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 Rv3351c/-:

update plot	correlation	link to info on gene
Rv0072/-	(cc=0.4804)	info on Rv0072/-
Rv0305c/PPE6	(cc=0.4753)	info on Rv0305c/PPE6
Rv2665/-	(cc=0.4546)	info on Rv2665/-
Rv1948c/-	(cc=0.4485)	info on Rv1948c/-
Rv3440c/-	(cc=0.4421)	info on Rv3440c/-
Rv1145/mmpL13a	(cc=0.4416)	info on Rv1145/mmpL13a
Rv0832/PE_PGRS12	(cc=0.4345)	info on Rv0832/PE_PGRS12
Rv0194/-	(cc=0.4315)	info on Rv0194/-
Rv0138/-	(cc=0.431)	info on Rv0138/-
Rv2436/rbsK	(cc=0.4277)	info on Rv2436/rbsK

Correlation of Rv3351c/- with Rv0072/-

Normalized LFCs for Rv3351c/-:
(description and provenance of datasets)

	Rv3351c/-	Rv0072/-
Fe_supp_jason_reseq	-0.014	-0.362
low_pH_jason_reseq	-0.36	-0.049
NO_jason_reseq	-0.108	0.0
B6_jason_reseq	-0.684	-0.064
MHCII_jason_reseq	0.108	-0.69
Isoniazid02	-0.282	-1.484
Rifampicin4	-0.366	0.225
Ethambutol3	0.435	1.0
Meropenem3	0.28	0.265
Vancomycin16	-0.316	-1.013
Rv2680_day32	0.504	-0.869
H37Rv_KO_MarP	0.296	0.49
hypoxia_3wks	0.187	-0.546
hypoxia_6wks	0.263	-0.194
glycerol	0.17	-0.279
cholesterol	0.084	0.012
AJ	0.588	0.24
Bibs02	0.295	0.84
Bibs02c	0.717	0.791
BL6	0.165	0.855
BL6a	0.283	0.816
BXD01	0.175	0.493
BXD010	-0.481	0.642
BXD011	-0.239	0.508
BXD03	0.167	0.366
BXD04	-0.105	0.45
BXD05	0.408	0.87
BXD06	0.15	0.744
BXD07	0.112	0.723
BXD08	0.673	0.582
BXD09	-0.009	0.086
CAST	0.207	0.47
CCcont	0.125	0.543
DS01	0.144	1.047
DS02	0.63	-0.112
DS04	0.63	1.737
DS0c	0.848	0.559
GP01	-0.262	0.569
GP02	0.262	0.645
GP0c	-0.273	0.418
NOD	-0.145	0.111
NZO	0.173	-0.354
PWK	0.078	0.539
H37Rv_KO_CtpC	0.318	0.552
H37Rv_KO_CtpD	1.464	1.424
H37Rv_KO_Rv1272	0.539	1.122
H37Rv_KO_SugABC	0.413	0.979
H37Rv_KO_MbtN	0.243	0.703
Trans05	0.063	1.394
macrophage_unactivated	0.038	0.114
IL1	-0.24	0.119
Rapamycin	-0.181	-0.043
Tcell	0.147	0.489
GMCSF	0.293	-0.388
IFNab	0.426	0.16
IFNg	0.088	0.246
IFNg_GMCSF1	0.167	-0.145
Rv1432_day32	0.445	0.263
Rv1565c_day32	0.028	0.896
secA2_input	-0.319	-0.762
delta_Rv3594	0.314	-0.174
delta_Rv3717	0.033	-0.366
delta_Rv3811	0.226	-0.277
delta_Rv0954	-0.277	-0.674
PonA1	0.035	0.005
EccD1_KO	-0.283	-0.391
EspI_KO	0.108	-0.094
PE35_KO	-0.055	-0.335
PPE68_KO	0.035	-0.259
glycerol2	0.391	1.003
lignocerate	0.431	1.056
oleate	0.449	1.041
phosphatidylcholine	0.286	0.473
acetate	-0.086	0.336
glucAc	-0.171	0.188
Rv0950ko	0.25	0.078
Rv1096ko	-0.347	-0.181
Rv3684ko	0.0	-0.468
delta_otsA_trehalose	-0.698	-0.703