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 Rv2345/-:

update plot	correlation	link to info on gene
Rv1947/-	(cc=0.6789)	info on Rv1947/-
Rv1000c/-	(cc=0.6093)	info on Rv1000c/-
Rv1899c/lppD	(cc=0.6084)	info on Rv1899c/lppD
Rv1175c/fadH	(cc=0.5897)	info on Rv1175c/fadH
Rv2313c/-	(cc=0.5727)	info on Rv2313c/-
Rv2658c/-	(cc=0.5726)	info on Rv2658c/-
Rv0399c/lpqK	(cc=0.5689)	info on Rv0399c/lpqK
Rv2947c/pks15	(cc=0.5434)	info on Rv2947c/pks15
Rv2639c/-	(cc=0.541)	info on Rv2639c/-
Rv1857/modA	(cc=0.5206)	info on Rv1857/modA

Correlation of Rv2345/- with Rv0399c/lpqK

Normalized LFCs for Rv2345/-:
(description and provenance of datasets)

	Rv2345/-	Rv0399c/lpqK
Fe_supp_jason_reseq	-0.019	0.215
low_pH_jason_reseq	-0.962	0.087
NO_jason_reseq	-0.053	0.522
B6_jason_reseq	-0.063	0.114
MHCII_jason_reseq	0.065	0.21
Isoniazid02	-1.199	-3.51
Rifampicin4	0.509	0.764
Ethambutol3	-1.019	-2.908
Meropenem3	-1.409	-2.207
Vancomycin16	-0.655	-1.08
Rv2680_day32	-0.466	-0.648
H37Rv_KO_MarP	-0.02	-0.277
hypoxia_3wks	0.032	0.375
hypoxia_6wks	0.257	1.054
glycerol	0.192	0.107
cholesterol	-0.086	0.349
AJ	0.0	0.153
Bibs02	-0.278	-0.076
Bibs02c	-0.205	1.291
BL6	0.138	-0.052
BL6a	0.118	0.936
BXD01	0.14	0.069
BXD010	0.141	0.39
BXD011	-0.262	-0.185
BXD03	-0.04	0.695
BXD04	0.291	0.244
BXD05	0.374	0.488
BXD06	0.147	0.018
BXD07	0.238	0.091
BXD08	0.434	0.444
BXD09	0.199	0.0
CAST	-0.225	0.062
CCcont	0.024	-0.127
DS01	0.0	0.544
DS02	-0.498	-0.121
DS04	-0.142	0.966
DS0c	-0.057	0.523
GP01	0.277	-0.144
GP02	0.072	-0.527
GP0c	0.147	0.018
NOD	0.265	1.193
NZO	-0.237	-0.027
PWK	-0.058	0.129
H37Rv_KO_CtpC	0.373	0.086
H37Rv_KO_CtpD	0.605	1.419
H37Rv_KO_Rv1272	0.291	-0.079
H37Rv_KO_SugABC	0.767	0.683
H37Rv_KO_MbtN	0.628	0.215
Trans05	0.501	0.052
macrophage_unactivated	-0.114	-0.363
IL1	0.338	-0.78
Rapamycin	0.473	0.381
Tcell	0.039	0.176
GMCSF	0.599	0.327
IFNab	0.311	-0.662
IFNg	0.216	-0.051
IFNg_GMCSF1	0.182	0.443
Rv1432_day32	0.194	0.082
Rv1565c_day32	0.175	0.269
secA2_input	0.233	0.312
delta_Rv3594	0.271	0.057
delta_Rv3717	0.055	0.115
delta_Rv3811	0.352	-0.028
delta_Rv0954	0.371	-0.96
PonA1	-0.321	-0.112
EccD1_KO	0.704	0.161
EspI_KO	0.767	0.274
PE35_KO	0.429	0.236
PPE68_KO	0.176	0.259
glycerol2	0.277	0.238
lignocerate	0.284	0.524
oleate	0.702	0.631
phosphatidylcholine	0.153	0.496
acetate	-0.462	0.535
glucAc	-0.232	0.349
Rv0950ko	0.434	0.048
Rv1096ko	-0.567	0.745
Rv3684ko	-0.54	-0.321
delta_otsA_trehalose	0.582	0.178