{"text_format":"3","workbook":"xls","n_sheets":1,"sheets":["ncRNA"],"read":"whole","date_system":"1900","formulas":"cached_only"}

{"sheet":"ncRNA","index":0,"n_rows":29,"n_cols":14,"rows_kept":29,"merged":[[2,0,3,0],[2,1,3,1],[2,2,3,2],[2,3,3,3],[2,4,3,4],[2,5,2,7],[2,8,2,13]],"flags":["formulas_cached_only"]}
["Additional file 6 - Differentially expressed non-coding RNAs"]
[]
["Tag","Accession","Description","In gene desert?","PubMed ID(s)","Differential expression results",null,null,"Normalized tag counts"]
[{"$nulls":5},"Log2 fold-change","P","FDR-adjusted P","G144ED","G144","G166","G179","CB541","CB660"]
["CCGCCTTAATAAATGTA","BC031342","HOTAIRM1, a ncRNA from the HOXA locus. There is evidence that it might regulate HOXA gene expression.","No",19144990,"Inf",{"v":7.86945030054858e-10,"d":"7.9E-10"},{"v":4.31439698116353e-06,"d":"4.3E-06"},{"v":174.656466518051,"d":"174.7"},{"v":158.716549491805,"d":"158.7"},{"v":129.809559222457,"d":"129.8"},{"v":206.251673400158,"d":"206.3"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"}]
["TACATAATTACTAATCA","NR_028272","NEAT1, a ncRNA involved in paraspeckle formation and regulated during NS cell differentiation.","Yes","20137068; 21170033",{"v":4.31941721964274,"d":"4.32"},{"v":1.60674650234928e-06,"d":"1.6E-06"},{"v":0.00218202808376152,"d":"2.2E-03"},{"v":123.381771450224,"d":"123.4"},{"v":627.38475371882,"d":"627.4"},{"v":775.446316932362,"d":"775.4"},{"v":1927.08977632809,"d":"1927.1"},{"v":18.5129026743677,"d":"18.5"},{"v":91.815939798113,"d":"91.8"}]
["TGGATAAACAAAATGAA","NR_003529","CDKN2BAS, an antisense transcript to CDKN2B that appears to function in Polycomb-mediated repression of tumor suppressors CDKN2A and CDKN2B.","No","18185590; 20541999","Inf",{"v":1.40596330621593e-05,"d":"1.4E-05"},{"v":0.0127680875673357,"d":"1.3E-02"},{"v":18.0149837218106,"d":"18.0"},{"v":33.5916846753233,"d":"33.6"},{"v":125.837546681136,"d":"125.8"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"}]
["TATCCCCAAATAAACAA","NR_015382","Transcript from the opposite strand of CD27.","No","None",{"v":4.415177034046,"d":"4.42"},{"v":3.21165440421055e-05,"d":"3.2E-05"},{"v":0.0241324853129377,"d":"2.4E-02"},{"v":151.399071232154,"d":"151.4"},{"v":123.181216137254,"d":"123.2"},{"v":332.410893159187,"d":"332.4"},{"v":135.270908174316,"d":"135.3"},{"v":9.30597240462276,"d":"9.3"},{"v":9.41092641609378,"d":"9.4"}]
["ATGGCACCATATTGTGT","NR_015377","Transcript from the opposite strand of PAX8.","No","None",{"v":-7.08217872006292,"d":"-7.08"},{"v":2.5368732030821e-05,"d":"2.5E-05"},{"v":0.0200279712637884,"d":"2.0E-02"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"},{"v":2.19655091232165,"d":"2.2"},{"v":0,"d":"0.0"},{"v":136.913454290698,"d":"136.9"},{"v":58.3430321709967,"d":"58.3"}]
["CCTGACCCTGCATCCCT","BC013229","Transcript from the opposite strand of MCF2L2.","No","None","Inf",{"v":0.000138233098054471,"d":"1.4E-04"},{"v":0.0752246929654934,"d":"7.5E-02"},{"v":1.72343760226357,"d":"1.7"},{"v":0,"d":"0.0"},{"v":36.9274498084851,"d":"36.9"},{"v":68.2521497041122,"d":"68.3"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"}]
["TAGAACGGTGTTCCTCC","BM977209","Transcript from the opposite strand of TXNRD1.","No","None","Inf",{"v":1.70362197630233e-05,"d":"1.7E-05"},{"v":0.0147474385073168,"d":"1.5E-02"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"},{"v":121.624501773212,"d":"121.6"},{"v":24.7383470479851,"d":"24.7"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"}]
