TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv1362c/-:

update plot	correlation	link to info on gene
Rv0088/-	(cc=0.5806)	info on Rv0088/-
Rv0844c/narL	(cc=0.5668)	info on Rv0844c/narL
Rv3407/vapB47	(cc=0.5364)	info on Rv3407/vapB47
Rv3628/ppa	(cc=0.5282)	info on Rv3628/ppa
Rv2330c/lppP	(cc=0.4974)	info on Rv2330c/lppP
Rv0198c/zmp1	(cc=0.4929)	info on Rv0198c/zmp1
Rv1021/-	(cc=0.4904)	info on Rv1021/-
Rv3429/PPE59	(cc=0.488)	info on Rv3429/PPE59
Rv0814c/sseC2	(cc=0.4811)	info on Rv0814c/sseC2
Rv1785c/cyp143	(cc=0.4683)	info on Rv1785c/cyp143

Correlation of Rv1362c/- with Rv0088/-

Normalized LFCs for Rv1362c/-:
(description and provenance of datasets)

	Rv1362c/-	Rv0088/-
Fe_supp_jason_reseq	0.167	-0.898
low_pH_jason_reseq	-0.726	1.047
NO_jason_reseq	0.142	0.315
B6_jason_reseq	-0.81	-0.739
MHCII_jason_reseq	-0.066	0.06
Isoniazid02	0.162	-0.319
Rifampicin4	-0.141	0.295
Ethambutol3	1.469	0.347
Meropenem3	-0.062	0.407
Vancomycin16	0.164	0.289
Rv2680_day32	0.58	0.593
H37Rv_KO_MarP	0.244	0.0
hypoxia_3wks	0.486	0.371
hypoxia_6wks	0.528	0.0
glycerol	0.426	0.0
cholesterol	0.353	0.585
AJ	0.602	0.845
Bibs02	0.126	-0.109
Bibs02c	0.559	-0.887
BL6	0.992	0.601
BL6a	0.65	1.435
BXD01	0.658	0.475
BXD010	0.966	0.238
BXD011	1.5	1.112
BXD03	0.587	1.264
BXD04	0.176	1.213
BXD05	0.411	1.304
BXD06	0.542	1.339
BXD07	0.233	1.243
BXD08	0.514	0.842
BXD09	0.296	1.394
CAST	-0.023	-0.21
CCcont	0.726	1.187
DS01	-0.85	-0.291
DS02	-0.751	-0.922
DS04	0.472	-0.51
DS0c	-0.184	0.063
GP01	0.192	-1.051
GP02	0.739	-0.102
GP0c	-0.026	0.474
NOD	-0.841	-0.351
NZO	0.387	0.767
PWK	0.445	0.632
H37Rv_KO_CtpC	0.368	-1.865
H37Rv_KO_CtpD	0.993	0.899
H37Rv_KO_Rv1272	1.098	1.903
H37Rv_KO_SugABC	0.99	1.099
H37Rv_KO_MbtN	-0.582	-1.097
Trans05	0.732	0.928
macrophage_unactivated	0.338	0.66
IL1	0.866	1.124
Rapamycin	0.193	0.144
Tcell	-0.186	-0.052
GMCSF	0.502	-0.217
IFNab	0.296	0.834
IFNg	-0.203	-0.131
IFNg_GMCSF1	0.415	-0.368
Rv1432_day32	-1.027	0.0
Rv1565c_day32	0.352	-0.725
secA2_input	-0.041	-0.939
delta_Rv3594	-0.858	-0.566
delta_Rv3717	-1.19	-1.033
delta_Rv3811	-0.483	-0.449
delta_Rv0954	-0.647	-0.941
PonA1	-0.822	-1.708
EccD1_KO	-0.303	0.635
EspI_KO	-0.103	0.0
PE35_KO	0.694	0.817
PPE68_KO	0.538	1.945
glycerol2	0.918	1.274
lignocerate	0.838	0.418
oleate	0.753	0.601
phosphatidylcholine	0.881	0.594
acetate	0.866	0.748
glucAc	0.842	0.172
Rv0950ko	-0.169	-1.879
Rv1096ko	-1.071	-1.33
Rv3684ko	-1.706	-0.91
delta_otsA_trehalose	-0.163	0.152