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 Rv2947c/pks15

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

	Rv2345/-	Rv2947c/pks15
Fe_supp_jason_reseq	-0.019	-0.232
low_pH_jason_reseq	-0.962	-0.918
NO_jason_reseq	-0.053	-0.263
B6_jason_reseq	-0.063	-0.674
MHCII_jason_reseq	0.065	-0.437
Isoniazid02	-1.199	-1.55
Rifampicin4	0.509	0.222
Ethambutol3	-1.019	-0.967
Meropenem3	-1.409	-0.809
Vancomycin16	-0.655	-0.634
Rv2680_day32	-0.466	-0.55
H37Rv_KO_MarP	-0.02	-0.322
hypoxia_3wks	0.032	1.009
hypoxia_6wks	0.257	0.514
glycerol	0.192	0.14
cholesterol	-0.086	-0.031
AJ	0.0	-0.44
Bibs02	-0.278	0.465
Bibs02c	-0.205	0.103
BL6	0.138	0.852
BL6a	0.118	0.267
BXD01	0.14	0.546
BXD010	0.141	0.287
BXD011	-0.262	0.25
BXD03	-0.04	0.48
BXD04	0.291	0.708
BXD05	0.374	0.351
BXD06	0.147	0.494
BXD07	0.238	-0.054
BXD08	0.434	0.539
BXD09	0.199	-0.061
CAST	-0.225	-0.14
CCcont	0.024	0.293
DS01	0.0	0.192
DS02	-0.498	-0.038
DS04	-0.142	0.842
DS0c	-0.057	0.126
GP01	0.277	0.584
GP02	0.072	0.151
GP0c	0.147	-0.006
NOD	0.265	-0.293
NZO	-0.237	-0.368
PWK	-0.058	0.342
H37Rv_KO_CtpC	0.373	1.048
H37Rv_KO_CtpD	0.605	-0.017
H37Rv_KO_Rv1272	0.291	0.966
H37Rv_KO_SugABC	0.767	0.609
H37Rv_KO_MbtN	0.628	0.417
Trans05	0.501	0.552
macrophage_unactivated	-0.114	0.505
IL1	0.338	0.113
Rapamycin	0.473	-0.709
Tcell	0.039	0.411
GMCSF	0.599	0.238
IFNab	0.311	0.115
IFNg	0.216	-0.075
IFNg_GMCSF1	0.182	0.886
Rv1432_day32	0.194	-0.512
Rv1565c_day32	0.175	-1.281
secA2_input	0.233	-0.013
delta_Rv3594	0.271	0.488
delta_Rv3717	0.055	0.313
delta_Rv3811	0.352	0.474
delta_Rv0954	0.371	-0.217
PonA1	-0.321	0.287
EccD1_KO	0.704	0.289
EspI_KO	0.767	0.251
PE35_KO	0.429	0.846
PPE68_KO	0.176	1.008
glycerol2	0.277	0.238
lignocerate	0.284	-0.158
oleate	0.702	0.241
phosphatidylcholine	0.153	0.262
acetate	-0.462	-0.545
glucAc	-0.232	-0.258
Rv0950ko	0.434	-0.069
Rv1096ko	-0.567	0.054
Rv3684ko	-0.54	-0.766
delta_otsA_trehalose	0.582	0.244