["ACAAACAAAAGCCTTCC","DB099927","Transcript from CDKN2B intron (sense strand).","No","None","Inf",{"v":1.42950452268146e-05,"d":"1.4E-05"},{"v":0.0129027165382138,"d":"1.3E-02"},{"v":41.8893779884046,"d":"41.9"},{"v":105.512793108172,"d":"105.5"},{"v":51.7731784598556,"d":"51.8"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"}]
["ATTACATTTATGTCCTT","BC015429","Transcript from gene desert near DKK1. Correlated with DKK1 expression.","Yes","None","Inf",{"v":2.78698594190366e-09,"d":"2.8E-09"},{"v":1.14720658521085e-05,"d":"1.1E-05"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"},{"v":389.508304431339,"d":"389.5"},{"v":17.9959583502159,"d":"18.0"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"}]
["TAACTGATCCTTAGATA","BQ957425","Transcript from gene desert.","Yes","None","Inf",{"v":0.000197042347316861,"d":"2.0E-04"},{"v":0.0988728441528791,"d":"9.9E-02"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"},{"v":66.7516183845049,"d":"66.8"},{"v":30.7515044322757,"d":"30.8"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"}]
["GAAACATTCCAAACCTA","AK094154","Transcript from gene desert.","Yes","None","Inf",{"v":1.30885907972959e-10,"d":"1.3E-10"},{"v":9.92765743798088e-07,"d":"9.9E-07"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"},{"v":328.492682485411,"d":"328.5"},{"v":243.918871502851,"d":"243.9"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"}]
["CAAATAAACTTTATACC","BC063641","Transcript downstream of PRRG4.","No","None",{"v":7.52821231947953,"d":"7.53"},{"v":2.43382094131423e-11,"d":"2.4E-11"},{"v":2.32432255206098e-07,"d":"2.3E-07"},{"v":4.1595436900971,"d":"4.2"},{"v":68.0444988518913,"d":"68.0"},{"v":267.341479833269,"d":"267.3"},{"v":1381.76579858578,"d":"1381.8"},{"v":0,"d":"0.0"},{"v":5.85263752084892,"d":"5.9"}]
["GCTTTATTTTTTCTGCT","BC038205","Transcript between CTSC and GRM5. Correlated with CTSC expression.","Yes","None",{"v":7.4639570635361,"d":"7.46"},{"v":5.40720310028485e-07,"d":"5.4E-07"},{"v":0.000865307405107368,"d":"8.7E-04"},{"v":53.9853310392069,"d":"54.0"},{"v":96.1548804962428,"d":"96.2"},{"v":49.5737581145982,"d":"49.6"},{"v":126.268052452359,"d":"126.3"},{"v":0,"d":"0.0"},{"v":1.02426277928752,"d":"1.0"}]
["GAGCCCAGACTAGATGG","BF031226","Transcript from gene desert.","Yes","None","Inf",{"v":3.87572233371388e-05,"d":"3.9E-05"},{"v":0.0281921185273463,"d":"2.8E-02"},{"v":1.3865145633657,"d":"1.4"},{"v":0,"d":"0.0"},{"v":30.6591735603249,"d":"30.7"},{"v":99.7463897334494,"d":"99.7"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"}]
["AAATATTAGTTTTTCTT","CX868766","The tag is in last intron of ncRNA NCRMS, perhaps detecting an NCRMS isoform. NCRMS might be a host transcript for mir-1251 and mir-135a-2. The tag also coincides with a SINE repeat.","Yes","12082533; 15872005","-Inf",{"v":3.50539402699538e-07,"d":"3.5E-07"},{"v":0.000628454540946733,"d":"6.3E-04"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"},{"v":21.8205111518965,"d":"21.8"},{"v":283.920521104605,"d":"283.9"}]
["AAATATGGATAAATGTA","CA425887","Transcript from gene desert around FOXG1. Overlaps an EST similar to a region of downstream of the pseudoautosomal gene SPRY3.","Yes","None",{"v":5.95076404802027,"d":"5.95"},{"v":5.38873664623209e-05,"d":"5.4E-05"},{"v":0.0365906341818108,"d":"3.7E-02"},{"v":4.1678627774773,"d":"4.2"},{"v":0,"d":"0.0"},{"v":96.2988866822241,"d":"96.3"},{"v":95.6073268152795,"d":"95.6"},{"v":0,"d":"0.0"},{"v":2.06184097470579,"d":"2.1"}]
