +220,14 @@ ABCA8
 GATA6
 SLC14A1
 PNMT
-MYO1F
 SLC47A1
 FCN3
 C1orf162
 RXRG
-RGS5
 ADAMTSL4
 ZNF385B
 CNTN4
 CSRNP1
-CTDSPL
 STAC
 ADPRH
 AGTR1
@@ -317,8 +235,6 @@ SLIT2
 NKD2
 HMGCLL1
 PRSS35
-TMEM140
-TMEM47
 AWAT2
 GPC3
 DOK2
@@ -330,34 +246,26 @@ STOM
 ST8SIA6
 ANKRD1
 ESAM
-SIDT2
 CLEC1A
 GPM6A
 HSPB8
 IGSF10
 SPARCL1
-BANK1
 UBASH3B
 ROBO4
 ABI3BP
 ANGPT1
-DISP1
 WNT3A
 FGD5
 GRIA1
 VSIG4
-ELMO1
 AFF2
-GNAQ
 ADAMTSL3
 TSPAN7
 TDRD9
 RAB11FIP1
 TSC22D3
 KCNJ15
-TMEM164
-SNX22
-MRAS
 FAM46B
 SHROOM4
 ITLN2
@@ -367,21 +275,16 @@ LRRC36
 PTGIR
 ABCG1
 JAML
-IL6R
 PTH1R
 FGFR4
 SIGLEC16
 CD300LG
-PLPP3
 NTNG1
 KCNT2
 C1orf115
 PKDCC
 NOSTRIN
-ARHGAP25
-EIF4E3
 TGFBR2
-PRICKLE2
 DNASE1L3
 CPA3
 CLEC3B
@@ -439,11 +342,8 @@ HSPB3
 NPR1
 LDB2
 TACR3
-P2RY1
 CTNND2
-REPS2
 ITGAM
-SIK2
 ADRA1B
 FABP4
 PLA2G1B
@@ -457,7 +357,6 @@ GIMAP8
 PRKCE
 SOSTDC1
 RXFP1
-PTGER4
 NMUR1
 PTCRA
 RASGRP4
@@ -470,10 +369,8 @@ ID4
 TPSAB1
 MACROD2
 RCAN2
-IL16
 IL17D
 COL6A5
-ABLIM3
 MMRN2
 NDNF
 OLR1
@@ -492,19 +389,16 @@ CASKIN2
 NIM1K
 CAVIN1
 ZBED2
-IL17RA
 MYOZ1
 HTR3C
 ZNF366
 SH2D4B
 TMEM139
-GIMAP7
 C2orf71
 GATA2
 GPC5
 CDH5
 SERTM1
-PRF1
 TMEM64
 CHRM2
 AMIGO1
@@ -512,17 +406,14 @@ RTKN2
 KCNA4
 NXPH3
 GRID1
-CADM1
 SPNS2
 MCEMP1
 FREM3
 GKN2
 LHFPL6
-OLFML1
 FAM162B
 ST6GALNAC3
 CLDN5
-PRKD1
 SLIT3
 PROS1
 APOBR
@@ -532,13 +423,9 @@ IL3RA
 SFTPA2
 METTL7A
 NRG3
-EVI2B
-CD300LF
 GLDN
-ARHGAP30
 KANK3
 DCC
-SPRY4
 TRPV2
 OVCH1
 PEAK3
@@ -546,11 +433,9 @@ VWC2
 PRELP
 PLAC9
 MAOA
-SIRPB2
 MVB12B
 KANK2
 GUCA2A
-ADARB1
 C5AR1
 VEPH1
 GYPE
@@ -567,15 +452,12 @@ GRK5
 TGM2
 SAMD5
 CHIAP2
-C10orf128
 GPRIN2
-BMPR2
 HLA-DOA
 NOTCH4
 AGER
 CASP12
 MPIG6B
-LILRB3
 AARD
 MT1M
 HBA1
@@ -598,22 +480,16 @@ HLA-DRB6
 HLA-DPA1
 LINC00702
 LANCL1-AS1
-MAGI2-AS3
 LINC00163
 SPAAR
-NFAM1
-KIAA0040
 LINC00607
 LINC01936
 LILRA2
-CD302
 INMT
 UPK3B
 LINC02016
 ECEL1P2
-ETV5
 HBB
-CEBPA
 LINC00968
 SELENOP
 MIR3945HG
@@ -626,7 +502,6 @@ LINC02555
 PECAM1
 MYZAP
 TXNIP
-RASSF5
 GDF10
 PCAT19
 TBX2-AS1

intro-pathway-analysis-visualization/lung.expr.up.txt

@@ -17,10 +17,8 @@ POLQ
 STYK1
 COL11A1
 SPAG4
-VMP1
 MCM10
 ASPM
-PHKA1
 TRIP13
 HMMR
 PPP2R2C
@@ -60,7 +58,6 @@ CENPI
 RHBDL1
 SALL1
 OIP5
-MCM4
 FSD1
 MAST1
 STX1A
@@ -69,7 +66,6 @@ LHX2
 CA9
 EBF3
 DNAJC12
-GALNT7
 NEIL3
 NCAPG
 KIAA1549L
@@ -106,7 +102,6 @@ DLGAP5
 SYNGR3
 VIL1
 GNGT1
-PAICS
 PPAT
 ADM2
 BAIAP2L2
@@ -120,7 +115,6 @@ BARX1
 CA6
 TOP2A
 RHBG
-KHDC4
 FCRL2
 C1QTNF6
 CCNB1
@@ -170,7 +164,6 @@ TRPM8
 OCIAD2
 CCNA2
 LGSN
-TPBG
 ZC3HAV1L
 FAM83A
 CDKN2A
@@ -192,14 +185,12 @@ GLYATL2
 FBXO32
 BUB1B
 TMEM171
-LRP8
 CCNB2
 DPYSL5
 XDH
 HIST1H2BD
 CDC25C
 HIST1H4H
-DONSON
 CILP2
 TFF1
 RECQL4
@@ -207,7 +198,6 @@ SPC24
 TEDC2
 AK4
 AKR7A3
-FLVCR1
 KIF26B
 LINC01116
 TRIM46
@@ -216,7 +206,6 @@ CRYBA2
 AIM2
 KIF15
 MAD2L1
-SFXN1
 IL31RA
 STEAP1
 SP8
@@ -228,7 +217,6 @@ SLC16A9
 GJB2
 SKA3
 E2F7
-TAF1D
 GLB1L3
 GPT2
 PPP1R14D
@@ -255,7 +243,6 @@ HS6ST2
 P2RY6
 RRM2
 FRMD5
-MTBP
 C5orf34
 FUT9
 MYEOV
@@ -348,7 +335,6 @@ LINC01271
 LINC02535
 DSCAM-AS1
 RPSAP52
-SNHG3
 CCDC169
 MNX1-AS1
 RPL18P13
@@ -362,10 +348,8 @@ PVT1
 SCARNA13
 BBOX1-AS1
 MEX3A
-SNHG1
 LINC00346
 SALL3
-POLG2
 TUBB3
 LINC02544
 VPS9D1-AS1