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 Rv3365c/-:

update plot	correlation	link to info on gene
Rv0385/-	(cc=0.6551)	info on Rv0385/-
Rv3271c/-	(cc=0.5616)	info on Rv3271c/-
Rv3194c/-	(cc=0.5528)	info on Rv3194c/-
Rv2696c/-	(cc=0.5237)	info on Rv2696c/-
Rv0774c/-	(cc=0.5138)	info on Rv0774c/-
Rv3191c/-	(cc=0.5124)	info on Rv3191c/-
Rv2352c/PPE38	(cc=0.5117)	info on Rv2352c/PPE38
Rv3156/nuoL	(cc=0.4913)	info on Rv3156/nuoL
Rv0301/vapC2	(cc=0.4892)	info on Rv0301/vapC2
Rv0104/-	(cc=0.4804)	info on Rv0104/-

Correlation of Rv3365c/- with Rv3156/nuoL

Normalized LFCs for Rv3365c/-:
(description and provenance of datasets)

	Rv3365c/-	Rv3156/nuoL
Fe_supp_jason_reseq	-0.106	-0.41
low_pH_jason_reseq	-1.225	-1.186
NO_jason_reseq	-0.656	0.0
B6_jason_reseq	0.089	-0.787
MHCII_jason_reseq	-0.529	-0.544
Isoniazid02	-1.793	-1.825
Rifampicin4	-0.341	1.021
Ethambutol3	-1.694	-0.621
Meropenem3	-0.516	-0.673
Vancomycin16	-0.114	-0.223
Rv2680_day32	0.184	-0.524
H37Rv_KO_MarP	-1.158	-0.387
hypoxia_3wks	-0.61	1.3
hypoxia_6wks	-0.038	0.205
glycerol	-0.647	-0.234
cholesterol	-0.054	-0.898
AJ	0.0	-0.269
Bibs02	-0.24	0.873
Bibs02c	0.203	1.105
BL6	0.24	1.47
BL6a	0.27	1.808
BXD01	0.326	1.047
BXD010	0.149	1.308
BXD011	-0.009	1.707
BXD03	0.4	1.502
BXD04	0.184	0.693
BXD05	0.183	1.772
BXD06	0.256	1.533
BXD07	0.171	1.371
BXD08	0.181	1.052
BXD09	0.209	1.346
CAST	-0.174	0.123
CCcont	0.155	0.861
DS01	0.068	1.169
DS02	0.769	1.453
DS04	0.859	1.703
DS0c	0.481	1.285
GP01	0.523	1.605
GP02	1.221	1.171
GP0c	0.135	1.551
NOD	0.277	0.867
NZO	-0.214	-0.055
PWK	0.352	-0.29
H37Rv_KO_CtpC	0.058	1.177
H37Rv_KO_CtpD	0.875	2.074
H37Rv_KO_Rv1272	0.362	1.498
H37Rv_KO_SugABC	0.654	2.384
H37Rv_KO_MbtN	0.401	0.829
Trans05	0.908	1.208
macrophage_unactivated	0.615	-0.316
IL1	0.418	0.0
Rapamycin	0.285	-0.15
Tcell	0.055	-0.267
GMCSF	0.222	-0.309
IFNab	1.267	0.097
IFNg	0.738	0.126
IFNg_GMCSF1	0.49	-0.314
Rv1432_day32	0.471	0.134
Rv1565c_day32	-0.649	-0.038
secA2_input	-0.21	-0.565
delta_Rv3594	0.014	0.087
delta_Rv3717	0.177	0.269
delta_Rv3811	-0.217	-0.149
delta_Rv0954	-0.226	0.211
PonA1	0.335	0.044
EccD1_KO	-0.059	-1.02
EspI_KO	-0.402	-0.884
PE35_KO	-0.773	-0.33
PPE68_KO	-0.419	-0.118
glycerol2	0.573	1.914
lignocerate	0.302	-0.852
oleate	-0.132	2.375
phosphatidylcholine	-0.623	-0.744
acetate	1.385	0.572
glucAc	0.873	0.163
Rv0950ko	-0.072	0.422
Rv1096ko	1.179	0.636
Rv3684ko	1.009	0.537
delta_otsA_trehalose	0.304	1.21