["AAATTGGTGCTGTTGCT","BM679519","Transcript from gene desert harboring ZNF536 and TSHZ3. Correlated with ZNF536 expression.","Yes","None","Inf",{"v":9.31325243538147e-10,"d":"9.3E-10"},{"v":4.9236005772357e-06,"d":"4.9E-06"},{"v":263.924433651225,"d":"263.9"},{"v":566.03538405657,"d":"566.0"},{"v":8.77759535047932,"d":"8.8"},{"v":3.73168369675131,"d":"3.7"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"}]
["GAAGGTCCCCCAGGGGT","AK131287","Intergenic transcript, or possibly a very long CACNG8 3'-UTR extension. Might be a host transcript for mir-935.","No","None",{"v":-4.65160367014462,"d":"-4.65"},{"v":1.56620580947201e-05,"d":"1.6E-05"},{"v":0.013924322177526,"d":"1.4E-02"},{"v":33.9862449772201,"d":"34.0"},{"v":27.6660754655179,"d":"27.7"},{"v":4.47129387214266,"d":"4.5"},{"v":2.42251842718335,"d":"2.4"},{"v":354.002513833423,"d":"354.0"},{"v":224.050313129691,"d":"224.1"}]
["GAATACAGATTAATCCT","BG201257","Transcript from gene desert around KCNF1.","Yes","None","Inf",{"v":7.28585560929644e-06,"d":"7.3E-06"},{"v":0.00751567738919526,"d":"7.5E-03"},{"v":12.481404099418,"d":"12.5"},{"v":126.054701458783,"d":"126.1"},{"v":0,"d":"0.0"},{"v":50.2809492071317,"d":"50.3"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"}]
["ATCATCACGTGAGAGAT","AK126832","Transcript from gene desert upstream of SIX3. Correlated with SIX3 expression.","Yes",17084678,"-Inf",{"v":6.92374719199011e-08,"d":"6.9E-08"},{"v":0.000175196250207713,"d":"1.8E-04"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"},{"v":162.106051014641,"d":"162.1"},{"v":173.233563860899,"d":"173.2"}]
["TATAATAATAATGCTTA","GD259214","Transcript from gene desert downstream of SIX3. Correlated with SIX3 expression.","Yes",17084678,"-Inf",{"v":4.17036765474382e-07,"d":"4.2E-07"},{"v":0.000717819683308066,"d":"7.2E-04"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"},{"v":123.703626462336,"d":"123.7"},{"v":142.298779400857,"d":"142.3"}]
["GAGAGTGAATGTTTAAA","CR623536","Transcript from gene desert downstream of SIX3. Correlated with SIX3 expression.","Yes",17084678,"-Inf",{"v":1.26527478983542e-05,"d":"1.3E-05"},{"v":0.0118166686862822,"d":"1.2E-02"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"},{"v":44.2565459071274,"d":"44.3"},{"v":125.725183369206,"d":"125.7"}]
["TACACAATAAATATTTA","BG166405","Transcript from gene desert near DCBLD2.","Yes","None",{"v":6.14167135500947,"d":"6.14"},{"v":1.31630664275497e-06,"d":"1.3E-06"},{"v":0.0018556977643216,"d":"1.9E-03"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"},{"v":103.517662590354,"d":"103.5"},{"v":225.20943683667,"d":"225.2"},{"v":0,"d":"0.0"},{"v":3.07278833786257,"d":"3.1"}]
["ATAATAAAAGTATTTTT","AA993778","Transcript from gene desert near IRX2. Correlated with IRX2 expression.","Yes","None","-Inf",{"v":2.8928226893374e-05,"d":"2.9E-05"},{"v":0.022361066204867,"d":"2.2E-02"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"},{"v":80.4281959315814,"d":"80.4"},{"v":35.2028874613329,"d":"35.2"}]
["TTTTTCATCAAGAGGAA","DB349183","Transcript downstream of HLA-F, on opposite strand. Overlaps an antisense transcript to HLA-F (NR_026972).","No","(1688605)","Inf",{"v":0.00012453326500633,"d":"1.2E-04"},{"v":0.06917156980285,"d":"6.9E-02"},{"v":4.1595436900971,"d":"4.2"},{"v":6.10730142726664,"d":"6.1"},{"v":73.4287888260104,"d":"73.4"},{"v":27.5885011219614,"d":"27.6"},{"v":0,"d":"0.0"},{"v":0,"d":"0.0"}]