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 Rv1944c/-:

update plot	correlation	link to info on gene
Rv3410c/guaB3	(cc=0.6104)	info on Rv3410c/guaB3
Rv1215c/-	(cc=0.525)	info on Rv1215c/-
Rv1962A/vapB35	(cc=0.504)	info on Rv1962A/vapB35
Rv1697/-	(cc=0.5007)	info on Rv1697/-
Rv1785c/cyp143	(cc=0.4725)	info on Rv1785c/cyp143
Rv1552/frdA	(cc=0.4636)	info on Rv1552/frdA
Rv0988/-	(cc=0.4541)	info on Rv0988/-
Rv0013/trpG	(cc=0.4481)	info on Rv0013/trpG
Rv3665c/dppB	(cc=0.4409)	info on Rv3665c/dppB
Rv2677c/hemY	(cc=0.4353)	info on Rv2677c/hemY

Correlation of Rv1944c/- with Rv1215c/-

Normalized LFCs for Rv1944c/-:
(description and provenance of datasets)

	Rv1944c/-	Rv1215c/-
Fe_supp_jason_reseq	-0.614	-0.272
low_pH_jason_reseq	2.561	0.11
NO_jason_reseq	-0.788	0.339
B6_jason_reseq	-0.807	-0.613
MHCII_jason_reseq	-1.64	-1.388
Isoniazid02	3.462	0.755
Rifampicin4	0.173	0.441
Ethambutol3	3.199	2.03
Meropenem3	0.097	0.919
Vancomycin16	0.17	0.276
Rv2680_day32	-0.039	0.171
H37Rv_KO_MarP	0.49	0.334
hypoxia_3wks	-0.522	0.622
hypoxia_6wks	0.0	0.0
glycerol	-0.614	-0.127
cholesterol	0.946	0.069
AJ	-0.97	0.536
Bibs02	0.413	-0.399
Bibs02c	-0.67	-0.488
BL6	0.477	0.418
BL6a	0.044	0.141
BXD01	0.734	0.339
BXD010	0.605	0.527
BXD011	0.323	1.165
BXD03	0.133	0.172
BXD04	-0.627	0.158
BXD05	1.216	0.27
BXD06	0.314	0.515
BXD07	0.549	0.25
BXD08	0.925	0.743
BXD09	0.196	0.53
CAST	0.367	0.509
CCcont	0.694	0.054
DS01	0.282	0.058
DS02	0.532	0.323
DS04	0.252	0.093
DS0c	1.279	0.079
GP01	0.843	0.529
GP02	2.041	1.583
GP0c	1.277	0.077
NOD	0.944	-0.172
NZO	-0.517	0.98
PWK	1.269	0.117
H37Rv_KO_CtpC	1.205	0.721
H37Rv_KO_CtpD	0.344	0.5
H37Rv_KO_Rv1272	1.093	0.837
H37Rv_KO_SugABC	0.768	-0.024
H37Rv_KO_MbtN	0.08	0.297
Trans05	-0.126	0.601
macrophage_unactivated	0.9	-0.186
IL1	-0.89	-0.264
Rapamycin	-0.387	-0.181
Tcell	1.388	0.14
GMCSF	-0.42	-0.037
IFNab	0.514	0.088
IFNg	-0.249	-0.238
IFNg_GMCSF1	0.273	-0.632
Rv1432_day32	1.073	1.285
Rv1565c_day32	0.444	0.092
secA2_input	0.402	-0.604
delta_Rv3594	-0.26	-0.194
delta_Rv3717	0.191	-0.932
delta_Rv3811	-0.327	-0.598
delta_Rv0954	0.213	-0.872
PonA1	0.454	-0.016
EccD1_KO	0.342	0.457
EspI_KO	0.328	0.311
PE35_KO	0.732	0.405
PPE68_KO	-0.038	0.253
glycerol2	0.548	-0.031
lignocerate	0.258	-0.054
oleate	0.525	0.593
phosphatidylcholine	0.978	0.539
acetate	-0.279	-0.409
glucAc	-0.194	-0.644
Rv0950ko	-1.933	-0.347
Rv1096ko	-0.799	0.042
Rv3684ko	-2.512	-0.331
delta_otsA_trehalose	-1.08	-0.673