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 Rv1322/-:

update plot	correlation	link to info on gene
Rv2793c/truB	(cc=0.4631)	info on Rv2793c/truB
Rv0336/-	(cc=0.4551)	info on Rv0336/-
Rv0830/-	(cc=0.4531)	info on Rv0830/-
Rv0814c/sseC2	(cc=0.4518)	info on Rv0814c/sseC2
Rv2118c/-	(cc=0.4506)	info on Rv2118c/-
Rv1215c/-	(cc=0.4443)	info on Rv1215c/-
Rv0563/htpX	(cc=0.4311)	info on Rv0563/htpX
Rv3098c/-	(cc=0.426)	info on Rv3098c/-
Rv2195/qcrA	(cc=0.4244)	info on Rv2195/qcrA
Rv0833/PE_PGRS13	(cc=0.4135)	info on Rv0833/PE_PGRS13

Correlation of Rv1322/- with Rv3098c/-

Normalized LFCs for Rv1322/-:
(description and provenance of datasets)

	Rv1322/-	Rv3098c/-
Fe_supp_jason_reseq	-0.049	0.096
low_pH_jason_reseq	1.201	0.069
NO_jason_reseq	0.827	-1.591
B6_jason_reseq	-0.064	-0.743
MHCII_jason_reseq	-0.895	-1.732
Isoniazid02	-1.106	-1.678
Rifampicin4	-0.333	-0.046
Ethambutol3	0.071	-0.924
Meropenem3	0.913	2.072
Vancomycin16	0.751	-0.69
Rv2680_day32	-1.054	-0.816
H37Rv_KO_MarP	-0.11	0.066
hypoxia_3wks	0.77	0.463
hypoxia_6wks	0.365	0.574
glycerol	-1.3	0.821
cholesterol	0.116	0.0
AJ	0.77	0.545
Bibs02	1.652	0.807
Bibs02c	0.787	1.034
BL6	1.305	0.159
BL6a	0.627	0.794
BXD01	0.471	0.192
BXD010	0.425	-0.739
BXD011	-0.33	0.58
BXD03	-0.388	0.079
BXD04	-0.053	0.116
BXD05	1.101	0.561
BXD06	0.597	0.143
BXD07	-0.488	-0.365
BXD08	1.778	0.533
BXD09	0.131	0.372
CAST	2.676	-0.455
CCcont	-0.248	-0.75
DS01	0.436	-0.222
DS02	1.679	0.484
DS04	0.156	-0.152
DS0c	-0.256	-1.339
GP01	1.34	0.406
GP02	1.875	-0.872
GP0c	1.32	-0.257
NOD	0.675	1.253
NZO	0.9	0.074
PWK	1.421	0.705
H37Rv_KO_CtpC	2.814	0.42
H37Rv_KO_CtpD	-1.258	0.667
H37Rv_KO_Rv1272	1.315	-0.156
H37Rv_KO_SugABC	-0.704	0.461
H37Rv_KO_MbtN	-0.405	0.308
Trans05	1.981	2.1
macrophage_unactivated	-1.25	-0.808
IL1	-0.175	-0.169
Rapamycin	-0.773	-1.307
Tcell	0.57	-0.3
GMCSF	0.401	0.145
IFNab	-0.738	-1.333
IFNg	0.422	-0.906
IFNg_GMCSF1	0.424	-0.179
Rv1432_day32	0.859	0.0
Rv1565c_day32	-0.618	0.881
secA2_input	-0.759	-0.49
delta_Rv3594	-2.354	-0.844
delta_Rv3717	-2.318	-0.808
delta_Rv3811	-1.679	-1.151
delta_Rv0954	-1.553	-0.368
PonA1	0.394	-0.663
EccD1_KO	0.868	0.934
EspI_KO	0.208	0.559
PE35_KO	-0.099	0.481
PPE68_KO	0.208	0.816
glycerol2	-0.247	0.165
lignocerate	-0.241	-0.447
oleate	0.829	0.802
phosphatidylcholine	0.573	-0.112
acetate	0.063	-0.944
glucAc	-0.779	-0.75
Rv0950ko	1.71	0.754
Rv1096ko	0.157	-0.124
Rv3684ko	0.242	-0.033
delta_otsA_trehalose	-0.667	-1.226